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Conserved domains on  [gi|1943015426|ref|WP_197703267|]
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response regulator transcription factor [Sulfurifustis variabilis]

Protein Classification

transcriptional regulator( domain architecture ID 1003377)

transcriptional regulator may belong to the NarL family and contain a C-terminal helix-turn-helix DNA-binding domain and an N-terminal REC domain, thereby functioning as a response regulator

Gene Ontology:  GO:0003677|GO:0006355|GO:0000160
PubMed:  16740923

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10651 super family cl32550
transcriptional regulator NarL; Provisional
 10-212 1.66e-31

transcriptional regulator NarL; Provisional


The actual alignment was detected with superfamily member PRK10651:

Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 114.36  E-value: 1.66e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSaGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:PRK10651    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQ-GIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPaqarPAAQMRAELGLTERQLEV 169
Cdd:PRK10651   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRAN----RATTERDVNQLTPRERDI 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1943015426 170 LALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQA 212
Cdd:PRK10651  164 LKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEA 206
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 10-212 1.66e-31

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 114.36  E-value: 1.66e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSaGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:PRK10651    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQ-GIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPaqarPAAQMRAELGLTERQLEV 169
Cdd:PRK10651   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRAN----RATTERDVNQLTPRERDI 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1943015426 170 LALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQA 212
Cdd:PRK10651  164 LKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEA 206
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-220 5.58e-26

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: 99.40  E-value: 5.58e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDdaglvLDAPDWPSAGKVLAEHPDLDLILLD--LHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESAG-----LRVETFASAEAFLAALDPDRPGCLLldVRMPGMSGLELQEELAARGSPLPVIF 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRlvlcggvylppEILEHARstapgpaQARPAAQMRAEL-----GL 162
Cdd:COG4566    77 LTGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVR-----------RALARDR-------ARRAERARRAELrarlaSL 138

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1943015426 163 TERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLG 220
Cdd:COG4566   139 TPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 10-126 1.55e-20

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: 82.95  E-value: 1.55e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMD-LSMPGMDGIEALRRLRRRYPDLKVIVLT 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17535    80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 161-216 8.73e-17

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 71.40  E-value: 8.73e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1943015426  161 GLTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAA 216
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
GerE pfam00196
Bacterial regulatory proteins, luxR family;
162-216 1.53e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 70.69  E-value: 1.53e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1943015426 162 LTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAA 216
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 10-212 1.66e-31

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 114.36  E-value: 1.66e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSaGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:PRK10651    9 ILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQ-GIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFS 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPaqarPAAQMRAELGLTERQLEV 169
Cdd:PRK10651   88 VSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAASLRAN----RATTERDVNQLTPRERDI 163

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1943015426 170 LALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQA 212
Cdd:PRK10651  164 LKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEA 206
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 10-220 5.58e-26

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: 99.40  E-value: 5.58e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDdaglvLDAPDWPSAGKVLAEHPDLDLILLD--LHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:COG4566     2 VYIVDDDEAVRDSLAFLLESAG-----LRVETFASAEAFLAALDPDRPGCLLldVRMPGMSGLELQEELAARGSPLPVIF 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRlvlcggvylppEILEHARstapgpaQARPAAQMRAEL-----GL 162
Cdd:COG4566    77 LTGHGDVPMAVRAMKAGAVDFLEKPFDDQALLDAVR-----------RALARDR-------ARRAERARRAELrarlaSL 138

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1943015426 163 TERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLG 220
Cdd:COG4566   139 TPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLALALG 196
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
9-214 3.88e-21

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 87.21  E-value: 3.88e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKvLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVAL 88
Cdd:PRK10403    8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAID-LANRLDPDVILLDLNMKGMSGLDTLNALRRDGVTAQIIIL 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  89 SAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPAQARPAAQmraelgLTERQLE 168
Cdd:PRK10403   87 TVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLREREMFGAEEDPFSV------LTERELD 160

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 1943015426 169 VLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALI 214
Cdd:PRK10403  161 VLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATI 206
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 10-126 1.55e-20

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: 82.95  E-value: 1.55e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGEAADGEEALALLRELRPDVVLMD-LSMPGMDGIEALRRLRRRYPDLKVIVLT 79

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17535    80 AHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVA 116
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 162-221 1.65e-19

Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell division, chromosome partitioning, Transcription];


Pssm-ID: 444607 [Multi-domain]  Cd Length: 76  Bit Score: 79.23  E-value: 1.65e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426 162 LTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLGL 221
Cdd:COG5905    13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRLGL 72
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 7-221 1.35e-18

