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Conserved domains on  [gi|489826381|ref|WP_003730152|]
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two component system response regulator PieR [Listeria monocytogenes]

Protein Classification

response regulator transcription factor( domain architecture ID 11433066)

OmpR family response regulator transcription factor with a signal receiver (REC) domain and a helix-turn-helix (HTH) DNA-binding domain that may be part of a two-component regulatory system

CATH:  3.40.50.2300
Gene Ontology:  GO:0006355|GO:0003677|GO:0000160|GO:0000156
PubMed:  11226872|10966457|31100988
SCOP:  4003632

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
resp_regPieR super family cl49271
two component system response regulator PieR;
1-228 6.70e-161

two component system response regulator PieR;


The actual alignment was detected with superfamily member NF041209:

Pssm-ID: 469113 [Multi-domain]  Cd Length: 231  Bit Score: 444.03  E-value: 6.70e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAK 80
Cdd:NF041209   1 MKLLMIEDNESVTQMMELFFLKEQIDATFVHDGKMGYERFLKEDFDLLIIDLMLPSMDGMTICRKVREVSDVPIIILTAK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENN---EDILETTYFKISKRTREIFYQGELLDALTP 157
Cdd:NF041209  81 ESESDQVLGLDMGADDYVTKPFSPLALIARIKAVSRRKNSASDDTENnedTHILETTYFKISKRTREIFYQDEPLEALTP 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489826381 158 KEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKPFLHTVWGVGYKFDETE 228
Cdd:NF041209 161 KEFDLLYFLMEHPRQVFSREQLLERVWGYQFYGDERTVDVHIKRLRKKIATEEHLFLHTIWGVGYKFDETE 231
 
Name Accession Description Interval E-value
resp_regPieR NF041209
two component system response regulator PieR;
1-228 6.70e-161

two component system response regulator PieR;


Pssm-ID: 469113 [Multi-domain]  Cd Length: 231  Bit Score: 444.03  E-value: 6.70e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAK 80
Cdd:NF041209   1 MKLLMIEDNESVTQMMELFFLKEQIDATFVHDGKMGYERFLKEDFDLLIIDLMLPSMDGMTICRKVREVSDVPIIILTAK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENN---EDILETTYFKISKRTREIFYQGELLDALTP 157
Cdd:NF041209  81 ESESDQVLGLDMGADDYVTKPFSPLALIARIKAVSRRKNSASDDTENnedTHILETTYFKISKRTREIFYQDEPLEALTP 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489826381 158 KEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKPFLHTVWGVGYKFDETE 228
Cdd:NF041209 161 KEFDLLYFLMEHPRQVFSREQLLERVWGYQFYGDERTVDVHIKRLRKKIATEEHLFLHTIWGVGYKFDETE 231
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-216 6.27e-78

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 232.92  E-value: 6.27e-78
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTA 79
Cdd:COG0745    2 PRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARpSDIPIIMLTA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknSASPAENNEDILETtyfkiskRTREIFYQGELLDaLTPKE 159
Cdd:COG0745   82 RDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRR--RAAEVLRVGDLLDL-------AAREVTRDGEPVE-LTPKE 151

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381 160 FDLLYFLMQHPRQVFSREQLLEQVWGYQfYGDERTVDVHIKRLRQKIAtetKPFLHT 216
Cdd:COG0745  152 FRLLELLMRNPGRVVSREQLLEEVWGYD-YGDDRTVDVHISRLRKKLE---DDLIET 204
MtrAB_MtrA NF040689
MtrAB system response regulator MtrA;
4-223 1.33e-77

MtrAB system response regulator MtrA;


Pssm-ID: 468653 [Multi-domain]  Cd Length: 219  Bit Score: 232.45  E-value: 1.33e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESE 83
Cdd:NF040689   2 LVVDDDPALAEMLGIVLRAEGFETVFCADGAEAVEAFREVRPDLVLLDLMLPGMDGIEVCRQIRAESGVPIIMLTAKSDT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  84 SDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPaenneDILETTYFKISKRTREIFYQGELLdALTPKEFDLL 163
Cdd:NF040689  82 VDVVRGLEAGADDYVVKPFKPKELVARIRARLRRSEDEES-----EVLRIGDLTIDVAGHEVTRGGEEI-PLTPLEFDLL 155

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381 164 YFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIatETKP----FLHTVWGVGYK 223
Cdd:NF040689 156 VALARKPGQVFSREELLEQVWGYRHAADTRLVNVHVQRLRAKI--ERDPenpeIVVTVRGVGYK 217
PhoB TIGR02154
phosphate regulon transcriptional regulatory protein PhoB; PhoB is a DNA-binding response ...
 2-225 1.93e-69

phosphate regulon transcriptional regulatory protein PhoB; PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well. [Regulatory functions, DNA interactions, Signal transduction, Two-component systems]


Pssm-ID: 131209 [Multi-domain]  Cd Length: 226  Bit Score: 212.19  E-value: 1.93e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381    2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILT 78
Cdd:TIGR02154   4 RILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINERGPDLILLDWMLPGTSGIELCRRLRrrpETRAIPIIMLT 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   79 AKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknsASPaENNEDILETTYFKISKRTREIFYQGELLDaLTPK 158
Cdd:TIGR02154  84 ARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRR---IRP-QLSDEVIEVGDLSLDPVAHRVFRGGQPLS-LGPT 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489826381  159 EFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKP-FLHTVWGVGYKFD 225
Cdd:TIGR02154 159 EFRLLHFFMTHPERVYSREQLLDRVWGRDVYVEERTVDVHIRRLRKALNPFGLEdPVQTVRGAGYRFS 226
resp_reg_YycF NF040534
response regulator YycF;
2-222 1.77e-63

response regulator YycF;


Pssm-ID: 439744 [Multi-domain]  Cd Length: 231  Bit Score: 197.25  E-value: 1.77e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:NF040534   2 KILVVDDEKPIADILEFNLKKEGYEVFCAYDGNEALELVEEEVPDLVLLDIMLPGRDGMEVCREVRKKYDMPIIMLTAKD 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDILETTY---------FKISKRTREIfyqgell 152
Cdd:NF040534  82 SEIDKVLGLELGADDYVTKPFSTRELIARVKANLRRHQQQNTEEEEEENNEIVIgsltihpdaYTVKKRGETI------- 154

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381 153 dALTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIatETKP----FLHTVWGVGY 222
Cdd:NF040534 155 -ELTHREFELLHYLAKHIGQVMTREHLLQTVWGYDYFGDVRTVDVTVRRLREKI--EDNPshpeWIVTRRGVGY 225
ompR PRK09468
osmolarity response regulator; Provisional
 2-224 2.22e-61

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 192.11  E-value: 2.22e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSD-VPIIILTAK 80
Cdd:PRK09468   7 KILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNNpTPIIMLTAK 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNS---ASPAENNEdILETTYFKISKRTREIFYQGELLdALTP 157
Cdd:PRK09468  87 GEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQAPelpGAPSQEEE-VIAFGKFKLNLGTRELFRGDEPM-PLTT 164

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489826381 158 KEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATE-TKP-FLHTVWGVGYKF 224
Cdd:PRK09468 165 GEFAVLKALVSHPREPLSRDKLMNLARGREYSAMERSIDVQISRLRRLIEEDpAHPrYIQTVWGLGYVF 233
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 4-101 1.32e-43

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 141.78  E-value: 1.32e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTAKES 82
Cdd:cd17574    1 LVVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREkGSDIPIIMLTAKDE 80

                         90
                 ....*....|....*....
gi 489826381  83 ESDQVLGLEMGADDYVTKP 101
Cdd:cd17574   81 EEDKVLGLELGADDYITKP 99
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
154-224 8.49e-37

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 123.78  E-value: 8.49e-37
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489826381  154 ALTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKI--ATETKPFLHTVWGVGYKF 224
Cdd:pfam00486   5 ELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDNTVDVHISRLRKKLedDPRDPRLIKTVRGVGYRL 77
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 149-224 1.43e-34

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.


Pssm-ID: 214866 [Multi-domain]  Cd Length: 76  Bit Score: 118.04  E-value: 1.43e-34
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381   149 GELLDaLTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKP-FLHTVWGVGYKF 224
Cdd:smart00862   1 GEPIK-LTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDNTLDVHISRLRKKLEDDGDPrLIETVRGVGYRL 76
 
Name Accession Description Interval E-value
resp_regPieR NF041209
two component system response regulator PieR;
1-228 6.70e-161

two component system response regulator PieR;


Pssm-ID: 469113 [Multi-domain]  Cd Length: 231  Bit Score: 444.03  E-value: 6.70e-161
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAK 80
Cdd:NF041209   1 MKLLMIEDNESVTQMMELFFLKEQIDATFVHDGKMGYERFLKEDFDLLIIDLMLPSMDGMTICRKVREVSDVPIIILTAK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENN---EDILETTYFKISKRTREIFYQGELLDALTP 157
Cdd:NF041209  81 ESESDQVLGLDMGADDYVTKPFSPLALIARIKAVSRRKNSASDDTENnedTHILETTYFKISKRTREIFYQDEPLEALTP 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489826381 158 KEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKPFLHTVWGVGYKFDETE 228
Cdd:NF041209 161 KEFDLLYFLMEHPRQVFSREQLLERVWGYQFYGDERTVDVHIKRLRKKIATEEHLFLHTIWGVGYKFDETE 231
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 1-216 6.27e-78

DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 440508 [Multi-domain]  Cd Length: 204  Bit Score: 232.92  E-value: 6.27e-78
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTA 79
Cdd:COG0745    2 PRILVVEDDPDIRELLADALEREGYEVDTAADGEEALELLEEERPDLILLDLMLPGMDGLEVCRRLRARpSDIPIIMLTA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknSASPAENNEDILETtyfkiskRTREIFYQGELLDaLTPKE 159
Cdd:COG0745   82 RDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLRR--RAAEVLRVGDLLDL-------AAREVTRDGEPVE-LTPKE 151

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381 160 FDLLYFLMQHPRQVFSREQLLEQVWGYQfYGDERTVDVHIKRLRQKIAtetKPFLHT 216
Cdd:COG0745  152 FRLLELLMRNPGRVVSREQLLEEVWGYD-YGDDRTVDVHISRLRKKLE---DDLIET 204
MtrAB_MtrA NF040689
MtrAB system response regulator MtrA;
4-223 1.33e-77

MtrAB system response regulator MtrA;


Pssm-ID: 468653 [Multi-domain]  Cd Length: 219  Bit Score: 232.45  E-value: 1.33e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESE 83
Cdd:NF040689   2 LVVDDDPALAEMLGIVLRAEGFETVFCADGAEAVEAFREVRPDLVLLDLMLPGMDGIEVCRQIRAESGVPIIMLTAKSDT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  84 SDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPaenneDILETTYFKISKRTREIFYQGELLdALTPKEFDLL 163
Cdd:NF040689  82 VDVVRGLEAGADDYVVKPFKPKELVARIRARLRRSEDEES-----EVLRIGDLTIDVAGHEVTRGGEEI-PLTPLEFDLL 155

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381 164 YFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIatETKP----FLHTVWGVGYK 223
Cdd:NF040689 156 VALARKPGQVFSREELLEQVWGYRHAADTRLVNVHVQRLRAKI--ERDPenpeIVVTVRGVGYK 217
PhoB TIGR02154
phosphate regulon transcriptional regulatory protein PhoB; PhoB is a DNA-binding response ...
 2-225 1.93e-69

phosphate regulon transcriptional regulatory protein PhoB; PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well. [Regulatory functions, DNA interactions, Signal transduction, Two-component systems]


Pssm-ID: 131209 [Multi-domain]  Cd Length: 226  Bit Score: 212.19  E-value: 1.93e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381    2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILT 78
Cdd:TIGR02154   4 RILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINERGPDLILLDWMLPGTSGIELCRRLRrrpETRAIPIIMLT 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   79 AKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknsASPaENNEDILETTYFKISKRTREIFYQGELLDaLTPK 158
Cdd:TIGR02154  84 ARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRR---IRP-QLSDEVIEVGDLSLDPVAHRVFRGGQPLS-LGPT 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489826381  159 EFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKP-FLHTVWGVGYKFD 225
Cdd:TIGR02154 159 EFRLLHFFMTHPERVYSREQLLDRVWGRDVYVEERTVDVHIRRLRKALNPFGLEdPVQTVRGAGYRFS 226
resp_reg_YycF NF040534
response regulator YycF;
2-222 1.77e-63

response regulator YycF;


Pssm-ID: 439744 [Multi-domain]  Cd Length: 231  Bit Score: 197.25  E-value: 1.77e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:NF040534   2 KILVVDDEKPIADILEFNLKKEGYEVFCAYDGNEALELVEEEVPDLVLLDIMLPGRDGMEVCREVRKKYDMPIIMLTAKD 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDILETTY---------FKISKRTREIfyqgell 152
Cdd:NF040534  82 SEIDKVLGLELGADDYVTKPFSTRELIARVKANLRRHQQQNTEEEEEENNEIVIgsltihpdaYTVKKRGETI------- 154

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381 153 dALTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIatETKP----FLHTVWGVGY 222
Cdd:NF040534 155 -ELTHREFELLHYLAKHIGQVMTREHLLQTVWGYDYFGDVRTVDVTVRRLREKI--EDNPshpeWIVTRRGVGY 225
ompR PRK09468
osmolarity response regulator; Provisional
 2-224 2.22e-61

osmolarity response regulator; Provisional


Pssm-ID: 181883 [Multi-domain]  Cd Length: 239  Bit Score: 192.11  E-value: 2.22e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSD-VPIIILTAK 80
Cdd:PRK09468   7 KILVVDDDMRLRALLERYLTEQGFQVRSAANAEQMDRLLTRESFHLMVLDLMLPGEDGLSICRRLRSQNNpTPIIMLTAK 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNS---ASPAENNEdILETTYFKISKRTREIFYQGELLdALTP 157
Cdd:PRK09468  87 GEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRRQAPelpGAPSQEEE-VIAFGKFKLNLGTRELFRGDEPM-PLTT 164

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489826381 158 KEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATE-TKP-FLHTVWGVGYKF 224
Cdd:PRK09468 165 GEFAVLKALVSHPREPLSRDKLMNLARGREYSAMERSIDVQISRLRRLIEEDpAHPrYIQTVWGLGYVF 233
orf27 CHL00148
Ycf27; Reviewed
 1-224 2.41e-58

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 184.53  E-value: 2.41e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAK 80
Cdd:CHL00148   7 EKILVVDDEAYIRKILETRLSIIGYEVITASDGEEALKLFRKEQPDLVILDVMMPKLDGYGVCQEIRKESDVPIIMLTAL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR--KNSASPAENNEDILETTYFKISKRTREIFYQGELLdALTPK 158
Cdd:CHL00148  87 GDVSDRITGLELGADDYVVKPFSPKELEARIRSVLRRtnKKSFSSKIPNSSIIRIGFLKIDLNKKQVYKNNERI-RLTGM 165

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 159 EFDLLYFLMQHPRQVFSREQLLEQVWGYQF--YGDERTVDVHIKRLRQKIATE-TKP-FLHTVWGVGYKF 224
Cdd:CHL00148 166 EFSLLELLISKSGEIFSRATILKEVWGYTPerHIDTRVVDVHISRLRAKLEDDpSNPdLILTARGTGYLF 235
PRK10710 PRK10710
DNA-binding transcriptional regulator BaeR; Provisional
 45-225 1.83e-56

DNA-binding transcriptional regulator BaeR; Provisional


Pssm-ID: 182665 [Multi-domain]  Cd Length: 240  Bit Score: 179.50  E-value: 1.83e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  45 YDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknsASPA 124
Cdd:PRK10710  55 PDLILLDLMLPGTDGLTLCREIRRFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRR---CKPQ 131

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 125 ENNEDILETTYFKISKRTREIFYQGELLDaLTPKEFDLLYFLMQHPRQVFSREQLLEQVWG-YQFYGDeRTVDVHIKRLR 203
Cdd:PRK10710 132 RELQQQDAESPLIIDESRFQASWRGKMLD-LTPAEFRLLKTLSHEPGKVFSREQLLNHLYDdYRVVTD-RTIDSHIKNLR 209

                        170       180
                 ....*....|....*....|....
gi 489826381 204 QKIAT--ETKPFLHTVWGVGYKFD 225
Cdd:PRK10710 210 RKLESldAEQSFIRAVYGVGYRWE 233
PRK11083 PRK11083
DNA-binding response regulator CreB; Provisional
 1-222 1.05e-53

DNA-binding response regulator CreB; Provisional


Pssm-ID: 236838 [Multi-domain]  Cd Length: 228  Bit Score: 172.07  E-value: 1.05e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTA 79
Cdd:PRK11083   4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGFELCRQLLAfHPALPVIFLTA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknsASPAENNEDILETTYFKISKRTREIFYQGELLDaLTPKE 159
Cdd:PRK11083  84 RSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRR---VKKFAAPSPVIRIGHFELDEPAARISYFGTPLT-LTRYE 159

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489826381 160 FDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQK---IATETKPfLHTVWGVGY 222
Cdd:PRK11083 160 FLLLKTLLLSPGRVFSRQQLMDIVWEDAQDSYDRTVDTHIKTLRAKlraINPDLSP-INTHRGMGY 224
PRK10955 PRK10955
envelope stress response regulator transcription factor CpxR;
2-222 3.81e-47

envelope stress response regulator transcription factor CpxR;


Pssm-ID: 182864 [Multi-domain]  Cd Length: 232  Bit Score: 155.35  E-value: 3.81e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYeAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:PRK10955   3 KILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQAL-DLLDDSIDLLLLDVMMPKKNGIDTLKELRQTHQTPVIMLTARG 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNED---ILETTYFKISKRTREIFYQGELLDaLTPK 158
Cdd:PRK10955  82 SELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHWSEQQQNNDNgspTLEVDALSLNPGRQEASFDGQTLE-LTGT 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489826381 159 EFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIA--TETKPFLHTVWGVGY 222
Cdd:PRK10955 161 EFTLLYLLAQHLGQVVSREHLSQEVLGKRLTPFDRAIDMHISNLRRKLPdrKDGHPWFKTLRGRGY 226
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
2-224 7.50e-46

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 152.18  E-value: 7.50e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIIILT 78
Cdd:PRK10161   4 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQFIKHLKResmTRDIPVVMLT 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  79 AKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPaennEDILETTYFKISKRTREIFYQGELLDaLTPK 158
Cdd:PRK10161  84 ARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRISPMAV----EEVIEMQGLSLDPTSHRVMAGEEPLE-MGPT 158

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381 159 EFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIA-TETKPFLHTVWGVGYKF 224
Cdd:PRK10161 159 EFKLLHFFMTHPERVYSREQLLNHVWGTNVYVEDRTVDVHIRRLRKALEpGGHDRMVQTVRGTGYRF 225
cztR_silR_copR TIGR01387
heavy metal response regulator; Members of this family contain a response regulator receiver ...
 3-224 1.77e-45

heavy metal response regulator; Members of this family contain a response regulator receiver domain (pfam00072) and an associated transcriptional regulatory region (pfam00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. [Regulatory functions, DNA interactions]


Pssm-ID: 130454 [Multi-domain]  Cd Length: 218  Bit Score: 150.72  E-value: 1.77e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381    3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKE 81
Cdd:TIGR01387   1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDDYDLIILDVMLPGMDGWQILQTLRRSgKQTPVLFLTARD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSAspaenNEDILETTYFKISKRTREIFYQGELLDaLTPKEFD 161
Cdd:TIGR01387  81 SVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRSHSL-----NSTVLEIADLRMDSVRHRVSRGNIRIT-LTRKEFQ 154

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381  162 LLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKPFL-HTVWGVGYKF 224
Cdd:TIGR01387 155 LLWLLMRRTGEVLPRTVIASLVWGMNFDSDTNVVDVAIRRLRAKVDDPFEEKLiHTIRGMGYVL 218
PRK11517 PRK11517
DNA-binding response regulator HprR;
1-228 9.83e-44

DNA-binding response regulator HprR;


Pssm-ID: 183172 [Multi-domain]  Cd Length: 223  Bit Score: 146.58  E-value: 9.83e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAK 80
Cdd:PRK11517   1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSDGRDGLYLALKDDYALIILDIMLPGMDGWQILQTLRTAKQTPVICLTAR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSA-SPAENNEDILETTYFKISKRTREIfyqgelldALTPKE 159
Cdd:PRK11517  81 DSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQHHALnSTLEISGLRMDSVSQSVSRDNISI--------TLTRKE 152

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489826381 160 FDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIateTKPF----LHTVWGVGYKFDETE 228
Cdd:PRK11517 153 FQLLWLLASRAGEIIPRTVIASEIWGINFDSDTNTVDVAIRRLRAKV---DDPFpeklIATIRGMGYSFVAVK 222
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 4-101 1.32e-43

phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins are one of the most widespread transcriptional regulators. OmpR family members contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domain. They are involved in the control of environmental stress tolerance (such as the oxidative, osmotic and acid stress response), motility, virulence, outer membrane biogenesis and other processes. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381116 [Multi-domain]  Cd Length: 99  Bit Score: 141.78  E-value: 1.32e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTAKES 82
Cdd:cd17574    1 LVVEDDEEIAELLSDYLEKEGYEVDTAADGEEALELAREEQPDLIILDVMLPGMDGFEVCRRLREkGSDIPIIMLTAKDE 80

                         90
                 ....*....|....*....
gi 489826381  83 ESDQVLGLEMGADDYVTKP 101
Cdd:cd17574   81 EEDKVLGLELGADDYITKP 99
PRK10701 PRK10701
DNA-binding transcriptional regulator RstA; Provisional
 2-224 1.03e-40

DNA-binding transcriptional regulator RstA; Provisional


Pssm-ID: 236738 [Multi-domain]  Cd Length: 240  Bit Score: 139.00  E-value: 1.03e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:PRK10701   3 KIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATILREQPDLVLLDIMLPGKDGMTICRDLRPKWQGPIVLLTSLD 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDILETTY-------FKISKRTREIFYQGELLdA 154
Cdd:PRK10701  83 SDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQNEQATQTKGLQETSLTPYkalhfgtLTIDPVNRQVTLAGEEI-S 161

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381 155 LTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKI---ATEtkPF-LHTVWGVGYKF 224
Cdd:PRK10701 162 LSTADFDLLWELATHAGQIMDRDALLKNLRGVSYDGLDRSVDVAISRLRKKLldnAAE--PYrIKTVRNKGYLF 233
PRK09836 PRK09836
DNA-binding transcriptional activator CusR; Provisional
 1-222 1.18e-40

DNA-binding transcriptional activator CusR; Provisional


Pssm-ID: 182102 [Multi-domain]  Cd Length: 227  Bit Score: 138.52  E-value: 1.18e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEmiemFFMKEEIDATFVHD----GKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSD-VPII 75
Cdd:PRK09836   1 MKLLIVEDEKKTGE----YLTKGLTEAGFVVDladnGLNGYHLAMTGDYDLIILDIMLPDVNGWDIVRMLRSANKgMPIL 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  76 ILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPaennEDILETTYFKISKRTREIFYQGELLdAL 155
Cdd:PRK09836  77 LLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGAAVII----ESQFQVADLMVDLVSRKVTRSGTRI-TL 151

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489826381 156 TPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKP-FLHTVWGVGY 222
Cdd:PRK09836 152 TSKEFTLLEFFLRHQGEVLPRSLIASQVWDMNFDSDTNAIDVAVKRLRGKIDNDFEPkLIQTVRGVGY 219
REC_OmpR_BsPhoP-like cd19937
phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus ...
 4-116 1.22e-39

phosphoacceptor receiver (REC) domain of BsPhoP-like OmpR family response regulators; Bacillus subtilis PhoP (BsPhoP) is part of the PhoPR two-component system that participates in a signal transduction network that controls adaptation of the bacteria to phosphate deficiency by regulating (activating or repressing) genes of the Pho regulon upon phosphorylation by PhoR. When activated, PhoPR directs expression of phosphate scavenging enzymes, lowers synthesis of the phosphate-rich wall teichoic acid (WTA) and initiates synthesis of teichuronic acid, a non-phosphate containing replacement anionic polymer. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381164 [Multi-domain]  Cd Length: 116  Bit Score: 132.40  E-value: 1.22e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILTAK 80
Cdd:cd19937    1 LVVDDEEDIVELLKYNLEKEGYEVVTAYDGEEALKRAKDEKPDLIILDLMLPGIDGLEVCRILRsdpKTSSIPIIMLTAK 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTR 116
Cdd:cd19937   81 GEEFDKVLGLELGADDYITKPFSPRELLARVKAVLR 116
PRK10643 PRK10643
two-component system response regulator PmrA;
1-228 1.30e-39

two-component system response regulator PmrA;


Pssm-ID: 182612 [Multi-domain]  Cd Length: 222  Bit Score: 135.93  E-value: 1.30e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR-EVSDVPIIILTA 79
Cdd:PRK10643   1 MKILIVEDDTLLLQGLILALQTEGYACDCASTAREAEALLESGHYSLVVLDLGLPDEDGLHLLRRWRqKKYTLPVLILTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASpaennEDILETTYFKISKRTREIFYQGELLDaLTPKE 159
Cdd:PRK10643  81 RDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIRRHQGQG-----ENELQVGNLTLNLGRQQVWLDGQELI-LTPKE 154

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489826381 160 FDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIAtetKPFLHTVWGVGYKFDETE 228
Cdd:PRK10643 155 FALLSRLMLKAGSPVHREILYQDIYNWDDEPSSNTLEVHIHNLRDKVG---KDRIRTVRGFGYMLVANE 220
REC_OmpR_CpxR cd17623
phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is ...
 3-117 1.99e-39

phosphoacceptor receiver (REC) domain of CpxR-like OmpR family response regulators; CpxR is part of the CpxA/CpxR two-component regulatory system that mediates envelope stress responses that is key for virulence and antibiotic resistance in several Gram negative pathogens. CpxR is a transcription factor/response regulator that controls the expression of numerous genes, including those of the classical porins OmpF and OmpC. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381138 [Multi-domain]  Cd Length: 115  Bit Score: 131.66  E-value: 1.99e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKES 82
Cdd:cd17623    1 ILLIDDDRELTELLTEYLEMEGFNVRAAHDGEQGLAALLEGSPDLVVLDVMLPKMNGLDVLKELRKTSQVPVLMLTARGD 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489826381  83 ESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd17623   81 DIDRILGLELGADDYLPKPFNPRELVARIRAILRR 115
PRK10336 PRK10336
two-component system response regulator QseB;
1-226 2.50e-39

two-component system response regulator QseB;


Pssm-ID: 182387 [Multi-domain]  Cd Length: 219  Bit Score: 135.02  E-value: 2.50e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDV-PIIILTA 79
Cdd:PRK10336   1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGRDILREWREKGQRePVLILTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAEnnediLETTYFKISKRTREIFYQGELLdALTPKE 159
Cdd:PRK10336  81 RDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTNGQASNE-----LRHGNVMLDPGKRIATLAGEPL-TLKPKE 154

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381 160 FDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATEtkpFLHTVWGVGYKFDE 226
Cdd:PRK10336 155 FALLELLMRNAGRVLPRKLIEEKLYTWDEEVTSNAVEVHVHHLRRKLGSD---FIRTVHGIGYTLGE 218
trans_reg_C cd00383
DNA-binding effector domain of two-component system response regulators; Bacteria and some ...
 136-224 2.04e-38

DNA-binding effector domain of two-component system response regulators; Bacteria and some eukaryotes use two-component signal transduction systems to detect and respond to changes in the environment. The systems consists of a sensor histidine kinase and a response regulator. The former autophosphorylates a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. This C-terminal effector domain belongs to the winged helix-turn-helix family of transcriptional regulators and contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunit of RNA polymerase.


Pssm-ID: 294013 [Multi-domain]  Cd Length: 89  Bit Score: 128.37  E-value: 2.04e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 136 FKISKRTREIFYQGELLDaLTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKP-FL 214
Cdd:cd00383    1 LRLDPARREVTVDGEEVE-LTPKEFELLELLARNPGRVVSREELLEAVWGYDYEVDDRTVDVHISRLRKKLEDDPEPrLI 79

                         90
                 ....*....|
gi 489826381 215 HTVWGVGYKF 224
Cdd:cd00383   80 KTVRGVGYRL 89
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 2-113 3.46e-38

phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is part of MtrA/MtrB (or MtrAB), a highly conserved two-component system (TCS) implicated in the regulation of cell division in the actinobacteria. In unicellular Mycobacterium tuberculosis, MtrAB coordinates DNA replication with cell division and regulates the transcription of resuscitation-promoting factor B. In filamentous Streptomyces venezuelae, it links antibiotic production to sporulation. MtrA belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381141 [Multi-domain]  Cd Length: 115  Bit Score: 128.74  E-value: 3.46e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:cd17626    2 RILVVDDDAALAEMIGIVLRGEGFDPAFCGDGTQALAAFREVRPDLVLLDLMLPGIDGIEVCRQIRAESGVPIVMLTAKS 81

                         90       100       110
                 ....*....|....*....|....*....|..
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKA 113
Cdd:cd17626   82 DTVDVVLGLESGADDYVAKPFKPKELVARIRA 113
REC_OmpR_BfmR-like cd19939
phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; ...
 2-117 1.54e-37

phosphoacceptor receiver (REC) domain of BfmR-like OmpR family response regulators; Acinetobacter baumannii BfmR is part of the BfmR/S two-component system that functions as the master regulator of biofilm initiation. BfmR confers resistance to complement-mediated bactericidal activity, independent of capsular polysaccharide, and also increases resistance to the clinically important antimicrobials meropenem and colistin, making it a potential antimicrobial target. Its inhibition would have the dual benefit of significantly decreasing in vivo survival and increasing sensitivity to selected antimicrobials. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381166 [Multi-domain]  Cd Length: 116  Bit Score: 127.10  E-value: 1.54e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:cd19939    1 RILIVEDELELARLTRDYLIKAGLEVSVFTDGQRAVRRIIDEQPSLVVLDIMLPGMDGLTVCREVREHSHVPILMLTART 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd19939   81 EEMDRVLGLEMGADDYLCKPFSPRELLARVRALLRR 116
REC_OmpR_YycF-like cd17614
phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF ...
 3-117 1.68e-37

phosphoacceptor receiver (REC) domain of YrcF-like OmpR family response regulators; YycF appears to play an important role in cell wall integrity in a wide range of gram-positive bacteria, and may also modulate cell membrane integrity. It functions as part of a phosphotransfer system that ultimately controls the levels of competence within the bacteria. YycF belongs to the OmpR family of response regulators, which are characterized by a REC domain and a winged helix-turn-helix effector domain involved in DNA binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381130 [Multi-domain]  Cd Length: 115  Bit Score: 126.77  E-value: 1.68e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKES 82
Cdd:cd17614    1 ILVVDDEKPISDILKFNLTKEGYEVVTAYDGREALEKVEEEQPDLILLDLMLPEKDGLEVCREVRKTSNVPIIMLTAKDS 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489826381  83 ESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd17614   81 EVDKVLGLELGADDYVTKPFSNRELLARVKANLRR 115
REC_OmpR_kpRstA-like cd17622
phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; ...
 2-116 2.91e-37

phosphoacceptor receiver (REC) domain of kpRstA-like OmpR family response regulators; Klebsiella pneumoniae RstA (kpRstA) is part of the RstA/RstB two-component regulatory system that may play a regulatory role in virulence. It belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381137 [Multi-domain]  Cd Length: 116  Bit Score: 126.34  E-value: 2.91e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:cd17622    2 RILLVEDDPKLARLIADFLESHGFNVVVEHRGDRALEVIAREKPDAVLLDIMLPGIDGLTLCRDLRPKYQGPILLLTALD 81

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTR 116
Cdd:cd17622   82 SDIDHILGLELGADDYVVKPVEPAVLLARLRALLR 116
Trans_reg_C pfam00486
Transcriptional regulatory protein, C terminal;
154-224 8.49e-37

Transcriptional regulatory protein, C terminal;


Pssm-ID: 425712 [Multi-domain]  Cd Length: 77  Bit Score: 123.78  E-value: 8.49e-37
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489826381  154 ALTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKI--ATETKPFLHTVWGVGYKF 224
Cdd:pfam00486   5 ELTPKEFKLLELLAENPGRVVSREQLLEEVWGEDYDVDDNTVDVHISRLRKKLedDPRDPRLIKTVRGVGYRL 77
PRK10766 PRK10766
two-component system response regulator TorR;
2-209 3.63e-36

two-component system response regulator TorR;


Pssm-ID: 182711 [Multi-domain]  Cd Length: 221  Bit Score: 126.69  E-value: 3.63e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:PRK10766   4 HILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLMLTRELRSRSTVGIILVTGRT 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIK------AVTRRKNSASPAENNEDILETTYFKISKRTREifyQGELLDAL 155
Cdd:PRK10766  84 DSIDRIVGLEMGADDYVTKPLELRELLVRVKnllwriSLARQAQPHAQEEDNCYRFAGYCLNVSRRTLE---RNGEPIKL 160

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 489826381 156 TPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATE 209
Cdd:PRK10766 161 TKAEYELLVAFVTNPGQVLSRERLLRMLSHRVENPNDRTIDVLIRRLRHKLNPD 214
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 1-116 3.66e-35

Two-component response regulator, PleD family, consists of two REC domains and a diguanylate cyclase (GGDEF) domain [Signal transduction mechanisms, Transcription];


Pssm-ID: 442920 [Multi-domain]  Cd Length: 179  Bit Score: 123.10  E-value: 3.66e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV---SDVPIIIL 77
Cdd:COG3706    2 ARILVVDDDPTNRKLLRRLLEAAGYEVVEAADGEEALELLQEHRPDLILLDLEMPDMDGLELCRRLRADprtADIPIIFL 81

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 489826381  78 TAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTR 116
Cdd:COG3706   82 TALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVAR 120
REC_OmpR_DrrD-like cd17625
phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a ...
 4-117 4.10e-35

phosphoacceptor receiver (REC) domain of DrrD-like OmpR family response regulators; DrrD is a OmpR/PhoB homolog from Thermotoga maritima whose function is not yet known. This subfamily also includes Streptococcus agalactiae transcriptional regulatory protein DltR, part of the DltS/DltR two-component system (TCS), and Pseudomonas aeruginosa transcriptional activator protein PfeR, part of the PfeR/PfeS TCS, which activates expression of the ferric enterobactin receptor. The DltS/DltR TCS regulates the expression of the dlt operon, which comprises four genes (dltA, dltB, dltC, and dltD) that catalyze the incorporation of D-alanine residues into the lipoteichoic acids. Members of this subfamily belong to the OmpR/PhoB family, which comprises of two domains, an N-terminal receiver domain and a C-terminal DNA-binding winged helix-turn-helix effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381140 [Multi-domain]  Cd Length: 115  Bit Score: 120.79  E-value: 4.10e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKES 82
Cdd:cd17625    1 LVVEDEKDLSEAITKHLKKEGYTVDVCFDGEEGLEYALSGIYDLIILDIMLPGMDGLEVLKSLREEGiETPVLLLTALDA 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489826381  83 ESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd17625   81 VEDRVKGLDLGADDYLPKPFSLAELLARIRALLRR 115
Trans_reg_C smart00862
Transcriptional regulatory protein, C terminal; This domain is almost always found associated ...
 149-224 1.43e-34

Transcriptional regulatory protein, C terminal; This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.