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 78.40  E-value: 1.35e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   7 RLKILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHlPGISGLEALSELrdshagipvv 86
Cdd:COG2197     1 MIRVLIVDDHPLVREGLRALLEAEPDIEVVGEAADGEEALELLEELRPDVVLLDIRM-PGMDGLEALRRL---------- 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  87 alsaaddrqtvleaidrgaagfipksssnevlvnalrlvlcggvylppeileharstapgpaqarpaaqmraelgLTERQ 166
Cdd:COG2197    70 ---------------------------------------------------------------------------LTPRE 74

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1943015426 167 LEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLGL 221
Cdd:COG2197    75 REVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLALRLGL 129
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 161-216 8.73e-17

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 71.40  E-value: 8.73e-17
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1943015426  161 GLTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAA 216
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVRLA 58
GerE pfam00196
Bacterial regulatory proteins, luxR family;
162-216 1.53e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 70.69  E-value: 1.53e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1943015426 162 LTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAA 216
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
fixJ PRK09390
response regulator FixJ; Provisional
 12-222 2.97e-16

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 73.88  E-value: 2.97e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  12 VVDDHPLIRQALpGVLRQLDDAGLVLDApdwpSAGKVLAEHPDLDL--ILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:PRK09390    8 VVDDDEAMRDSL-AFLLDSAGFEVRLFE----SAQAFLDALPGLRFgcVVTDVRMPGIDGIELLRRLKARGSPLPVIVMT 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVlcggvylppeiLEHARSTAPGPAQarpAAQMRAELG-LTERQLE 168
Cdd:PRK09390   83 GHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERA-----------LAQAPEAAKSEAV---AADIRARIAsLSERERQ 148

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1943015426 169 VLALIVQGKSNKVIGRQLDLAEATVKIHVSailkafKVTSRTQA--LIAATRLGLR 222
Cdd:PRK09390  149 VMDGLVAGLSNKVIARDLDISPRTVEVYRA------NVMTKMQAgsLSELVRMALR 198
PRK10360 PRK10360
transcriptional regulator UhpA;
8-208 4.30e-16

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 73.47  E-value: 4.30e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   8 LKILVVDDHPLIRQALPGVLRQLDDAGLVldaPDWPSAGKVLAEHPDLDLILLD--LHLPGISGLEALSELRdshAGIPV 85
Cdd:PRK10360    2 ITVALIDDHLIVRSGFAQLLGLEPDLQVV---AEFGSGREALAGLPGRGVQVCIcdISMPDISGLELLSQLP---KGMAT 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPaqarpaaqmraelgLTER 165
Cdd:PRK10360   76 IMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDP--------------LTKR 141

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1943015426 166 QLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTS 208
Cdd:PRK10360  142 ERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSN 184
PRK15369 PRK15369
two component system response regulator;
8-221 4.60e-16

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 73.57  E-value: 4.60e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   8 LKILVVDDHPLIRQALPGVLR---------QLDDAGLVLDA-----PDWpsagkVLAEhpdldlilldLHLPGISGLEAL 73
Cdd:PRK15369    4 YKILLVDDHELIINGIKNMLApyprykivgQVDNGLEVYNAcrqlePDI-----VILD----------LGLPGMNGLDVI 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  74 SELRDSHAGIPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPAQARPA 153
Cdd:PRK15369   69 PQLHQRWPAMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADDTNPP 148

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1943015426 154 AqmraelgLTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLGL 221
Cdd:PRK15369  149 L-------LTPRERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLNWARRLGL 209
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
10-200 3.29e-15

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 71.45  E-value: 3.29e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:PRK09935    6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMD-IDLPGTDGFTFLKRIKQIQSTVKVLFLS 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTapgpaqaRPAAQMRAELGLTERQLEV 169
Cdd:PRK09935   85 SKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSN-------KCSTNSSTDTVLSNREVTI 157

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1943015426 170 LALIVQGKSNKVIGRQLDLAEATVKIHVSAI 200
Cdd:PRK09935  158 LRYLVSGLSNKEIADQLLLSNKTVSAHKSNI 188
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 10-123 3.31e-15

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: 68.72  E-value: 3.31e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPgvlRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:pfam00072   1 VLIVDDDPLIRELLR---QLLEKEGYVVAEADDGKEALELLKEERPDLILLDINMPGMDGLELLKRIRRRDPTTPVIILT 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:pfam00072  78 AHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 162-218 1.66e-14

C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.