Pssm-ID: 214866 [Multi-domain]  Cd Length: 76  Bit Score: 118.04  E-value: 1.43e-34
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381   149 GELLDaLTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATETKP-FLHTVWGVGYKF 224
Cdd:smart00862   1 GEPIK-LTPKEFRLLELLLRNPGRVVSREELLEAVWGDDEDVDDNTLDVHISRLRKKLEDDGDPrLIETVRGVGYRL 76
PRK10529 PRK10529
DNA-binding transcriptional activator KdpE; Provisional
 46-224 2.50e-34

DNA-binding transcriptional activator KdpE; Provisional


Pssm-ID: 182522 [Multi-domain]  Cd Length: 225  Bit Score: 122.22  E-value: 2.50e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  46 DIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKaVTRRKNSASPAE 125
Cdd:PRK10529  47 DLIILDLGLPDGDGIEFIRDLRQWSAIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLR-VALRRHSATPAP 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 126 nnEDILETTYFKISKRTREIFYQGELLDaLTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQK 205
Cdd:PRK10529 126 --DPLVKFSDVTVDLAARVIHRGEEEVH-LTPIEFRLLAVLLNNAGKVLTQRQLLNQVWGPNAVEHSHYLRIYMGHLRQK 202

                        170       180
                 ....*....|....*....|.
gi 489826381 206 IATE-TKP-FLHTVWGVGYKF 224
Cdd:PRK10529 203 LEQDpARPrHFITETGIGYRF 223
PRK13856 PRK13856
two-component response regulator VirG; Provisional
 1-225 5.80e-34

two-component response regulator VirG; Provisional


Pssm-ID: 172377 [Multi-domain]  Cd Length: 241  Bit Score: 121.84  E-value: 5.80e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MK-LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILT- 78
Cdd:PRK13856   1 MKhVLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLASETVDVVVVDLNLGREDGLEIVRSLATKSDVPIIIISg 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  79 AKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSAsPAENNEDILETTYFKISKRTREIFYQGELLDALTPK 158
Cdd:PRK13856  81 DRLEEADKVVALELGATDFIAKPFGTREFLARIRVALRVRPNV-VRTKDRRSFCFADWTLNLRQRRLISEAGGEVKLTAG 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489826381 159 EFDLLYFLMQHPRQVFSREQLL--EQVWGYQFYgdERTVDVHIKRLRQKIATE-TKPFL-HTVWGVGYKFD 225
Cdd:PRK13856 160 EFNLLVAFLEKPRDVLSREQLLiaSRVREEEVY--DRSIDVLILRLRRKLEQDpANPQLiKTARGAGYFFD 228
REC_OmpR_BaeR-like cd19938
phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is ...
 2-114 2.84e-33

phosphoacceptor receiver (REC) domain of BaeR-like OmpR family response regulators; BaeR is part of the BaeSR two-component system that is involved in regulating genes that confer multidrug and metal resistance. In Salmonella, BaeSR induces AcrD and MdtABC drug efflux systems, increasing multidrug and metal resistance. In Escherichia coli, BaeR stimulates multidrug resistance via mdtABC (multidrug transporter ABC, formerly known as yegMNO) genes, which encode a resistance-nodulation-cell division (RND) drug efflux system. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381165 [Multi-domain]  Cd Length: 114  Bit Score: 115.94  E-value: 2.84e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:cd19938    1 RILIVEDEPKLAQLLIDYLRAAGYAPTLLAHGDQVLPYVRHTPPDLILLDLMLPGTDGLTLCREIRRFSDVPIIMVTARV 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:cd19938   81 EEIDRLLGLELGADDYICKPYSPREVVARVKAI 113
PRK10816 PRK10816
two-component system response regulator PhoP;
1-225 7.63e-32

two-component system response regulator PhoP;


Pssm-ID: 182755 [Multi-domain]  Cd Length: 223  Bit Score: 115.61  E-value: 7.63e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCE--MIEMFFMKEEIDATfvHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR-EVSDVPIIIL 77
Cdd:PRK10816   1 MRVLVVEDNALLRHhlKVQLQDAGHQVDAA--EDAKEADYYLNEHLPDIAIVDLGLPDEDGLSLIRRWRsNDVSLPILVL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  78 TAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRkNSASPAEnnedILETTYFKISKRTREIFYQGELLdALTP 157
Cdd:PRK10816  79 TARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR-NSGLASQ----VISLPPFQVDLSRRELSINDEVI-KLTA 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489826381 158 KEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATE-TKPFLHTVWGVGYKFD 225
Cdd:PRK10816 153 FEYTIMETLIRNNGKVVSKDSLMLQLYPDAELRESHTIDVLMGRLRKKIQAQyPQEVITTVRGQGYRFD 221
PRK11173 PRK11173
two-component response regulator; Provisional
 2-224 5.97e-31

two-component response regulator; Provisional


Pssm-ID: 183013 [Multi-domain]  Cd Length: 237  Bit Score: 113.96  E-value: 5.97e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKE 81
Cdd:PRK11173   5 HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSENDINLVIMDINLPGKNGLLLARELREQANVALMFLTGRD 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSP--LTLMARiKAVTRRKNSASPAENNEDIlETTYFK-----ISKRTReIFYQGELLdA 154
Cdd:PRK11173  85 NEVDKILGLEIGADDYITKPFNPreLTIRAR-NLLSRTMNLGTVSEERRSV-ESYKFNgweldINSRSL-ISPDGEQY-K 160

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489826381 155 LTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIAT--ETKPFLHTVWGVGYKF 224
Cdd:PRK11173 161 LPRSEFRAMLHFCENPGKIQSRAELLKKMTGRELKPHDRTVDVTIRRIRKHFEStpDTPEIIATIHGEGYRF 232
PRK15479 PRK15479
transcriptional regulator TctD;
1-225 3.01e-30

transcriptional regulator TctD;


Pssm-ID: 185376 [Multi-domain]  Cd Length: 221  Bit Score: 111.74  E-value: 3.01e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTA 79
Cdd:PRK15479   1 MRLLLAEDNRELAHWLEKALVQNGFAVDCVFDGLAADHLLQSEMYALAVLDINMPGMDGLEVLQRLRKRgQTLPVLLLTA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRknSASPAENNEDILETT-----YFKIskrtreifyQGELLdA 154
Cdd:PRK15479  81 RSAVADRVKGLNVGADDYLPKPFELEELDARLRALLRR--SAGQVQEVQQLGELIfhdegYFLL---------QGQPL-A 148

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489826381 155 LTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDERTVDVHIKRLRQKIATeTKPFLHTVWGVGYKFD 225
Cdd:PRK15479 149 LTPREQALLTVLMYRRTRPVSRQQLFEQVFSLNDEVSPESIELYIHRLRKKLQG-SDVRITTLRGLGYVLE 218
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 2-117 1.63e-29

phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; Mycobacterium tuberculosis PhoP (MtPhoP) is part of the PhoP/PhoR two-component system that is involved in phosphate control by stimulating expression of genes involved in scavenging, transport and mobilization of phosphate, and repressing the utilization of nitrogen sources. Also included in this subfamily is Mycobacterium tuberculosis transcriptional regulatory protein TcrX, part of the two-component regulatory system TcrY/TcrX that may be involved in virulence. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381131 [Multi-domain]  Cd Length: 118  Bit Score: 106.67  E-value: 1.63e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAK 80
Cdd:cd17615    1 RVLVVDDEPNITELLSMALRYEGWDVETAADGAEALAAAREFRPDAVVLDIMLPDMDGLEVLRRLRADGpDVPVLFLTAK 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd17615   81 DSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLRR 117
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-118 3.69e-29

CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator Spo0F [Signal transduction mechanisms];


Pssm-ID: 440547 [Multi-domain]  Cd Length: 128  Bit Score: 105.70  E-value: 3.69e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV---SDVPIIIL 77
Cdd:COG0784    6 KRILVVDDNPDNRELLRRLLERLGYEVTTAEDGAEALELLRAGPPDLILLDINMPGMDGLELLRRIRALprlPDIPIIAL 85

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 489826381  78 TAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRK 118
Cdd:COG0784   86 TAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLARA 126
REC_OmpR_PrrA-like cd17627
phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The ...
 3-117 4.96e-29

phosphoacceptor receiver (REC) domain of PrrA-like OmpR family response regulators; The Mycobacterium tuberculosis PrrA is part of the PrrA/PrrB two-component system (TCS) that has been implicated in early intracellular multiplication and is essential for viability. Also included in this subfamily is Mycobacterium tuberculosis MprA, part of the MprAB TCS that regulates EspR, a key regulator of the ESX-1 secretion system, and is required for establishment and maintenance of persistent infection in a tissue- and stage-specific fashion. PrrA and MprA belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381142 [Multi-domain]  Cd Length: 116  Bit Score: 105.16  E-value: 4.96e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKE 81
Cdd:cd17627    1 ILVVDDDRAVRESLRRSLRFEGYEVETAVDGAEALRVISGNRPDAVVLDVMMPRLDGLEVCRRLRAAgNDLPILVLTARD 80

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd17627   81 SVSDRVAGLDAGADDYLVKPFALEELLARVRALLRR 116
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 2-114 5.58e-29

phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The transcription factor PhoB is a component of the PhoR/PhoB two-component system, a key regulatory protein network that facilitates response to inorganic phosphate (Pi) starvation conditions by turning on the phosphate (pho) regulon whose products are involved in phosphorus uptake and metabolism. PhoB is a member of the OmpR family of DNA-binding response regulators that contains REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381133 [Multi-domain]  Cd Length: 118  Bit Score: 105.02  E-value: 5.58e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIIILT 78
Cdd:cd17618    2 TILIVEDEPAIREMIAFNLERAGFDVVEAEDAESAVNLIVEPRPDLILLDWMLPGGSGIQFIRRLKRdemTRDIPIIMLT 81

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  79 AKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:cd17618   82 ARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAV 117
REC_OmpR_RegX3-like cd17621
phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is ...
 3-101 7.36e-29

phosphoacceptor receiver (REC) domain of RegX3-like OmpR family response regulators; RegX3 is a member of the SenX3-RegX3 two-component system that is involved in phosphate-sensing signal transduction. Phosphorylated RegX3 functions as a transcriptional activator of phoA. It induces transcription in phosphate limiting environment and also controls expression of several critical metabolic enzymes in aerobic condition. RegX3 belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381136 [Multi-domain]  Cd Length: 99  Bit Score: 104.20  E-value: 7.36e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKES 82
Cdd:cd17621    1 VLVVEDEESFSDPLAYLLRKEGFEVTVATDGPAALAEFDRAGADIVLLDLMLPGLSGTEVCRQLRARSNVPVIMVTAKDS 80

                         90
                 ....*....|....*....
gi 489826381  83 ESDQVLGLEMGADDYVTKP 101
Cdd:cd17621   81 EIDKVVGLELGADDYVTKP 99
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 3-117 9.99e-29

phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; Escherichia coli PhoP (EcPhoP) is part of the PhoQ/PhoP two-component system (TCS) that regulates virulence genes and plays an essential role in the response of the bacteria to the environment of their mammalian hosts, sensing several stimuli such as extracellular magnesium limitation, low pH, the presence of cationic antimicrobial peptides, and osmotic upshift. This subfamily also includes Brucella suis FeuP, part of the FeuPQ TCS that is involved in the regulation of iron uptake, and Microchaete diplosiphon RcaC, which is required for chromatic adaptation. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381161 [Multi-domain]  Cd Length: 117  Bit Score: 104.29  E-value: 9.99e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGyeAFFKDE--YDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTA 79
Cdd:cd19934    1 LLLVEDDALLAAQLKEQLSDAGYVVDVAEDGEEA--LFQGEEepYDLVVLDLGLPGMDGLSVLRRWRSEGrATPVLILTA 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd19934   79 RDSWQDKVEGLDAGADDYLTKPFHIEELLARLRALIRR 116
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 3-116 1.89e-28

phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This subfamily contains various OmpR family response regulators including PmrA, BasR, QseB, tctD, and RssB, which are components of two-component regulatory systems (TCSs). The PmrA/PmrB TCS controls transcription of genes that are involved in lipopolysaccharide modification in the outer membrane of bacteria, increasing bacterial resistance to host-derived antimicrobial peptides. The BasS/BasR TCS functions as an iron- and zinc-sensing transcription regulator. The QseB/QseC TCS activates the flagella regulon by activating transcription of FlhDC. The RssA/RssB TCS regulates swarming behavior in Serratia marcescens. OmpR family DNA-binding response regulators contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381139 [Multi-domain]  Cd Length: 115  Bit Score: 103.72  E-value: 1.89e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKE 81
Cdd:cd17624    1 ILLVEDDALLGDGLKTGLRKAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQgQSLPVLILTARD 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTR 116
Cdd:cd17624   81 GVDDRVAGLDAGADDYLVKPFALEELLARLRALLR 115
REC_OmpR_CusR-like cd19935
phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; ...
 3-101 3.81e-28

phosphoacceptor receiver (REC) domain of CusR-like OmpR family response regulators; Escherichia coli CusR is part of the CusS/CusR two-component system (TCS) that is involved in response to copper and silver. Other members of this subfamily include Escherichia coli PcoR, Pseudomonas syringae CopR, and Streptomyces coelicolor CutR, which are all transcriptional regulatory proteins and components of TCSs that regulate genes involved in copper resistance and/or metabolism. member of the subfamily is Escherichia coli HprR (hydrogen peroxide response regulator), previously called YdeW, which is part of the HprSR (or YedVW) TCS involved in stress response to hydrogen peroxide, as well as Cupriavidus metallidurans CzcR, which is part of the CzcS/CzcR TCS involved in the control of cobalt, zinc, and cadmium homeostasis. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381162 [Multi-domain]  Cd Length: 100  Bit Score: 102.52  E-value: 3.81e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTAKE 81
Cdd:cd19935    1 ILVVEDEKKLAEYLKKGLTEEGYAVDVAYDGEDGLHLALTNEYDLIILDVMLPGLDGLEVLRRLRAaGKQTPVLMLTARD 80

                         90       100
                 ....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKP 101
Cdd:cd19935   81 SVEDRVKGLDLGADDYLVKP 100
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 1-120 1.53e-27

Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains [Signal transduction mechanisms];


Pssm-ID: 442663 [Multi-domain]  Cd Length: 224  Bit Score: 104.48  E-value: 1.53e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIIIL 77
Cdd:COG3437    7 PTVLIVDDDPENLELLRQLLRTLGYDVVTAESGEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRAdpsTRDIPVIFL 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 489826381  78 TAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNS 120
Cdd:COG3437   87 TALADPEDRERALEAGADDYLTKPFDPEELLARVRNALELRRL 129
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 1-131 1.03e-26

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 106.20  E-value: 1.03e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTA 79
Cdd:COG2204    3 ARILVVDDDPDIRRLLKELLERAGYEVETAASGEEALALLREEPPDLVLLDLRMPGMDGLELLRELRALdPDLPVILLTG 82

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDIL 131
Cdd:COG2204   83 YGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRRLRRENAEDSGLI 134
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 3-112 3.61e-26

phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; This subfamily includes Escherichia coli TorR and ArcA, both OmpR family response regulators that mediate adaptation to changes in various respiratory growth conditions. The TorS-TorR two-component system (TCS) is responsible for the tight regulation of the torCAD operon, which encodes the trimethylamine N-oxide (TMAO) reductase respiratory system in response to anaerobic conditions and the presence of TMAO. The ArcA-ArcB TCS is involved in cell growth during anaerobiosis. ArcA is a global regulator that controls more than 30 operons involved in redox regulation (the Arc modulon). OmpR family DNA-binding response regulators are characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381134 [Multi-domain]  Cd Length: 113  Bit Score: 97.84  E-value: 3.61e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKES 82
Cdd:cd17619    3 ILIVEDEPVTRATLKSYFEQEGYDVSEAGDGEEMRQILARQDIDLVLLDINLPGKDGLSLTRELREQSEVGIILVTGRDD 82

                         90       100       110
                 ....*....|....*....|....*....|
gi 489826381  83 ESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:cd17619   83 EVDRIVGLEIGADDYVTKPFNPRELLVRAK 112
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 4-101 7.95e-26

phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response regulators (PRRs); Two-component systems (TCSs) involving a sensor and a response regulator are used by bacteria to adapt to changing environments. Processes regulated by two-component systems in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Response regulators (RRs) share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. Response regulators regulate transcription, post-transcription or post-translation, or have functions such as methylesterases, adenylate or diguanylate cyclase, c-di-GMP-specific phosphodiesterases, histidine kinases, serine/threonine protein kinases, and protein phosphatases, depending on their output domains. The function of some output domains are still unknown. TCSs are found in all three domains of life - bacteria, archaea, and eukaryotes, however, the presence and abundance of particular RRs vary between the lineages. Archaea encode very few RRs with DNA-binding output domains; most are stand-alone REC domains. Among eukaryotes, TCSs are found primarily in protozoa, fungi, algae, and green plants. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381085 [Multi-domain]  Cd Length: 99  Bit Score: 96.53  E-value: 7.95e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKES 82
Cdd:cd00156    1 LIVDDDPAIRELLKSLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELpPDIPVIVLTAKAD 80

                         90
                 ....*....|....*....
gi 489826381  83 ESDQVLGLEMGADDYVTKP 101
Cdd:cd00156   81 EEDAVRALELGADDYLVKP 99
REC_OmpR_VirG cd17594
phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is ...
 2-113 1.59e-25

phosphoacceptor receiver (REC) domain of VirG-like OmpR family response regulators; VirG is part of the VirA/VirG two-component system that regulates the expression of virulence (vir) genes. The histidine kinase VirA senses a phenolic wound response signal, undergoes autophosphorylation, and phosphorelays to the VirG response regulator, which induces transcription of the vir regulon. VirG belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381125 [Multi-domain]  Cd Length: 113  Bit Score: 95.98  E-value: 1.59e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTA-K 80
Cdd:cd17594    1 HVLVVDDDAAMRHLLILYLRERGFDVTAAADGAEEARLMLHRRVDLVLLDLRLGQESGLDLLRTIRARSDVPIIIISGdR 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKA 113
Cdd:cd17594   81 RDEIDRVVGLELGADDYLAKPFGLRELLARVRA 113
REC_OmpR_ChvI-like cd19936
phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; ...
 5-101 2.40e-25

phosphoacceptor receiver (REC) domain of ChvI-like OmpR family response regulators; Sinorhizobium meliloti ChvI is part of the ExoS/ChvI two-component regulatory system (TCS) that is required for nitrogen-fixing symbiosis and exopolysaccharide synthesis. ExoS/ChvI also play important roles in regulating biofilm formation, motility, nutrient utilization, and the viability of free-living bacteria. ChvI belongs to the OmpR family of DNA-binding response regulators that contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381163 [Multi-domain]  Cd Length: 99  Bit Score: 95.20  E-value: 2.40e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   5 MIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESES 84
Cdd:cd19936    3 LVDDDRNILTSVSMALEAEGFSVETYTDGASALDGLNARPPDLAILDIKMPRMDGMELLQRLRQKSTLPVIFLTSKDDEI 82

                         90
                 ....*....|....*..
gi 489826381  85 DQVLGLEMGADDYVTKP 101
Cdd:cd19936   83 DEVFGLRMGADDYITKP 99
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 4-112 5.96e-24

Response regulator receiver domain; This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.


Pssm-ID: 395025 [Multi-domain]  Cd Length: 111  Bit Score: 91.83  E-value: 5.96e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381    4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKES 82
Cdd:pfam00072   2 LIVDDDPLIRELLRQLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDpTTPVIILTAHGD 81

                          90       100       110
                  ....*....|....*....|....*....|
gi 489826381   83 ESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:pfam00072  82 EDDAVEALEAGADDFLSKPFDPDELLAAIR 111
REC_OmpR_NsrR-like cd18159
phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family ...
 3-114 2.07e-23

phosphoacceptor receiver (REC) domain of Streptococcus agalactiae NsrR-like OmpR family response regulators; Streptococcus agalactiae NsrR is a lantibiotic resistance-associated response regulator and is part of the nisin resistance operon. It is a member of the NsrRK two-component system (TCS) that is involved in the regulation of lantibiotic resistance genes such as a membrane-associated lipoprotein of LanI, and the nsr gene cluster which encodes for the resistance protein NSR and the ABC transporter NsrFP, both conferring resistance against nisin. This subfamily also includes Staphylococcus epidermidis GraR, part of the GraR/GraS TCS involved in resistance against cationic antimicrobial peptides, and Bacillus subtilis BceR, part of the BceS/BceR TCS involved in the regulation of bacitracin resistance. Members of this subfamily belong to the OmpR family of DNA-binding response regulators, which contain N-terminal receiver (REC) and C-terminal DNA-binding winged helix-turn-helix effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381143 [Multi-domain]  Cd Length: 113  Bit Score: 90.42  E-value: 2.07e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKES 82
Cdd:cd18159    1 ILIVEDDETIASLLKKHLEKWGYEVVLIEDFEDVLEEFLQFKPDLVLLDINLPYFDGFYWCREIRQISNVPIIFISSRDD 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 489826381  83 ESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:cd18159   81 NMDQVMAINMGGDDYITKPFDLDVLLAKIKAI 112
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 46-101 2.76e-22

phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a component of the KdpD/KdpE two-component system (TCS) and is activated when histidine kinase KdpD senses a drop in external K+ concentration or upshift in ionic osmolarity, resulting in the expression of a heterooligomeric transporter KdpFABC. In addition, the KdpD/KdpE TCS is also an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. KdpE is a member of the OmpR family of DNA-binding response regulators that contain REC and winged helix-turn-helix (wHTH) DNA-binding output effector domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381135 [Multi-domain]  Cd Length: 99  Bit Score: 87.22  E-value: 2.76e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489826381  46 DIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESESDQVLGLEMGADDYVTKP 101
Cdd:cd17620   44 DLIILDLGLPDMDGLEVIRRLREWSAVPVIVLSARDEESDKIAALDAGADDYLTKP 99
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 2-102 2.46e-21

first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar domains; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a REC-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes D1 of PleD and similar domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381093 [Multi-domain]  Cd Length: 104  Bit Score: 84.86  E-value: 2.46e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIIILT 78
Cdd:cd17538    1 KILVVDDEPANRELLEALLSAEGYEVLTADSGQEALALAEEELPDLILLDVMMPGMDGFEVCRRLKEdpeTRHIPVIMIT 80

                         90       100
                 ....*....|....*....|....
gi 489826381  79 AKESESDQVLGLEMGADDYVTKPF 102
Cdd:cd17538   81 ALDDREDRIRGLEAGADDFLSKPI 104
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 3-107 4.35e-21

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators similar to Arabidopsis thaliana CKI1 and Escherichia coli RcsC; This family is composed of hybrid sensor histidine kinases/response regulators that are sensor histidine kinases (HKs) fused with a REC domain, similar to the sensor histidine kinase CKI1 from Arabidopsis thaliana, which is involved in multi-step phosphorelay (MSP) signaling that mediates responses to a variety of important stimuli in plants. MSP involves a signal being transferred from HKs via histidine phosphotransfer proteins (AHP1-AHP5) to nuclear response regulators. The CKI1 REC domain specifically interacts with the downstream signaling protein AHP2, AHP3 and AHP5. The plant MSP system has evolved from the prokaryotic two-component system (TCS), which allows organisms to sense and respond to changes in environmental conditions. This family also includes bacterial hybrid sensor HKs such as Escherichia coli RcsC, which is a component of the Rcs signalling pathway that controls a variety of physiological functions like capsule synthesis, cell division, and motility. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381099 [Multi-domain]  Cd Length: 113  Bit Score: 84.44  E-value: 4.35e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV----SDVPIIILT 78
Cdd:cd17546    1 VLVVDDNPVNRKVLKKLLEKLGYEVDVAENGQEALELLKEEPFDLVLMDLQMPVMDGLEATRRIRELegggRRTPIIALT 80

                         90       100
                 ....*....|....*....|....*....
gi 489826381  79 AKESESDQVLGLEMGADDYVTKPFSPLTL 107
Cdd:cd17546   81 ANALEEDREKCLEAGMDDYLSKPVKLDQL 109
REC_OmpR_CtrA cd17616
phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is ...
 3-114 7.67e-21

phosphoacceptor receiver (REC) domain of CtrA-like OmpR family response regulators; CtrA is part of the CckA-ChpT-CtrA phosphorelay that is conserved in alphaproteobacteria and is important in orchestrating the cell cycle, polar development, and flagellar biogenesis. CtrA is the master regulator of flagella synthesis genes and also regulates genes involved in the cell cycle, exopolysaccharide synthesis, and cyclic-di-GMP signaling. CtrA is active as a transcription factor when phosphorylated. It is a member of the OmpR family of DNA-binding response regulators, characterized by a REC domain and a winged helix-turn-helix (wHTH) DNA-binding output effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381132 [Multi-domain]  Cd Length: 114  Bit Score: 84.00  E-value: 7.67e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKE 81
Cdd:cd17616    1 VLLIEDDSATAQSIELMLKSEGFNVYTTDLGEEGLDLGKLYDYDIILLDLNLPDMSGYEVLRTLRLAKvKTPILILSGLA 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:cd17616   81 DIEDKVKGLGFGADDYMTKPFHKDELVARIHAI 113
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 1-112 5.64e-20

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator RpfG and similar proteins; Cyclic di-GMP phosphodiesterase response regulator RpfG, together with sensory/regulatory protein RpfC, constitute a two-component system implicated in sensing and responding to the diffusible signal factor (DSF) that is essential for cell-cell signaling. RpfC is a hybrid sensor/histidine kinase that phosphorylates and activates RpfG, which degrades cyclic di-GMP to GMP, leading to the activation of Clp, a global transcriptional regulator that regulates a large set of genes in the DSF pathway. RpfG contains a CheY-like receiver domain attached to a histidine-aspartic acid-glycine-tyrosine-proline (HD-GYP) cyclic di-GMP phosphodiesterase domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381103 [Multi-domain]  Cd Length: 118  Bit Score: 81.72  E-value: 5.64e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMffMKEEIDATFVH---DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV---SDVPI 74
Cdd:cd17551    1 MRILIVDDNPTNLLLLEA--LLRSAGYLEVVsftDPREALAWCRENPPDLILLDYMMPGMDGLEFIRRLRALpglEDVPI 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  75 IILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:cd17551   79 VMITADTDREVRLRALEAGATDFLTKPFDPVELLARVR 116
pleD PRK09581
response regulator PleD; Reviewed
 31-118 1.37e-19

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 86.49  E-value: 1.37e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  31 HDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTL 107
Cdd:PRK09581  33 SSGAEAIAICEREQPDIILLDVMMPGMDGFEVCRRLKsdpATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVAL 112

                         90
                 ....*....|.
gi 489826381 108 MARIKAVTRRK 118
Cdd:PRK09581 113 FARVKSLTRLK 123
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-119 2.89e-19

DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms];


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 80.40  E-value: 2.89e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEI--DATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIIL 77
Cdd:COG4565    4 IRVLIVEDDPMVAELLRRYLERLPGfeVVGVASSGEEALALLAEHRPDLILLDIYLPDGDGLELLRELRARgPDVDVIVI 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 489826381  78 TAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKN 119
Cdd:COG4565   84 TAARDPETVREALRAGVVDYLIKPFTFERLREALERYLEYRR 125
REC_hyHK cd17598
phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase ...
 3-112 1.38e-18

phosphoacceptor receiver (REC) domain of uncharacterized hybrid sensor histidine kinase/response regulators; Typically, two-component regulatory systems (TCSs) consist of a sensor (histidine kinase) that responds to specific input(s) by modifying the output of a cognate response regulator (RR). TCSs allow organisms to sense and respond to changes in environmental conditions. Hybrid sensor histidine kinase/response regulators contain all the elements of a classical TCS in a single polypeptide chain. RRs share the common phosphoacceptor REC domain and different effector/output domains such as DNA, RNA, ligand-binding, protein-binding, or enzymatic domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381128 [Multi-domain]  Cd Length: 118  Bit Score: 78.14  E-value: 1.38e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIIILTA 79
Cdd:cd17598    1 ILIVEDSPTQAEQLKHILEEQGYKVQVARNGREALAMLAEHRPTLVISDIVMPEMDGYELCRKIKSdpdLKDIPVILLTT 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:cd17598   81 LSDPRDVIRGLECGADNFITKPYDEKYLLSRIK 113
CadC1 COG3710
DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];
136-225 5.74e-18

DNA-binding winged helix-turn-helix (wHTH) domain [Transcription];


Pssm-ID: 442924 [Multi-domain]  Cd Length: 106  Bit Score: 76.10  E-value: 5.74e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 136 FKISKRTREIFYQGELLdALTPKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDErTVDVHIKRLRQKIATETKP--F 213
Cdd:COG3710    8 FRLDPARRELLRDGEPV-RLSPRAFDLLLLLLEHPGRVVSRDELLAAVWPGRVVSDN-SLTQAISRLRKALGDDGLEprL 85

                         90
                 ....*....|..
gi 489826381 214 LHTVWGVGYKFD 225
Cdd:COG3710   86 IRTVPRRGYRLV 97
REC_2_DhkD-like cd17580
second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal ...
 4-111 6.51e-18

second phosphoacceptor receiver (REC) domain of Dictyostelium discoideum hybrid signal transduction histidine kinase D and similar domains; Dictyostelium discoideum hybrid signal transduction histidine kinase D (DhkD) is a large protein that contains two histidine kinase (HK) and two REC domains on the intracellular side of a single pass transmembrane domain, and extracellular PAS and PAC domains that likely are involved in ligand binding. This model represents the second REC domain and similar domains. DhkD activates the cAMP phosphodiesterase RegA to ensure proper prestalk and prespore patterning, tip formation, and the vertical elongation of the mound into a finger, in Dictyostelium discoideum. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381118 [Multi-domain]  Cd Length: 112  Bit Score: 75.96  E-value: 6.51e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIIILTAK 80
Cdd:cd17580    2 LVVDDNEDAAEMLALLLELEGAEVTTAHSGEEALEAAQRFRPDVILSDIGMPGMDGYELARRLRElpwLANTPAIALTGY 81

                         90       100       110
                 ....*....|....*....|....*....|.
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARI 111
Cdd:cd17580   82 GQPEDRERALEAGFDAHLVKPVDPDELIELI 112
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 2-101 1.85e-17

Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443786 [Multi-domain]  Cd Length: 103  Bit Score: 74.81  E-value: 1.85e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFmKEEIDATFVH---DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIIL 77
Cdd:COG4753    1 KVLIVDDEPLIREGLKRIL-EWEAGFEVVGeaeNGEEALELLEEHKPDLVITDINMPGMDGLELLEAIRELDpDTKIIIL 79