Pssm-ID: 99777 [Multi-domain]  Cd Length: 57  Bit Score: 65.63  E-value: 1.66e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1943015426 162 LTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATR 218
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
PRK09483 PRK09483
response regulator; Provisional
 8-193 7.60e-14

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 67.82  E-value: 7.60e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   8 LKILVVDDHPLIRQalpGVLRQLDDA-GL--VLDAPDWPSAGKVLAEHPDLDLILLDLHlPGISGLEALSELRDSHAGIP 84
Cdd:PRK09483    2 INVLLVDDHELVRA---GIRRILEDIkGIkvVGEACCGEDAVKWCRTNAVDVVLMDMNM-PGIGGLEATRKILRYTPDVK 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  85 VVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPAQARPAAQmraelgLTE 164
Cdd:PRK09483   78 IIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPATENPFAS------LSE 151

                         170       180
                  ....*....|....*....|....*....
gi 1943015426 165 RQLEVLALIVQGKSNKVIGRQLDLAEATV 193
Cdd:PRK09483  152 RELQIMLMITKGQKVNEISEQLNLSPKTV 180
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 7-126 7.08e-12

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 60.75  E-value: 7.08e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   7 RLKILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRDSHAGIPVV 86
Cdd:COG4565     3 MIRVLIVEDDPMVAELLRRYLERLPGFEVVGVASSGEEALALLAEHRpdli-lldIYLPDGDGLELLRELRARGPDVDVI 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1943015426  87 ALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:COG4565    82 VITAARDPETVREALRAGVVDYLIKPFTFERLREALERYL 121
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 6-126 1.06e-11

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: 63.44  E-value: 1.06e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   6 ARLKILVVDDHPLIRQALpgvLRQLDDAGL-VLDAPDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRDSHAGIP 84
Cdd:COG2204     1 SMARILVVDDDPDIRRLL---KELLERAGYeVETAASGEEALALLREEPpdlv-lldLRMPGMDGLELLRELRALDPDLP 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1943015426  85 VVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:COG2204    77 VILLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERAL 118
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 7-125 1.19e-11

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: 61.08  E-value: 1.19e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   7 RLKILVVDDHPLIRQALPGVLRQlddAGL-VLDAPDWPSAGKVLAEHPdldlilldlhlPGISGLEALSELR--DSHAGI 83
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLEA---AGYeVVEAADGEEALELLQEHRpdlil-ldlemPDMDGLELCRRLRadPRTADI 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1943015426  84 PVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLV 125
Cdd:COG3706    77 PIIFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLV 118
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 9-111 1.71e-11

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: 58.63  E-value: 1.71e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRDSHAGIPVVAL 88
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEAGFEVVGEAENGEEALELLEEHKpdlv-itdINMPGMDGLELLEAIRELDPDTKIIIL 79

                          90       100
                  ....*....|....*....|...
gi 1943015426  89 SAADDRQTVLEAIDRGAAGFIPK 111
Cdd:COG4753    80 SGYSDFEYAQEAIKLGADDYLLK 102
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 11-111 9.34e-11

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: 56.85  E-value: 9.34e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  11 LVVDDHPLIRQALpgvLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALSA 90
Cdd:cd00156     1 LIVDDDPAIRELL---KSLLEREGYEVDTAADGEEALELLREERPDLVLLDLMMPGMDGLELLRKLRELPPDIPVIVLTA 77

                          90       100
                  ....*....|....*....|.
gi 1943015426  91 ADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd00156    78 KADEEDAVRALELGADDYLVK 98
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 6-126 1.63e-10

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: 56.78  E-value: 1.63e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   6 ARLKILVVDDHPLIRQALpgvLRQLDDAGL-VLDAPDWPSAGKVLAEHPdldlilldlhlPGISGLEALSELR--DSHAG 82
Cdd:COG0784     4 GGKRILVVDDNPDNRELL---RRLLERLGYeVTTAEDGAEALELLRAGPpdlil-ldinmPGMDGLELLRRIRalPRLPD 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1943015426  83 IPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:COG0784    80 IPIIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLL 123
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 7-185 1.84e-10

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: 58.04  E-value: 1.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   7 RLKILVVDDHPLIRQALpgvLRQLDDAGL-VLDAPDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRDSHAGIPV 85
Cdd:COG0745     1 MPRILVVEDDPDIRELL---ADALEREGYeVDTAADGEEALELLEEERpdli-lldLMLPGMDGLEVCRRLRARPSDIPI 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLcggVYLPPEILEHARSTAPGPAQARPAAQmraELGLTER 165
Cdd:COG0745    77 IMLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALL---RRRAAEVLRVGDLLDLAAREVTRDGE---PVELTPK 150

                         170       180
                  ....*....|....*....|
gi 1943015426 166 QLEVLALIVQGKsNKVIGRQ 185
Cdd:COG0745   151 EFRLLELLMRNP-GRVVSRE 169
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
70-221 9.73e-10