                         90       100
                 ....*....|....*....|....
gi 489826381  78 TAKESESDQVLGLEMGADDYVTKP 101
Cdd:COG4753   80 SGYSDFEYAQEAIKLGADDYLLKP 103
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 32-102 2.49e-17

phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar domains; Pseudomonas aeruginosa cyclic di-GMP phosphodiesterase PA4781 contains an N-terminal REC domain and a C-terminal catalytic HD-GYP domain, characteristics of RpfG family response regulators. PA4781 is involved in cyclic di-3',5'-GMP (c-di-GMP) hydrolysis/degradation in a two-step reaction via the linear intermediate pGpG to produce GMP. Its unphosphorylated REC domain prevents accessibility of c-di-GMP to the active site. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381147 [Multi-domain]  Cd Length: 103  Bit Score: 74.47  E-value: 2.49e-17
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILTAKESESDQVLGLEMGADDYVTKPF 102
Cdd:cd19920   30 DGQQALQRAQAEPPDLILLDVMMPGMDGFEVCRRLKadpATRHIPVIFLTALTDTEDKVKGFELGAVDYITKPF 103
REC_NtrC1-like cd17572
phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex ...
 3-102 1.08e-16

phosphoacceptor receiver (REC) domain of nitrogen regulatory protein C 1 (NtrC1) from Aquifex aeolicus and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include Aquifex aeolicus NtrC1 and Vibrio quorum-sensing signal integrator LuxO. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381114 [Multi-domain]  Cd Length: 121  Bit Score: 73.39  E-value: 1.08e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSD-VPIIILTAKE 81
Cdd:cd17572    1 VLLVEDSPSLAALYQEYLSDEGYKVTHVETGKEALAFLSDQPPDVVLLDLKLPDMSGMEILKWIQERSLpTSVIVITAHG 80

                         90       100
                 ....*....|....*....|.
gi 489826381  82 SESDQVLGLEMGADDYVTKPF 102
Cdd:cd17572   81 SVDIAVEAMRLGAYDFLEKPF 101
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 2-114 2.25e-15

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY4 and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381110 [Multi-domain]  Cd Length: 118  Bit Score: 69.64  E-value: 2.25e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS---DVPIIILT 78
Cdd:cd17562    2 KILAVDDSASIRQMVSFTLRGAGYEVVEAADGRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKLPaykFTPILMLT 81

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  79 AKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:cd17562   82 TESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKV 117
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 2-101 2.98e-15

phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; Pseudomonas aeruginosa RssB is an orphan atypical response regulator containing a REC domain and a PP2C-type protein phosphatase output domain. Its function is still unknown. Escherichia RssB, which is not included in this subfamily, is a ClpX adaptor protein which alters ClpX specificity by mediating a specific interaction between ClpX and the substrates such as RpoS, an RNA polymerase sigma factor. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381107 [Multi-domain]  Cd Length: 116  Bit Score: 69.15  E-value: 2.98e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFmkEEIDATFVH--DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILT 78
Cdd:cd17555    2 TILVIDDDEVVRESIAAYL--EDSGFQVLQaaDGRQGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESpDTPVIVVS 79

                         90       100
                 ....*....|....*....|...
gi 489826381  79 AKESESDQVLGLEMGADDYVTKP 101
Cdd:cd17555   80 GAGVMSDAVEALRLGAWDYLTKP 102
spore_0_A TIGR02875
sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a ...
 1-140 1.72e-14

sporulation transcription factor Spo0A; Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. [Cellular processes, Sporulation and germination]


Pssm-ID: 131922 [Multi-domain]  Cd Length: 262  Bit Score: 70.59  E-value: 1.72e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381    1 MKLLMIEDNVSVCEMIEMFF-MKEEIDATFV-HDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVP---II 75
Cdd:TIGR02875   3 IRIVIADDNKEFCNLLKEYLaAQPDMEVVGVaHNGVDALELIKEQQPDVVVLDIIMPHLDGIGVLEKLNEIELSArprVI 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489826381   76 ILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVtrrknsASPAENNEDILETTYFKISK 140
Cdd:TIGR02875  83 MLSAFGQEKITQRAVALGADYYVLKPFDLEILAARIRQL------AWGTNADILADSPTVPPASH 141
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 32-116 2.40e-14

phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family response regulators; The NarL family is one of the more abundant families of DNA-binding response regulators (RRs). Members of the NarL family contain a REC domain and a helix-turn-helix (HTH) DNA-binding output domain, with a majority of members containing a LuxR-type HTH domain. They function as transcriptional regulators. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381090 [Multi-domain]  Cd Length: 117  Bit Score: 66.77  E-value: 2.40e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR-EVSDVPIIILTAKEsESDQVLG-LEMGADDYVTKPFSPLTLMA 109
Cdd:cd17535   32 DGEEALALLRELRPDVVLMDLSMPGMDGIEALRRLRrRYPDLKVIVLTAHD-DPEYVLRaLKAGAAGYLLKDSSPEELIE 110


                 ....*..
gi 489826381 110 RIKAVTR 116
Cdd:cd17535  111 AIRAVAA 117
REC_RR468-like cd17552
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and ...
 2-114 4.24e-14

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator RR468 and similar domains; Thermotoga maritima RR468 (encoded by gene TM0468) is the cognate response regulator (RR) of the class I histidine kinase HK853 (product of gene TM0853). HK853/RR468 comprise a two-component system (TCS) that couples environmental stimuli to adaptive responses. This subfamily also includes Fremyella diplosiphon complementary adaptation response regulator homolog RcaF, a small RR that is involved in four-step phosphorelays of the complementary chromatic adaptation (CCA) system that occurs in many cyanobacteria. Both RR468 and RcaF are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381104 [Multi-domain]  Cd Length: 121  Bit Score: 66.42  E-value: 4.24e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMK----EEIDATfvhDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPI 74
Cdd:cd17552    3 RILVIDDEEDIREVVQACLEKlagwEVLTAS---SGQEGLEKAATEQPDAILLDVMMPDMDGLATLKKLQanpETQSIPV 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489826381  75 IILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:cd17552   80 ILLTAKAQPSDRQRFASLGVAGVIAKPFDPLTLAEQIAKL 119
PRK15369 PRK15369
two component system response regulator;
29-134 5.91e-14

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 68.18  E-value: 5.91e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  29 FVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTL 107
Cdd:PRK15369  34 QVDNGLEVYNACRQLEPDIVILDLGLPGMNGLDVIPQLHQRwPAMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQIL 113

                         90       100
                 ....*....|....*....|....*..
gi 489826381 108 MARIKAVTRRKNSASPAENNEDILETT 134
Cdd:PRK15369 114 LAAIQTVAVGKRYIDPALNREAILALL 140
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 3-111 1.21e-13

phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; Helicobacter pylori response regulator hp1043 (HP-RR) is an orphan response regulator which is phosphorylation-independent and is essential for growth. HP-RR functions as a cell growth-associated regulator in the absence of post-translational modification. Members of this subfamily contain REC and DNA-binding output domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 64.76  E-value: 1.21e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKE 81
Cdd:cd17573    1 ILLIEDDSTLGKEISKGLNEKGYQADVAESLKDGEYYIDIRNYDLVLVSDKLPDGNGLSIVSRIKEKHpSIVVIVLSDNP 80

                         90       100       110
                 ....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARI 111
Cdd:cd17573   81 KTEQEIEAFKEGADDYIAKPFDFKVLVARI 110
REC_PatA-like cd17602
phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) ...
 6-101 2.43e-13

phosphoacceptor receiver (REC) domain of PatA and similar domains; Nostoc sp. (or Anabaena sp.) PatA is necessary for proper patterning of heterocysts along filaments. PatA contains phosphoacceptor REC domain at its C-terminus and an N-terminal PATAN (PatA N-terminus) domain, which was proposed in a bioinformatics study to mediate protein-protein interactions. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members of this group may have an inactive REC domain, lacking canonical metal-binding and active site residues.


Pssm-ID: 381129 [Multi-domain]  Cd Length: 102  Bit Score: 63.93  E-value: 2.43e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   6 IEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS---DVPIIILTAKES 82
Cdd:cd17602    4 VDDRPSIQKMIEYFLEKQGFRVVVIDDPLRALTTLLNSKPDLILIDIDMPDLDGYELCSLLRKSSalkDTPIIMLTGKDG 83

                         90
                 ....*....|....*....
gi 489826381  83 ESDQVLGLEMGADDYVTKP 101
Cdd:cd17602   84 LVDRIRAKMAGASGYLTKP 102
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 3-117 3.09e-13

phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators; This family is composed of uncharacterized response regulators that contain a REC domain and a AraC family helix-turn-helix (HTH) DNA-binding output domain, including Bacillus subtilis uncharacterized transcriptional regulatory protein YesN and Staphylococcus aureus uncharacterized response regulatory protein SAR0214. YesN is a member of the two-component regulatory system YesM/YesN and SAR0214 is a member of the probable two-component regulatory system SAR0215/SAR0214. Also included in this family is the AlgR-like group of LytTR/AlgR family response, which includes Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR and Bacillus subtilis sensory transduction protein LytT, among others. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381091 [Multi-domain]  Cd Length: 121  Bit Score: 63.90  E-value: 3.09e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVH---DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILT 78
Cdd:cd17536    1 VLIVDDEPLIREGLKKLIDWEELGFEVVGeaeNGEEALELIEEHKPDIVITDIRMPGMDGLELIEKIRELYpDIKIIILS 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 489826381  79 -------AKEsesdqvlGLEMGADDYVTKPFSPLTLMARIKAVTRR 117
Cdd:cd17536   81 gyddfeyAQK-------AIRLGVVDYLLKPVDEEELEEALEKAKEE 119
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 32-206 5.13e-13

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 65.44  E-value: 5.13e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMAR 110
Cdd:PRK10651  40 NGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSlSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKA 119

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 111 IKAVTRRKNSASPAENNedILETTyfkISKRTREifyQGELLDALTPKEFDLLYFLMQ-HPRQVFSREQLLEqvwgyqfy 189
Cdd:PRK10651 120 LQQAAAGEMVLSEALTP--VLAAS---LRANRAT---TERDVNQLTPRERDILKLIAQgLPNKMIARRLDIT-------- 183

                        170
                 ....*....|....*..
gi 489826381 190 gdERTVDVHIKRLRQKI 206
Cdd:PRK10651 184 --ESTVKVHVKHMLKKM 198
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 2-132 9.23e-13

DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443624 [Multi-domain]  Cd Length: 177  Bit Score: 64.17  E-value: 9.23e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAK 80
Cdd:COG4567    6 SLLLVDDDEAFARVLARALERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDpDARIVVLTGY 85

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDILE 132
Cdd:COG4567   86 ASIATAVEAIKLGADDYLAKPADADDLLAALERAEGDAPAPPENPMSLDRLE 137
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 1-117 1.61e-12

phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and similar domains; Thermotoga maritima contains a two-component signal transduction system (TCS) composed of the ThkA sensory histidine kinase (HK) and its cognate response regulator (RR) TrrA; the specific function of the system is unknown. TCSs couple environmental stimuli to adaptive responses. TrrA is a stand-alone RR containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381106 [Multi-domain]  Cd Length: 113  Bit Score: 61.85  E-value: 1.61e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTA 79
Cdd:cd17554    1 KKILVVDDEENIRELYKEELEDEGYEVVTAGNGEEALEKLESEDPDLVILDIKMPGMDGLETLRKIREKkPDLPVIICTA 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  80 KeSESDQVLGLeMGADDYVTKPfSPLTLmarIKAVTRR 117
Cdd:cd17554   81 Y-SEYKSDFSS-WAADAYVVKS-SDLTE---LKETIKR 112
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 32-114 2.36e-12

phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY family proteins; CheY family chemotaxis response regulators (RRs) comprise about 17% of bacterial RRs and almost half of all RRs in archaea. This subfamily contains Vibrio cholerae CheY3, Escherichia coli CheY, and similar CheY family RRs. CheY proteins control bacterial motility and participate in signaling phosphorelays and in protein-protein interactions. CheY RRs contain only the REC domain with no output/effector domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381150 [Multi-domain]  Cd Length: 119  Bit Score: 61.59  E-value: 2.36e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLM 108
Cdd:cd19923   33 DGVDALEKLKAGGFDFVITDWNMPNMDGLELLKTIRadgALSHLPVLMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLK 112


                 ....*.
gi 489826381 109 ARIKAV 114
Cdd:cd19923  113 EKLEKI 118
REC_CheV-like cd19924
phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This ...
 3-101 4.76e-12

phosphoacceptor receiver (REC) domain of chemotaxis protein CheV and similar proteins; This subfamily includes the REC domains of Bacillus subtilis chemotaxis protein CheV, Myxococcus xanthus gliding motility regulatory protein FrzE, and similar proteins. CheV is a hybrid protein with an N-terminal CheW-like domain and a C-terminal CheY-like REC domain. The CheV pathway is one of three systems employed by B. subtilis for sensory adaptation that contribute to chemotaxis. It is involved in the transmission of sensory signals from chemoreceptors to flagellar motors. Together with CheW, it is involved in the coupling of methyl-accepting chemoreceptors to the central two-component histidine kinase CheA. FrzE is a hybrid sensor histidine kinase/response regulator that is part of the Frz pathway that controls cell reversal frequency to support directional motility during swarming and fruiting body formation. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381151 [Multi-domain]  Cd Length: 111  Bit Score: 60.47  E-value: 4.76e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFK---------DEYDIAIIDLMLPNMDGMTICRKIRE---VS 70
Cdd:cd19924    1 ILVVDDSPTARKQLRDLLKNLGFEIAEAVDGEEALNKLENlakegndlsKELDLIITDIEMPKMDGYELTFELRDdprLA 80

                         90       100       110
                 ....*....|....*....|....*....|.
gi 489826381  71 DVPIIILTAKESESDQVLGLEMGADDYVTKP 101
Cdd:cd19924   81 NIPVILNSSLSGEFSRARGKKVGADAYLAKF 111
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 1-147 7.29e-12

DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction mechanisms];


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 62.53  E-value: 7.29e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKE---EIDATFvHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIIL 77
Cdd:COG3279    2 MKILIVDDEPLARERLERLLEKYpdlEVVGEA-SNGEEALELLEEHKPDLVFLDIQMPGLDGFELARQLRELDPPPPIIF 80

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381  78 TakeSESDQ--VLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDILETTYFKISKRTR-----EIFY 147
Cdd:COG3279   81 T---TAYDEyaLEAFEVNAVDYLLKPIDEERLAKALEKAKERLEAKAAAEASPEEKDRIFVKSGGKLVkipldDILY 154
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 2-116 1.04e-11

phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and similar domains; This family is composed of response regulators (RRs) that are members of phytochrome-associated, light-sensing two-component signal transduction pathways such as Synechocystis sp. Rcp1, Tolypothrix sp. RcpA, and Agrobacterium tumefaciens bacteriophytochrome response regulator AtBRR. They are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. Also included in this family us Methanosaeta harundinacea methanogenesis regulatory protein FilR2, also a stand-alone RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381108 [Multi-domain]  Cd Length: 129  Bit Score: 60.12  E-value: 1.04e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDA--TFVHDGKQGYEAFFK-DEYDIA------IIDLMLPNMDGMTICRKIR---EV 69
Cdd:cd17557    1 TILLVEDNPGDAELIQEAFKEAGVPNelHVVRDGEEALDFLRGeGEYADAprpdliLLDLNMPRMDGFEVLREIKadpDL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 489826381  70 SDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTR 116
Cdd:cd17557   81 RRIPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSLGE 127
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 42-109 1.71e-11

phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and similar domains; Type-B ARRs (Arabidopsis response regulators) are a class of MYB-type transcription factors that act as major players in the transcriptional activation of cytokinin-responsive genes. They directly regulate the expression of type-A ARR genes and other downstream target genes. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Cytokinin signaling involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-B ARRs contain a receiver (REC) domain and a large C-terminal extension that has characteristics of an effector or output domain, with a Myb-like DNA binding domain referred to as the GARP domain. The GARP domain is a motif specific to plant transcription factors. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381121 [Multi-domain]  Cd Length: 115  Bit Score: 59.18  E-value: 1.71e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489826381  42 KDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMA 109
Cdd:cd17584   42 KDEFDLVITDVHMPDMDGFEFLELIRLEMDLPVIMMSADGSTSTVMKGLAHGACDYLLKPVSIEDLKN 109
REC_Spo0A cd17561
phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the ...
 2-102 1.77e-11

phosphoacceptor receiver (REC) domain of Spo0A; Spo0A is a response regulator of the phosphorelay system in the early stage of spore formation. It may be an element of the effector pathway responsible for the activation of sporulation genes in response to nutritional stress and may act in the with sigma factor spo0H to control the expression of some genes that are critical to the sporulation process. Spo0A contains a regulatory N-terminal REC domain and a C-terminal DNA-binding transcription activation domain as its effector/output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381109 [Multi-domain]  Cd Length: 108  Bit Score: 58.77  E-value: 1.77e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFF-MKEEIDATFV-HDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPIII 76
Cdd:cd17561    3 KVLIADDNREFVQLLEEYLnSQPDMEVVGVaHNGQEALELIEEKEPDVLLLDIIMPHLDGIGVLEKLRRmrlEKRPKIIM 82

                         90       100
                 ....*....|....*....|....*.
gi 489826381  77 LTAKESESDQVLGLEMGADDYVTKPF 102
Cdd:cd17561   83 LTAFGQEDITQRAVELGASYYILKPF 108
psREC-like_D2_PleD cd17539
REC-like adaptor domain (D2) of response regulator PleD; PleD contains a REC domain (D1) with ...
 4-118 1.78e-11

REC-like adaptor domain (D2) of response regulator PleD; PleD contains a REC domain (D1) with the phosphorylatable aspartate, a pseudo receiver (psREC)-like adaptor domain (D2), and the enzymatic diguanylate cyclase (DGC) domain, also called the GGDEF domain according to a conserved sequence motif, as its output domain. The GGDEF-containing PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes the REC-like adaptor domain D2 of PleD, which is an inactive domain.


Pssm-ID: 381094 [Multi-domain]  Cd Length: 124  Bit Score: 59.25  E-value: 1.78e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEiDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS---DVPIIILTAK 80
Cdd:cd17539    2 LLVDDRPSSAERIAAMLSSEH-EVVVEADPDEALFRAAEGPFDLVIVSLALEDFDGLRLCSQLRSLErtrQLPILAVADP 80

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRK 118
Cdd:cd17539   81 GDRGRLIRALEIGVNDYLVRPIDPNELLARVRTQIRRK 118
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 2-112 2.01e-11

phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus DivK is an essential response regulator that is involved in the complex phosphorelay pathways controlling both cell division and motility. It localizes cell cycle regulators to specific poles of the cell during division. DivK contains a stand-alone REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381100 [Multi-domain]  Cd Length: 115  Bit Score: 59.09  E-value: 2.01e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVS----VCEMIEmFFMKEEIDATfvhDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPI 74
Cdd:cd17548    1 KILIVEDNPLnmklARDLLE-SAGYEVLEAA---DGEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKEdpaTRDIPV 76

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  75 IILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:cd17548   77 IALTAYAMKGDREKILEAGCDGYISKPIDTREFLETVA 114
REC_Ycf29 cd19927
phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a ...
 3-101 6.87e-11

phosphoacceptor receiver (REC) domain of probable transcriptional regulator Ycf29; Ycf29 is a probable response regulator of a two-component system (TCS), typically consisting a sensor and a response regulator, that functions in adaptation to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis, and membrane transport. Ycf29 contains an N-terminal REC domain and a LuxR-type helix-turn-helix DNA-binding output domain. REC domains function as phosphorylation-mediated switches within RRs, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381154 [Multi-domain]  Cd Length: 102  Bit Score: 57.39  E-value: 6.87e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFmkeeIDATF-VHDGKQGYEAF-FKDEY--DIAIIDLMLPNMDGMTICRKIREVSD---VPII 75
Cdd:cd19927    1 ILLVDDDPGIRLAVKDYL----EDQGFtVIAASNGLEALdLLNQYipDLIISDIIMPGVDGYSLLGKLRKNADfdtIPVI 76

                         90       100
                 ....*....|....*....|....*.
gi 489826381  76 ILTAKESESDQVLGLEMGADDYVTKP 101
Cdd:cd19927   77 FLTAKGMTSDRIKGYNAGCDGYLSKP 102
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 4-117 7.30e-11

phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and similar proteins; C4-dicarboxylic acid transport protein D (DctD) is part of the two-component regulatory system DctB/DctD, which regulates C4-dicarboxylate transport via regulation of expression of the dctPQM operon and dctA. It is an activator of sigma(54)-RNA polymerase holoenzyme that uses the energy released from ATP hydrolysis to stimulate the isomerization of a closed promoter complex to an open complex capable of initiating transcription. DctD is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381101 [Multi-domain]  Cd Length: 130  Bit Score: 57.88  E-value: 7.30e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKES 82
Cdd:cd17549    2 LLVDDDADVREALQQTLELAGFRVRAFADAEEALAALSPDFPGVVISDIRMPGMDGLELLAQIRELdPDLPVILITGHGD 81

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  83 ESDQVLGLEMGADDYVTKPFSPLTLMARIK-AVTRR 117
Cdd:cd17549   82 VPMAVEAMRAGAYDFLEKPFDPERLLDVVRrALEKR 117
pleD PRK09581
response regulator PleD; Reviewed
 2-118 1.92e-10

response regulator PleD; Reviewed


Pssm-ID: 236577 [Multi-domain]  Cd Length: 457  Bit Score: 59.91  E-value: 1.92e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMI-EMffMKEEIDATFVHDGKqgyEAFFK---DEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPI 74
Cdd:PRK09581 157 RILLVDDDVSQAERIaNI--LKEEFRVVVVSDPS---EALFNaaeTNYDLVIVSANFENYDPLRLCSQLRskeRTRYVPI 231

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 489826381  75 IILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRK 118
Cdd:PRK09581 232 LLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIRRK 275
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
2-117 2.96e-10

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 59.09  E-value: 2.96e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAK 80
Cdd:PRK11361   6 RILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIKALKEMRSHEtRTPVILMTAY 85

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 489826381  81 ESESDQVLGLEMGADDYVTKPFSpltlMARIKAVTRR 117
Cdd:PRK11361  86 AEVETAVEALRCGAFDYVIKPFD----LDELNLIVQR 118
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 30-117 4.17e-10

Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding antiterminator (ANTAR) domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 442921 [Multi-domain]  Cd Length: 194  Bit Score: 57.27  E-value: 4.17e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  30 VHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMA 109
Cdd:COG3707   34 AADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQISEERPAPVILLTAYSDPELIERALEAGVSAYLVKPLDPEDLLP 113


                 ....*...
gi 489826381 110 RIKAVTRR 117
Cdd:COG3707  114 ALELALAR 121
PRK10365 PRK10365
sigma-54-dependent response regulator transcription factor ZraR;
1-102 6.13e-10

sigma-54-dependent response regulator transcription factor ZraR;


Pssm-ID: 182412 [Multi-domain]  Cd Length: 441  Bit Score: 58.12  E-value: 6.13e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSD-VPIIILTA 79
Cdd:PRK10365   6 IDILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIATLKEIKALNPaIPVLIMTA 85

                         90       100
                 ....*....|....*....|...
gi 489826381  80 KESESDQVLGLEMGADDYVTKPF 102
Cdd:PRK10365  86 YSSVETAVEALKTGALDYLIKPL 108
REC smart00448
cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar ...
 1-55 6.30e-10

cheY-homologous receiver domain; CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues.


Pssm-ID: 214668 [Multi-domain]  Cd Length: 55  Bit Score: 53.34  E-value: 6.30e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 489826381     1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLP 55
Cdd:smart00448   1 MRILVVDDDPLLRELLKALLEKEGYEVDEATDGEEALELLKEEKPDLILLDIMMP 55
REC_DC-like cd17534
phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; ...
 1-112 1.00e-09

phosphoacceptor receiver (REC) domain of modulated diguanylate cyclase and similar domains; This groups includes a modulated diguanylate cyclase containing a PAS sensor domain from Desulfovibrio desulfuricans G20. Members of this group contain N-terminal REC domains and various output domains including the GGDEF, histidine kinase, and helix-turn-helix (HTH) DNA binding domains. Also included in this family is Mycobacterium tuberculosis PdtaR, a transcriptional antiterminator that contains a REC domain and an ANTAR RNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381089 [Multi-domain]  Cd Length: 117  Bit Score: 54.34  E-value: 1.00e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKE--EIDATfVHDGKQGYEAFFKDEYDIAIIDLMLP-NMDGMTICRKIREVSDVPIIIL 77
Cdd:cd17534    1 KKILIVEDEAIIALDLKEILESLgyEVVGI-ADSGEEAIELAEENKPDLILMDINLKgDMDGIEAAREIREKFDIPVIFL 79

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 489826381  78 TAKESES--DQVLGLEmgADDYVTKPFSPLTLMARIK 112
Cdd:cd17534   80 TAYSDEEtlERAKETN--PYGYLVKPFNERELKAAIE 114
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 3-103 1.37e-09

phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and similar proteins; NtrX is part of the two-component regulatory system NtrY/NtrX that is involved in the activation of nitrogen assimilatory genes such as Gln. It is phosphorylated by the histidine kinase NtrY and interacts with sigma-54. NtrX is a member of the NtrC family, characterized by a domain architecture containing an N-terminal REC domain, followed by a central sigma-54 interaction/ATPase domain, and a C-terminal DNA binding domain. NtrC family response regulators are sigma54-dependent transcriptional activators. Also included in this subfamily is Aquifex aeolicus NtrC4. The ability of the central domain to hydrolyze ATP and thus to interact effectively with a complex of RNA polymerase, sigma54, and promoter, is controlled by the phosphorylation status of the REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381102 [Multi-domain]  Cd Length: 115  Bit Score: 54.04  E-value: 1.37e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKE 81
Cdd:cd17550    1 ILIVDDEEDIRESLSGILEDEGYEVDTAADGEEALKLIKERRPDLVLLDIWLPDMDGLELLKEIKEKYpDLPVIMISGHG 80

                         90       100
                 ....*....|....*....|..
gi 489826381  82 SESDQVLGLEMGADDYVTKPFS 103
Cdd:cd17550   81 TIETAVKATKLGAYDFIEKPLS 102
PRK10610 PRK10610
chemotaxis protein CheY;
1-114 1.71e-09

chemotaxis protein CheY;


Pssm-ID: 170568 [Multi-domain]  Cd Length: 129  Bit Score: 54.21  E-value: 1.71e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFmkEEIDATFVHDGKQGYEAFFK---DEYDIAIIDLMLPNMDGMTICRKIRE---VSDVPI 74
Cdd:PRK10610   6 LKFLVVDDFSTMRRIVRNLL--KELGFNNVEEAEDGVDALNKlqaGGFGFVISDWNMPNMDGLELLKTIRAdgaMSALPV 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489826381  75 IILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAV 114
Cdd:PRK10610  84 LMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKI 123
REC_WspR-like cd17575
phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The ...
 4-112 1.97e-09

phosphoacceptor receiver (REC) domain of WspR response regulator and similar proteins; The GGDEF response regulator WspR is part of the Wsp system that is homologous to chemotaxis systems and also includes the membrane-bound receptor protein WspA. In response to growth on surfaces, WspR is phosphorylated by the Wsp signal transduction complex and is activated, functioning as a diguanylate cyclase (DGC) that catalyzes c-di-GMP synthesis. WspR is a hybrid response regulator-diguanylate cyclase, containing an N-terminal REC domain and a C-terminal GGDEF domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381117 [Multi-domain]  Cd Length: 128  Bit Score: 53.95  E-value: 1.97e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEE-IDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIR---EVSDVPIIILTA 79
Cdd:cd17575    4 LLVDDQAIIGEAVRRALADEEdIDFHYCSDPTEAIEVASQIKPTVILQDLVMPGVDGLTLVRFFRanpATRDIPIIVLST 83

                         90       100       110
                 ....*....|....*....|....*....|...
gi 489826381  80 KESESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:cd17575   84 KEEPEVKSEAFALGANDYLVKLPDKIELVARIR 116
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 2-102 2.00e-09

phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; DNA-binding transcriptional regulator NtrC is also called nitrogen regulation protein NR(I) or nitrogen regulator I (NRI). It contains an N-terminal receiver (REC) domain, followed by a sigma-54 interaction domain, and a C-terminal helix-turn-helix DNA-binding domain. It is part of the two-component regulatory system NtrB/NtrC, which controls expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. DNA-binding response regulator NtrC is phosphorylated by NtrB; phosphorylation of the N-terminal REC domain activates the central sigma-54 interaction domain and leads to the transcriptional activation from promoters that require sigma(54)-containing RNA polymerase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381146 [Multi-domain]  Cd Length: 116  Bit Score: 53.43  E-value: 2.00e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTAK 80
Cdd:cd19919    2 TVWIVDDDSSIRWVLERALAGAGLTVTSFENAQEALAALASSQPDVLISDIRMPGMDGLALLAQIKQrHPDLPVIIMTAH 81

                         90       100
                 ....*....|....*....|..
gi 489826381  81 ESESDQVLGLEMGADDYVTKPF 102
Cdd:cd19919   82 SDLDSAVSAYQGGAFEYLPKPF 103
PRK15115 PRK15115
response regulator GlrR; Provisional
 3-131 3.41e-09

response regulator GlrR; Provisional


Pssm-ID: 185070 [Multi-domain]  Cd Length: 444  Bit Score: 56.00  E-value: 3.41e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKE 81
Cdd:PRK15115   8 LLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQLFAEIQKVQpGMPVIILTAHG 87

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENNEDIL 131
Cdd:PRK15115  88 SIPDAVAATQQGVFSFLTKPVDRDALYKAIDDALEQSAPATDERWREAIV 137
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 30-111 4.54e-09

second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins, described in this model, contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381098 [Multi-domain]  Cd Length: 122  Bit Score: 52.91  E-value: 4.54e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  30 VHDGKQGYEAFfKDEYDI--AIIDLMLPNMDGMTICRKIREV---SDVPIIILTAKESESDQVLGLEMGADDYVTKPFSP 104
Cdd:cd17544   30 AANGQEALEVL-EQHPDIklVITDYNMPEMDGFELVREIRKKysrDQLAIIGISASGDNALSARFIKAGANDFLTKPFLP 108


                 ....*..
gi 489826381 105 LTLMARI 111
Cdd:cd17544  109 EEFYCRV 115
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 1-107 7.50e-09

phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate methylesterase CheB and similar chemotaxis proteins; Methylesterase CheB is a chemotaxis response regulator with an N-terminal REC domain and a C-terminal methylesterase domain. Chemotaxis is a behavior known in motile bacteria that directs their movement in response to chemical gradients. CheB is a phosphorylation-activated response regulator involved in the reversible modification of bacterial chemotaxis receptors. It catalyzes the demethylation of specific methylglutamate residues introduced into the chemoreceptors (methyl-accepting chemotaxis proteins) by CheR. The CheB REC domain packs against the active site of the C-terminal domain and inhibits methylesterase activity by directly restricting access to the active site. Also included in this family is chemotaxis response regulator CheY, which contains a stand-alone REC domain, and an uncharacterized subfamily composed of proteins containing an N-terminal REC domain and a C-terminal CheY-P phosphatase (CheC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381096 [Multi-domain]  Cd Length: 125  Bit Score: 52.39  E-value: 7.50e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKE-EID-ATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILT 78
Cdd:cd17541    1 IRVLIVDDSAVMRKLLSRILESDpDIEvVGTARDGEEALEKIKELKPDVITLDIEMPVMDGLEALRRIMAERPTPVVMVS 80

                         90       100       110
                 ....*....|....*....|....*....|.
gi 489826381  79 A-KESESDQVL-GLEMGADDYVTKPFSPLTL 107
Cdd:cd17541   81 SlTEEGAEITLeALELGAVDFIAKPSGGISL 111
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 3-112 9.68e-09

phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate/nitrite response regulator protein NarL contains an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. Escherichia coli NarL activates the expression of the nitrate reductase (narGHJI) and formate dehydrogenase-N (fdnGHI) operons, and represses the transcription of the fumarate reductase (frdABCD) operon in response to a nitrate/nitrite induction signal. Phosphorylation of the NarL REC domain releases the C-terminal HTH output domain that subsequently binds specific DNA promoter sites to repress or activate gene expression. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381158 [Multi-domain]  Cd Length: 117  Bit Score: 51.96  E-value: 9.68e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNV----SVCEMIEMffmkeEIDATFVHD---GKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPI 74
Cdd:cd19931    1 VLLIDDHPllrkGIKQLIEL-----DPDFTVVGEassGEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGvSARI 75

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  75 IILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIK 112
Cdd:cd19931   76 VILTVSDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 32-114 1.19e-08

phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response regulator CheY contains a stand-alone REC domain. Chemotaxis is a behavior known for motile bacteria that directs their movement in response to chemical gradients. CheY is involved in transmitting sensory signals from chemoreceptors to the flagellar motors. Phosphorylated CheY interacts with the flagella switch components FliM and FliY, which causes counterclockwise rotation of the flagella, resulting in smooth swimming. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381097 [Multi-domain]  Cd Length: 117  Bit Score: 51.51  E-value: 1.19e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMAR 110
Cdd:cd17542   33 NGEEAVEKYKELKPDLVTMDITMPEMDGIEALKEIKKIdPNAKVIMCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEA 112


                 ....
gi 489826381 111 IKAV 114
Cdd:cd17542  113 VEKV 116
REC_RegA-like cd17563
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ...
 1-101 1.70e-08

phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381111 [Multi-domain]  Cd Length: 112  Bit Score: 50.90  E-value: 1.70e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTA 79
Cdd:cd17563    1 KSLLLVDDDEVFAERLARALERRGFEVETAHSVEEALALAREEKPDYAVLDLRLGGDSGLDLIPPLRAlQPDARIVVLTG 80