DNA-binding transcriptional regulator, CsgD family [Transcription];


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 55.92  E-value: 9.73e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  70 LEALSELRDSHAGIPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLPPEILEHARSTAPGPAQ 149
Cdd:COG2771    36 LALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLL 115

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1943015426 150 ARPAAQMRAELGLTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLGL 221
Cdd:COG2771   116 AALARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALALRLGL 187
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
11-218 2.35e-09

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 55.29  E-value: 2.35e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  11 LVVDDHPLIRQALPGVL--------RQLDDAGLVLDAPDWPSAGKVLAEhpdldlilldLHLPGISGLEALSELRDSHAG 82
Cdd:PRK09958    4 IIIDDHPLAIAAIRNLLikndieilAELTEGGSAVQRVETLKPDIVIID----------VDIPGVNGIQVLETLRKRQYS 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  83 IPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLCGGVYLpPEILEHarstapgPAQARPAAQMRAElGL 162
Cdd:PRK09958   74 GIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYF-PFSLNR-------FVGSLTSDQQKLD-SL 144

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1943015426 163 TERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATR 218
Cdd:PRK09958  145 SKQEISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQR 200
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 5-126 2.98e-09

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: 55.17  E-value: 2.98e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   5 EARLKILVVDDHPLIRQALPGVLRQLDDAglVLDAPDwPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELR--DSHAG 82
Cdd:COG3437     4 GQAPTVLIVDDDPENLELLRQLLRTLGYD--VVTAES-GEEALELLLEAPPDLILLDVRMPGMDGFELLRLLRadPSTRD 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1943015426  83 IPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:COG3437    81 IPVIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNAL 124
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 10-123 3.67e-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: 52.74  E-value: 3.67e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDwPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGEASS-GEEGIELAERLDPDLILLDLNMKGMSGLDTLKALREEGVSARIVILT 79

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd19931    80 VSDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
REC_FixJ cd17537
phosphoacceptor receiver (REC) domain of FixJ family response regulators; FixJ family response ...
 10-123 5.00e-09

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: 52.60  E-value: 5.00e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDdaglvLDAPDWPSAGKVLAEHPDLDL--ILLDLHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:cd17537     3 VYVVDDDEAVRDSLAFLLRSVG-----LAVKTFTSASAFLAAAPPDQPgcLVLDVRMPGMSGLELQDELLARGSNIPIIF 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd17537    78 ITGHGDVPMAVEAMKAGAVDFLEKPFRDQVLLDAIE 113
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
135-221 1.10e-08

ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 52.78  E-value: 1.10e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426 135 EILEHARSTAPGPAQARPAAQMRAELGLTERQLEVL--ALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQA 212
Cdd:COG2909    94 ALLERLLALAEAAGRLLLRALALRALGDREEALAALrrRLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEA 173


                  ....*....
gi 1943015426 213 LIAATRLGL 221
Cdd:COG2909   174 VARARELGL 182
REC_RpfG-like cd17551
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase response regulator ...
 9-111 1.32e-08

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: 51.29  E-value: 1.32e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLDDAGLV-----LDAPDWPSAGK---VLAEhpdldlilldLHLPGISGLEALSELRD-- 78
Cdd:cd17551     2 RILIVDDNPTNLLLLEALLRSAGYLEVVsftdpREALAWCRENPpdlILLD----------YMMPGMDGLEFIRRLRAlp 71

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1943015426  79 SHAGIPVVALSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd17551    72 GLEDVPIVMITADTDREVRLRALEAGATDFLTK 104
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
 10-126 1.39e-08

phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of Bacillus subtilis DesR, Streptococcus pneumoniae response regulator spr1814, and similar proteins, all containing an N-terminal REC domain and a C-terminal LuxR family helix-turn-helix (HTH) DNA-binding output domain. DesR is a response regulator that, together with its cognate sensor kinase DesK, comprises a two-component regulatory system that controls membrane fluidity. Phosphorylation of the REC domain of DesR is allosterically coupled to two distinct exposed surfaces of the protein, controlling noncanonical dimerization/tetramerization, cooperative activation, and DesK binding. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.