                         90       100
                 ....*....|....*....|..
gi 489826381  80 KESESDQVLGLEMGADDYVTKP 101
Cdd:cd17563   81 YASIATAVEAIKLGADDYLAKP 102
PRK00742 PRK00742
chemotaxis-specific protein-glutamate methyltransferase CheB;
46-124 6.63e-08

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 234828 [Multi-domain]  Cd Length: 354  Bit Score: 52.07  E-value: 6.63e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  46 DIAIIDLMLPNMDGMTICRKIREVSDVPIII---LTAKESESdQVLGLEMGADDYVTKPFSPL---------TLMARIKA 113
Cdd:PRK00742  51 DVITLDVEMPVMDGLDALEKIMRLRPTPVVMvssLTERGAEI-TLRALELGAVDFVTKPFLGIslgmdeykeELAEKVRA 129

                         90
                 ....*....|.
gi 489826381 114 VTRRKNSASPA 124
Cdd:PRK00742 130 AARARVRALPP 140
PRK12555 PRK12555
chemotaxis-specific protein-glutamate methyltransferase CheB;
31-101 3.98e-07

chemotaxis-specific protein-glutamate methyltransferase CheB;


Pssm-ID: 237135 [Multi-domain]  Cd Length: 337  Bit Score: 49.49  E-value: 3.98e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489826381  31 HDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTA-KESESDQVL-GLEMGADDYVTKP 101
Cdd:PRK12555  33 TDGAQAVERCAAQPPDVILMDLEMPRMDGVEATRRIMAERPCPILIVTSlTERNASRVFeAMGAGALDAVDTP 105
PRK11107 PRK11107
hybrid sensory histidine kinase BarA; Provisional
 30-101 6.20e-07

hybrid sensory histidine kinase BarA; Provisional


Pssm-ID: 236848 [Multi-domain]  Cd Length: 919  Bit Score: 49.46  E-value: 6.20e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381  30 VHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS---DVPIIILTAK--ESESDQVLGLEMgaDDYVTKP 101
Cdd:PRK11107 697 CDSGHQAVEQAKQRPFDLILMDIQMPGMDGIRACELIRQLPhnqNTPIIAVTAHamAGERERLLSAGM--DDYLAKP 771
REC_Spo0F-like cd17553
phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone ...
 2-102 6.32e-07

phosphoacceptor receiver (REC) domain of Spo0F and similar domains; Spo0F, a stand-alone response regulator containing only a REC domain with no output/effector domain, controls sporulation in Bacillus subtilis through the exchange of a phosphoryl group. Bacillus subtilis forms spores when conditions for growth become unfavorable. The initiation of sporulation is controlled by a phosphorelay (an expanded version of the two-component system) that consists of four main components: a histidine kinase (KinA), a secondary messenger (Spo0F), a phosphotransferase (Spo0B), and a transcription factor (Spo0A). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381105 [Multi-domain]  Cd Length: 117  Bit Score: 46.78  E-value: 6.32e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAK 80
Cdd:cd17553    2 KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQALDIVTKERPDLVLLDMKIPGMDGIEILKRMKVIdENIRVIIMTAY 81

                         90       100
                 ....*....|....*....|...
gi 489826381  81 eSESDQVL-GLEMGADDYVTKPF 102
Cdd:cd17553   82 -GELDMIQeSKELGALTHFAKPF 103
REC_PilR cd19926
phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR ...
 4-101 1.23e-06

phosphoacceptor receiver (REC) domain of type 4 fimbriae expression regulatory protein PilR and similar proteins; Pseudomonas aeruginosa PilR is the response regulator of the PilS/PilR two-component regulatory system (PilSR TCS) that acts in conjunction with sigma-54 to regulate the expression of type 4 pilus (T4P) major subunit PilA. In addition, the PilSR TCS regulates flagellum-dependent swimming motility and pilus-dependent twitching motility. PilR contains an N-terminal REC domain, a central sigma-54 interaction domain, and a C-terminal Fis-type helix-turn-helix DNA-binding domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381153 [Multi-domain]  Cd Length: 100  Bit Score: 45.61  E-value: 1.23e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIRE-VSDVPIIILTAKES 82
Cdd:cd19926    2 LVVDDEPDIRELLEITLGRMGLDVRSARNVKEARELLASEPYDLCLTDMRLPDGSGLELVQHIQQrLPQTPVAVITAYGS 81

                         90
                 ....*....|....*....
gi 489826381  83 ESDQVLGLEMGADDYVTKP 101
Cdd:cd19926   82 LDTAIEALKAGAFDFLTKP 100
PRK11091 PRK11091
aerobic respiration control sensor protein ArcB; Provisional
 4-112 1.48e-06

aerobic respiration control sensor protein ArcB; Provisional


Pssm-ID: 236842 [Multi-domain]  Cd Length: 779  Bit Score: 48.40  E-value: 1.48e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIED---NVSV-CEMIEMFFMKEEIDATfvhdGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDV----PII 75
Cdd:PRK11091 529 LLVEDielNVIVaRSVLEKLGNSVDVAMT----GKEALEMFDPDEYDLVLLDIQLPDMTGLDIARELRERYPRedlpPLV 604

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 489826381  76 ILTAkesesdQVLG-----LEMGADDYVTKPFSPLTLMARIK 112
Cdd:PRK11091 605 ALTA------NVLKdkkeyLDAGMDDVLSKPLSVPALTAMIK 640
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
24-206 1.81e-06

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 47.15  E-value: 1.81e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  24 EIDATF--VHDGKQGYEAFF---KDEYDIAIIDLMLPNMDGM-TICRKIREVSDVPIIILTAKESESDQVLGLEMGADDY 97
Cdd:PRK10403  27 ELDPGFevVAEAGDGASAIDlanRLDPDVILLDLNMKGMSGLdTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGY 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  98 VTKPFSPLTLMARIKAVTrrKNSASPAENNEDILettyfkiskRTREIFYQGEL-LDALTPKEFDLLYFLMQ--HPRQVF 174
Cdd:PRK10403 107 LLKDSDPEVLLEAIRAGA--KGSKVFSERVNQYL---------REREMFGAEEDpFSVLTERELDVLHELAQglSNKQIA 175

                        170       180       190
                 ....*....|....*....|....*....|..
gi 489826381 175 SREQLLEQvwgyqfygderTVDVHIKRLRQKI 206
Cdd:PRK10403 176 SVLNISEQ-----------TVKVHIRNLLRKL 196
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 38-206 2.35e-06

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 46.63  E-value: 2.35e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  38 EAFFK----DEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAkesESDqvlgLEM-------GADDYVTKPFSPL 105
Cdd:COG4566   33 EAFLAaldpDRPGCLLLDVRMPGMSGLELQEELAARgSPLPVIFLTG---HGD----VPMavramkaGAVDFLEKPFDDQ 105

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 106 TLMARI-KAVTRRKNSASPAENNEDILEttyfkiskrtreifyqgeLLDALTPKEfdllyflmqhpRQVFsrEQLLE--- 181
Cdd:COG4566  106 ALLDAVrRALARDRARRAERARRAELRA------------------RLASLTPRE-----------REVL--DLVVAgls 154

                        170       180
                 ....*....|....*....|....*..
gi 489826381 182 --QVwGYQFYGDERTVDVHikrlRQKI 206
Cdd:COG4566  155 nkQI-ARELGISPRTVEVH----RANV 176
PRK15347 PRK15347
two component system sensor kinase;
1-111 3.92e-06

two component system sensor kinase;


Pssm-ID: 237951 [Multi-domain]  Cd Length: 921  Bit Score: 47.33  E-value: 3.92e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-----SDVPII 75
Cdd:PRK15347 691 LQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQHRFDLVLMDIRMPGLDGLETTQLWRDDpnnldPDCMIV 770

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489826381  76 ILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARI 111
Cdd:PRK15347 771 ALTANAAPEEIHRCKKAGMNHYLTKPVTLAQLARAL 806
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 2-102 4.01e-06

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 46.79  E-value: 4.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSD-VPIIILTAK 80
Cdd:PRK10923   5 IVWVVDDDSSIRWVLERALAGAGLTCTTFENGNEVLEALASKTPDVLLSDIRMPGMDGLALLKQIKQRHPmLPVIIMTAH 84

                         90       100
                 ....*....|....*....|..
gi 489826381  81 ESESDQVLGLEMGADDYVTKPF 102
Cdd:PRK10923  85 SDLDAAVSAYQQGAFDYLPKPF 106
PRK09959 PRK09959
acid-sensing system histidine kinase EvgS;
32-107 4.14e-06

acid-sensing system histidine kinase EvgS;


Pssm-ID: 182169 [Multi-domain]  Cd Length: 1197  Bit Score: 47.04  E-value: 4.14e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381   32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIIILTAKESESDQVLGLEMGADDYVtkpFSPLTL 107
Cdd:PRK09959  990 DGVQALHKVSMQHYDLLITDVNMPNMDGFELTRKLREQnSSLPIWGLTANAQANEREKGLSCGMNLCL---FKPLTL 1063
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 32-117 4.41e-06

phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes Mycobacterium tuberculosis PdtaR, also called Rv1626, and similar proteins containing a REC domain and an ANTAR (AmiR and NasR transcription antitermination regulators) RNA-binding output domain. PdtaR is a response regulator that acts at the level of transcriptional antitermination and is a member of the PdtaR/PdtaS two-component regulatory system. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381159 [Multi-domain]  Cd Length: 118  Bit Score: 44.33  E-value: 4.41e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARI 111
Cdd:cd19932   33 DGEEAVELAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIAPIVLLTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAI 112


                 ....*.
gi 489826381 112 KAVTRR 117
Cdd:cd19932  113 EMAIAR 118
PLN03029 PLN03029
type-a response regulator protein; Provisional
 44-132 5.91e-06

type-a response regulator protein; Provisional


Pssm-ID: 215544 [Multi-domain]  Cd Length: 222  Bit Score: 45.79  E-value: 5.91e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  44 EYDIAIIDLMLPNMDGMTICRKIREVS---DVPIIILTAKESESDQVLGLEMGADDYVTKPFSpLTLMARIKA---VTRR 117
Cdd:PLN03029  72 EVNLIITDYCMPGMTGYDLLKKIKESSslrNIPVVIMSSENVPSRITRCLEEGAEEFFLKPVQ-LSDLNRLKPhmmKTKS 150

                         90
                 ....*....|....*
gi 489826381 118 KNSASPAENNEDILE 132
Cdd:PLN03029 151 KNQKQENQEKQEKLE 165
REC_CpdR_CckA-like cd18160
phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; ...
 2-102 1.13e-05

phosphoacceptor receiver (REC) domain of Brucella abortus CpdR and CckA, and similar domains; Two-component systems (TCSs), consisting of a sensor and a response regulator, are used by bacteria to adapt to changing environments. Processes regulated by TCSs in bacteria include sporulation, pathogenicity, virulence, chemotaxis and membrane transport. Response regulators share the common phosphoacceptor REC domain and differ output domains such as DNA, RNA, ligand, and protein-binding, or enzymatic domain. CpdR is a stand-alone REC protein. CckA is a sensor histidine kinase containing N-terminal PAS domains and a C-terminal REC domain. CpdR and CckA are components of a regulatory phosphorelay system (composed of CckA, ChpT, CtrA and CpdR) that controls Brucella abortus cell growth, division, and intracellular survival inside mammalian host cells. CckA autophosphorylates in the presence of ATP and transfers a phosphoryl group to the conserved aspartic acid residue on its C-terminal REC domain, which is relayed to the ChpT phosphotransferase. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381144 [Multi-domain]  Cd Length: 103  Bit Score: 42.87  E-value: 1.13e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVcemiEMFFMKEEIDATF-VHDGKQGYEAFFK----DEYDIAIIDLMLPNMDGMTICRKIREVS-DVPII 75
Cdd:cd18160    1 TILLADDEPSV----RKFIVTTLKKAGYaVTEAESGAEALEKlqqgKDIDIVVTDIVMPEMDGIELAREARKIDpDVKIL 76

                         90       100
                 ....*....|....*....|....*..
gi 489826381  76 ILTAKESESDQVLGLEMGADDYVTKPF 102
Cdd:cd18160   77 FISGGAAAAPELLSDAVGDNATLKKPF 103
PRK10153 PRK10153
DNA-binding transcriptional activator CadC; Provisional
 122-184 1.13e-05

DNA-binding transcriptional activator CadC; Provisional


Pssm-ID: 236658 [Multi-domain]  Cd Length: 517  Bit Score: 45.42  E-value: 1.13e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489826381 122 SPAENnedilettyfKISKRTREIfyqgelldALTPKEFDLLYFLMQHPRQVFSREQLLEQVW 184
Cdd:PRK10153  14 TPSEN----------KISRQGREV--------TLEPRLIDLLVFFAQHSGEVLSRDELIDHVW 58
REC_LytTR_AlgR-like cd17532
phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; ...
 32-104 1.41e-05

phosphoacceptor receiver (REC) domain of LytTR/AlgR family response regulators similar to AlgR; Members of the LytTR/AlgR family of response regulators contain a REC domain and a unique LytTR DNA-binding output domain that lacks the helix-turn-helix motif and consists mostly of beta-strands. Transcriptional regulators with the LytTR-type output domains are involved in biosynthesis of extracellular polysaccharides, fimbriation, expression of exoproteins, including toxins, and quorum sensing. Included in this AlgR-like group of LytTR/AlgR family response regulators are Streptococcus agalactiae sensory transduction protein LytR, Pseudomonas aeruginosa positive alginate biosynthesis regulatory protein AlgR, Bacillus subtilis sensory transduction protein LytT, and Escherichia coli transcriptional regulatory protein BtsR, which are members of two-component regulatory systems. LytR and LytT are components of regulatory systems that regulate genes involved in cell wall metabolism. AlgR positively regulates the algD gene, which codes for a GDP-mannose dehydrogenase, a key enzyme in the alginate biosynthesis pathway. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381087 [Multi-domain]  Cd Length: 118  Bit Score: 42.91  E-value: 1.41e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIII-LTAKESESdqVLGLEMGADDYVTKPFSP 104
Cdd:cd17532   32 NGEEALEAIEELKPDVVFLDIQMPGLDGLELAKKLSKLAKPPLIVfVTAYDEYA--VEAFELNAVDYLLKPFSE 103
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 6-101 1.63e-05

phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar proteins; Bacillus subtilis GlnL is part of the GlnK-GlnL (formerly YcbA-YcbB) two-component system that positively regulates the expression of the glsA-glnT (formerly ybgJ-ybgH) operon in response to glutamine. It contains a REC domain and a DNA-binding output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381112 [Multi-domain]  Cd Length: 103  Bit Score: 42.65  E-value: 1.63e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   6 IEDNVSVCEMIEMFFMKEEID--ATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVPIIILTAKESE 83
Cdd:cd17565    4 VDDDKNIIKILSDIIEDDDLGevVGEADNGAQAYDEILFLQPDIVLIDLLMPGMDGIQLVRKLKDTGSNGKFIMISQVSD 83

                         90
                 ....*....|....*....
gi 489826381  84 SDQVLG-LEMGADDYVTKP 101
Cdd:cd17565   84 KEMIGKaYQAGIEFFINKP 102
REC_RocR cd17530
phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR ...
 1-109 3.67e-05

phosphoacceptor receiver (REC) domain of response regulator RocR; The response regulator RocR from some pathogens contains an N-terminal phosphoreceiver (REC) domain and a C-terminal EAL domain that possesses c-di-GMP specific phosphodiesterase activity. The RocR REC domain is phosphorylated and modulates its EAL domain enzymatic activity, regulating the local level of c-di-GMP. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381086 [Multi-domain]  Cd Length: 123  Bit Score: 42.04  E-value: 3.67e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDNVSVCEMIEMffMKEEIDATFVH---DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREV-SDVPIII 76
Cdd:cd17530    1 LRVLVLDDDPFQCMMAAT--ILEDLGPGNVDeadDGREALVILLCNAPDIIICDLKMPDMDGIEFLRHLAEShSNAAVIL 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  77 LTAKES---ESDQVLGLEMGAD--DYVTKPFSPLTLMA 109
Cdd:cd17530   79 MSGLDGgilESAETLAGANGLNllGTLSKPFSPEELTE 116
REC_RcNtrC-like cd19928
phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C ...
 44-101 1.84e-04

phosphoacceptor receiver (REC) domain of Rhodobacter capsulatus nitrogen regulatory protein C (NtrC) and similar NtrC family response regulators; NtrC family proteins are transcriptional regulators that have REC, AAA+ ATPase/sigma-54 interaction, and DNA-binding output domains. This subfamily of NtrC proteins include NtrC, also called nitrogen regulator I (NRI), from Rhodobacter capsulatus, Azospirillum brasilense, and Azorhizobium caulinodans. NtrC is part of the NtrB/NtrC two-component system that controls the expression of the nitrogen-regulated (ntr) genes in response to nitrogen limitation. The N-terminal REC domain of NtrC proteins regulate the activity of the protein and its phosphorylation controls the AAA+ domain oligomerization, while the central AAA+ domain participates in nucleotide binding, hydrolysis, oligomerization, and sigma54 interaction. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381155 [Multi-domain]  Cd Length: 100  Bit Score: 39.41  E-value: 1.84e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 489826381  44 EYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKESESDQVLGLEMGADDYVTKP 101
Cdd:cd19928   42 EGDLVITDVVMPDENGLDLIPRIKKARpDLPIIVMSAQNTLMTAVKAAERGAFEYLPKP 100
PRK10693 PRK10693
two-component system response regulator RssB;
46-106 2.00e-04

two-component system response regulator RssB;


Pssm-ID: 182652 [Multi-domain]  Cd Length: 303  Bit Score: 41.51  E-value: 2.00e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489826381  46 DIAIIDLMLPNMDGMTICRKIR-EVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLT 106
Cdd:PRK10693  19 DLIICDLAMPRMNGIEFVEHLRnRGDQTPVLVISATENMADIAKALRLGVQDVLLKPVKDLN 80
fixJ PRK09390
response regulator FixJ; Provisional
 49-145 2.47e-04

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 40.76  E-value: 2.47e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  49 IIDLMLPNMDGMTICRKIREV-SDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSASPAENN 127
Cdd:PRK09390  52 VTDVRMPGIDGIELLRRLKARgSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKSEAV 131

                         90
                 ....*....|....*...
gi 489826381 128 EDILETTYFKISKRTREI 145
Cdd:PRK09390 132 AADIRARIASLSERERQV 149
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 49-113 3.03e-04

phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response regulators contain an N-terminal receiver domain (REC) and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. The Sinorhizobium meliloti two-component system FixL/FixJ regulates nitrogen fixation in response to oxygen during symbiosis. Under microaerobic conditions, the kinase FixL phosphorylates the response regulator FixJ resulting in the regulation of nitrogen fixation genes such as nifA and fixK. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381092 [Multi-domain]  Cd Length: 116  Bit Score: 39.11  E-value: 3.03e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489826381  49 IIDLMLPNMDGMTICRKIREV-SDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKA 113
Cdd:cd17537   49 VLDVRMPGMSGLELQDELLARgSNIPIIFITGHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIEQ 114
REC_ETR-like cd19933
phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and ...
 44-103 3.41e-04

phosphoacceptor receiver (REC) domain of plant ethylene receptors ETR1, ETR2, and EIN4, and similar proteins; Plant ethylene receptors contain N-terminal transmembrane domains that contain an ethylene binding site and also serve in localization of the receptor to the endoplasmic reticulum or the Golgi apparatus and a C-terminal histidine kinase (HK)-like domain. There are five ethylene receptors (ETR1, ERS1, ETR2, ERS2, and EIN4) in Arabidopsis thaliana. ETR1, ETR2, and EIN4 also contain REC domains C-terminal to the HK domain. ETR1 and ERS1 belong to subfamily 1, and have functional HK domains while ETR2, ERS2, and EIN4 belong to subfamily 2, and lack the necessary residues for HK activity and may function as serine/threonine kinases. The plant hormone ethylene plays an important role in plant growth and development. It regulates seed germination, seedling growth, leaf and petal abscission, fruit ripening, organ senescence, and pathogen responses. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381160 [Multi-domain]  Cd Length: 117  Bit Score: 38.92  E-value: 3.41e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 489826381  44 EYDIAIIDLMLPNMDGMTICRKIRE---VSDVP-IIILTAKESESDQVLGLEMGADDYVTKPFS 103
Cdd:cd19933   46 SFQLVLLDLCMPEMDGFEVALRIRKlfgRRERPlIVALTANTDDSTREKCLSLGMNGVITKPVS 109
REC_RitR-like cd19922
receiver (REC) domain of orphan response regulator RitR and similar domains; Streptococcus ...
 3-111 3.73e-04

receiver (REC) domain of orphan response regulator RitR and similar domains; Streptococcus pneumoniae RitR (Repressor of iron transport Regulator, formerly RR489) is an orphan two-component signal transduction response regulator that is required for lung pathogenicity. It acts to repress iron uptake via binding the pneumococcal iron uptake (Piu) transporter promoter. Members of this subfamily contain REC and DNA-binding output domains. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. However, members of this family do not contain the phosphorylatable aspartic acid residue and are phosphorylation-independent.


Pssm-ID: 381149 [Multi-domain]  Cd Length: 110  Bit Score: 39.00  E-value: 3.73e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   3 LLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVP-IIILTAKE 81
Cdd:cd19922    1 ILLLEKERNLAHFLSLELQKEGYRVDLVETGQEALSLALETDYDLILLNVNLSDMSAQDFAEKLSRIKPASvIIVLDHWE 80

                         90       100       110
                 ....*....|....*....|....*....|
gi 489826381  82 SESDQVLGLEMGADDYVTKPFSPLTLMARI 111
Cdd:cd19922   81 DLQEELEEVQRFAVSYVVKPVLISNLVDKI 110
PRK12370 PRK12370
HilA/EilA family virulence transcriptional regulator;
157-224 5.10e-04

HilA/EilA family virulence transcriptional regulator;


Pssm-ID: 237080 [Multi-domain]  Cd Length: 553  Bit Score: 40.61  E-value: 5.10e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 157 PKEFDLLYFLMQHPRQVFSREQLLEQVWGYQFYGDErTVDVHIKRLRqKIATETKP--FLHTVWGVGYKF 224
Cdd:PRK12370  38 PKEYAVLVILLEAAGEIVSKNTLLDQVWGDAEVNEE-SLTRCIYALR-RILSEDKEhrYIETLYGQGYRF 105
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 2-79 7.07e-04

phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar domains; This family is composed of mostly uncharacterized response regulators with similarity to the REC domains of response regulator components of two-component systems that regulates hydrogenase activity, including HupR and HoxA. HupR is part of the HupT/HupR system that controls the synthesis of the membrane-bound [NiFe]hydrogenase, HupSL, of the photosynthetic bacterium Rhodobacter capsulatus. It contains an N-terminal REC domain, a central sigma-54 interaction domain that lacks ATPase activity, and a C-terminal DNA-binding domain. Members of this family contain a REC domain and various output domains including the cyclase homology domain (CHD) and the c-di-GMP phosphodiesterase domains, HD-GYP and EAL. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381113 [Multi-domain]  Cd Length: 118  Bit Score: 38.15  E-value: 7.07e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTA 79
Cdd:cd17569    2 TILLVDDEPNILKALKRLLRREGYEVLTATSGEEALEILKQEPVDVVISDQRMPGMDGAELLKRVRERYpDTVRILLTG 80
DnrI COG3629
DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain ...
 144-225 1.60e-03

DNA-binding transcriptional regulator DnrI/AfsR/EmbR, SARP family, contains BTAD domain [Transcription];


Pssm-ID: 442847 [Multi-domain]  Cd Length: 244  Bit Score: 38.67  E-value: 1.60e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381 144 EIFYQGELLDALTPKEFDLLYFLMQHPRQVFSREQLLEQVWgyqfyGDE------RTVDVHIKRLRQKIATETKPFLHTV 217
Cdd:COG3629   11 EVRVDGRPVPLGGPKQRALLAYLALRAGRPVSRDRLADLLW-----GDDppasarANLRTYVSRLRRALGPAGGDLLVTR 85


                 ....*...
gi 489826381 218 wGVGYKFD 225
Cdd:COG3629   86 -GGGYRLD 92
PRK09483 PRK09483
response regulator; Provisional
 44-123 2.17e-03

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 38.16  E-value: 2.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  44 EYDIAIIDLMLPNMDGMTICRKI-REVSDVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTLMARIKAVTRRKNSAS 122
Cdd:PRK09483  47 AVDVVLMDMNMPGIGGLEATRKIlRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIA 126


                 .
gi 489826381 123 P 123
Cdd:PRK09483 127 S 127
REC_citrate_TCS cd19925
phosphoacceptor receiver (REC) domain of citrate family two-component system response ...
 2-113 2.25e-03

phosphoacceptor receiver (REC) domain of citrate family two-component system response regulators; This family includes Lactobacillus paracasei MaeR, Escherichia coli DcuR and DpiA, Klebsiella pneumoniae CitB, as well as Bacillus DctR, MalR, and CitT. These are all response regulators of two-component systems (TCSs) from the citrate family, and are involved in the transcriptional regulation of genes associated with L-malate catabolism (MaeRK), citrate-specific fermentation (DpiAB, CitAB), plasmid inheritance (DpiAB), anaerobic fumarate respiratory system (DcuRS), and malate transport/utilization (MalKR). REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381152 [Multi-domain]  Cd Length: 118  Bit Score: 36.84  E-value: 2.25e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFmkEEID----ATFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIII 76
Cdd:cd19925    2 NVLIVEDDPMVAEIHRAYV--EQVPgftvIGTAGTGEEALKLLKERQPDLILLDIYLPDGNGLDLLRELRAAGhDVDVIV 79

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 489826381  77 LTAkESESDQV-LGLEMGADDYVTKPFSPLTLMARIKA 113
Cdd:cd19925   80 VTA-ANDVETVrEALRLGVVDYLIKPFTFERLRQRLER 116
PEP_resp_reg TIGR02915
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ...
 3-108 2.75e-03

PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]


Pssm-ID: 274348 [Multi-domain]  Cd Length: 445  Bit Score: 38.19  E-value: 2.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381    3 LLMIEDNVSVCEMIEMFFMKEEIDATfvHDGKQGYEAFFKDEYDIAIIDLMLP-----NMDGMTICRKIREVS-DVPIII 76
Cdd:TIGR02915   1 LLIVEDDLGLQKQLKWSFADYELAVA--ADRESAIALVRRHEPAVVTLDLGLPpdadgASEGLAALQQILAIApDTKVIV 78

                          90       100       110
                  ....*....|....*....|....*....|....
gi 489826381   77 LTAKESESDQVLGLEMGADDYVTKPFSP--LTLM 108
Cdd:TIGR02915  79 ITGNDDRENAVKAIGLGAYDFYQKPIDPdvLKLI 112
REC_CheC-like cd17593
phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC ...
 28-107 3.88e-03

phosphoacceptor receiver (REC) domain of uncharacterized response regulators containing a CheC domain; This subfamily is composed of uncharacterized proteins containing an N-terminal REC domain and a C-terminal CheC domain that may function as the output/effector domain of a response regulator. CheC is a CheY-P phosphatase, affecting the level of phosphorylated CheY which controls the sense of flagella rotation and determine swimming behavior of chemotactic bacteria. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381124 [Multi-domain]  Cd Length: 117  Bit Score: 35.98  E-value: 3.88e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  28 TFVHDGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLT 106
Cdd:cd17593   29 TFAENGEEALEILREGRIDVLFLDLTMPVMDGYEVLEALPVEQlETKVIVVSGDVQPEAKERVLELGALAFLKKPFDPEK 108


                 .
gi 489826381 107 L 107
Cdd:cd17593  109 L 109
REC_TPR cd17589
phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR) ...
 26-111 3.95e-03

phosphoacceptor receiver (REC) domain of uncharacterized tetratricopeptide repeat (TPR)-containing response regulators; Response regulators share the common phosphoacceptor REC domain and different output domains. This subfamily contains uncharacterized response regulators with TPR repeats as the effector or output domain, which might contain between 3 to 16 TPR repeats (each about 34 amino acids). TPR-containing proteins occur in all domains of life and the abundance of TPR-containing proteins in a bacterial proteome is not indicative of virulence. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Some members in this subfamily may contain inactive REC domains lacking canonical metal-binding and active site residues.


Pssm-ID: 381123 [Multi-domain]  Cd Length: 115  Bit Score: 36.09  E-value: 3.95e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381  26 DATFVHDGKQGYEAFFKDEYDIAIIDLMLPN-MDGMTICRKIREVSDVP---IIILTAKESESDQVLG-LEMGADDYVTK 100
Cdd:cd17589   25 RIDTASSGEEALRMCENKTYDIVLCDYNLGKgKNGQQLLEELRHKKLISpstVFIMVTGESSRAMVLSaLELEPDDYLLK 104

                         90
                 ....*....|.
gi 489826381 101 PFSPLTLMARI 111
Cdd:cd17589  105 PFTVSELRERL 115
REC_typeA_ARR cd17581
phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and ...
 4-104 4.17e-03

phosphoacceptor receiver (REC) domain of type A Arabidopsis response regulators (ARRs) and similar proteins; Type-A response regulators of Arabidopsis (ARRs) are involved in cytokinin signaling, which involves a phosphorelay cascade by histidine kinase receptors (AHKs), histidine phosphotransfer proteins (AHPs) and downstream ARRs. Cytokinin is a plant hormone implicated in many growth and development processes including shoot organogenesis, leaf senescence, sink/source relationships, vascular development, lateral bud release, and photomorphogenic development. Type-A ARRs function downstream of and are regulated by type-B ARRs, which are a class of MYB-type transcription factors. As primary cytokinin response genes, type-A ARRs act as redundant negative feedback regulators of cytokinin signaling by inactivating the phosphorelay. ARRs are divided into two groups, type-A and -B, according to their sequence and domain structure. Type-A ARRs are similar in domain structure to CheY, in that they lack a typical output domain and only contain a stand-alone receiver (REC) domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381119 [Multi-domain]  Cd Length: 122  Bit Score: 36.19  E-value: 4.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   4 LMIEDNVSVCEMIEMFFMKEEIDATFVHDGKQGYE----------AFFKD-EYDIAIIDLMLPNMDGMTICRKIREVS-- 70
Cdd:cd17581    2 LAVDDSLVDRKVIERLLRISSCRVTAVDSGKRALEflgledeedsSNFNEpKVNMIITDYCMPGMTGYDLLKKVKESSal 81

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489826381  71 -DVPIIILTAKESESDQVLGLEMGADDYVTKPFSP 104
Cdd:cd17581   82 kEIPVVIMSSENIPTRISRCLEEGAEDFLLKPVKL 116
REC_1_GGDEF cd19921
first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 2-100 5.08e-03

first phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This family is composed of uncharacterized PleD-like response regulators that contain two N-terminal REC domains and a C-terminal diguanylate cyclase output domain with the characteristic GGDEF motif at the active site. Unlike PleD which contains a REC-like adaptor domain, the second REC domain of these uncharacterized GGDEF domain proteins contains characteristic metal-binding and active site residues. PleD response regulators are global regulators of cell metabolism in some important human pathogens. This model describes the first REC domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381148 [Multi-domain]  Cd Length: 115  Bit Score: 35.62  E-value: 5.08e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   2 KLLMIEDNVSVCEMIEMFFMKE---EID-ATFVHDGKQGYEAffKDEYDIAIIDLMLPNM-DGmticrkirEVSDV---- 72
Cdd:cd19921    1 KVLIVEDSKTFSKVLKHLIAQElglEVDvAETLAEAKALLEE--GDDYFAALVDLNLPDApNG--------EAVDLvlek 70

                         90       100       110
                 ....*....|....*....|....*....|
gi 489826381  73 --PIIILTAKESESDQVLGLEMGADDYVTK 100
Cdd:cd19921   71 giPVIVLTGSFDEDKRETLLSKGVVDYVLK 100
PRK14084 PRK14084
DNA-binding response regulator;
1-135 6.51e-03

DNA-binding response regulator;


Pssm-ID: 184495 [Multi-domain]  Cd Length: 246  Bit Score: 36.65  E-value: 6.51e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489826381   1 MKLLMIEDnvsvcEMI---EMFFMKEEIDATFVHDG----KQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVSDVP 73
Cdd:PRK14084   1 MKALIVDD-----EPLarnELTYLLNEIGGFEEINEaenvKETLEALLINQYDIIFLDINLMDESGIELAAKIQKMKEPP 75

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489826381  74 IIILtAKESESDQVLGLEMGADDYVTKPFSpltlMARI-KAVTRRKNSASPAENNEDILETTY 135
Cdd:PRK14084  76 AIIF-ATAHDQFAVKAFELNATDYILKPFE----QKRIeQAVNKVRATKAKDDNNASAIANDM 133
PRK10841 PRK10841
two-component system sensor histidine kinase RcsC;
32-107 7.01e-03

two-component system sensor histidine kinase RcsC;


Pssm-ID: 182772 [Multi-domain]  Cd Length: 924  Bit Score: 37.26  E-value: 7.01e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489826381  32 DGKQGYEAFFKDEYDIAIIDLMLPNMDGMTICRKIREVS-DVPIIILTAKESESDQVLGLEMGADDYVTKPFSPLTL 107
Cdd:PRK10841 833 DGVDALNVLSKNHIDIVLTDVNMPNMDGYRLTQRLRQLGlTLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDVL 909
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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