Pssm-ID: 381157 [Multi-domain]  Cd Length: 117  Bit Score: 51.12  E-value: 1.39e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGK-VLAEHPDLDLILLDLhlPGISGLEALSELRDSHAGIPVVAL 88
Cdd:cd19930     1 VLIAEDQEMVRGALAALLELEDDLEVVAQASNGQEALRlVLKHSPDVAILDIEM--PGRTGLEVAAELREELPDTKVLIV 78

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1943015426  89 SAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd19930    79 TTFGRPGYFRRALAAGVDGYVLKDRPIEELADAIRTVH 116
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
 9-126 7.07e-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: 49.20  E-value: 7.07e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQlddAGL--VLDAPDWPSAGKVLAEHpDLDLILLDLHLPGISGLEALSELRDSHAGIPVV 86
Cdd:cd17542     2 KVLIVDDAAFMRMMLKDILTK---AGYevVGEAANGEEAVEKYKEL-KPDLVTMDITMPEMDGIEALKEIKKIDPNAKVI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1943015426  87 ALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17542    78 MCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKVL 117
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 7-177 1.57e-07

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: 49.96  E-value: 1.57e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   7 RLKILVVDDHPLIRQALpgvLRQLDDAG-LVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRdSHAGIPV 85
Cdd:COG3707     3 GLRVLVVDDEPLRRADL---REGLREAGyEVVAEAADGEDAVELVRELKPDLVIVDIDMPDRDGLEAARQIS-EERPAPV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVLcggvylppeileharstapgpAQARPAAQMRAELGLTER 165
Cdd:COG3707    79 ILLTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALELAL---------------------ARFRELRALRRELAKLRE 137

                         170
                  ....*....|..
gi 1943015426 166 QLEVLALIVQGK 177
Cdd:COG3707   138 ALEERKLIERAK 149
REC_CheY_CheY3 cd19923
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY3 and similar CheY ...
 8-126 1.87e-07

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: 48.10  E-value: 1.87e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   8 LKILVVDDHPLIRQALPGVLRQLdDAGLVLDAPDWPSAGKVLaEHPDLDLILLDLHLPGISGLEALSELRDSHA--GIPV 85
Cdd:cd19923     1 MKVLVVDDFSTMRRIIKNLLKEL-GFNNVEEAEDGVDALEKL-KAGGFDFVITDWNMPNMDGLELLKTIRADGAlsHLPV 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd19923    79 LMVTAEAKKENVIAAAQAGVNNYIVKPFTAATLKEKLEKIF 119
REC_RssB-like cd17555
phosphoacceptor receiver (REC) domain of Pseudomonas aeruginosa RssB and similar domains; ...
 9-123 2.39e-07

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: 47.97  E-value: 2.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLrqlDDAGL-VLDAPDWPsAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:cd17555     2 TILVIDDDEVVRESIAAYL---EDSGFqVLQAADGR-QGLELFRSEQPDLVLCDLRMPEMDGLEVLKQITKESPDTPVIV 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPKSSSN-EVLVNALR 123
Cdd:cd17555    78 VSGAGVMSDAVEALRLGAWDYLTKPIEDlAVLEHAVR 114
REC_NtrX-like cd17550
phosphoacceptor receiver (REC) domain of nitrogen assimilation regulatory protein NtrX and ...
 10-123 3.72e-07

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: 47.11  E-value: 3.72e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRqlDDAGLVLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:cd17550     1 ILIVDDEEDIRESLSGILE--DEGYEVDTAADGEEALKLIKERRPDLVLLD-IWLPDMDGLELLKEIKEKYPDLPVIMIS 77

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd17550    78 GHGTIETAVKATKLGAYDFIEKPLSLDRLLLTIE 111
REC_Rcp-like cd17557
phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and ...
 62-125 6.85e-07

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: 47.03  E-value: 6.85e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1943015426  62 LHLPGISGLEALSELR-DSH-AGIPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLV 125
Cdd:cd17557    60 LNMPRMDGFEVLREIKaDPDlRRIPVVVLTTSDAEEDIERAYELGANSYIVKPVDFEEFVEAIRSL 125
REC_OmpR_PhoB cd17618
phosphoacceptor receiver (REC) domain of PhoB response regulator from the OmpR family; The ...
 9-126 7.74e-07

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: 46.47  E-value: 7.74e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQlddAGL-VLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELR--DSHAGIPV 85
Cdd:cd17618     2 TILIVEDEPAIREMIAFNLER---AGFdVVEAEDAESAVNLIVEPRPDLILLD-WMLPGGSGIQFIRRLKrdEMTRDIPI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17618    78 IMLTARGEEEDKVRGLEAGADDYITKPFSPRELVARIKAVL 118
REC_2_GGDEF cd17544
second phosphoacceptor receiver (REC) domain of uncharacterized GGDEF domain proteins; This ...
 9-116 1.11e-06

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: 45.97  E-value: 1.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLR----QlddaglVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAG-- 82
Cdd:cd17544     2 KVLVVDDSATSRNHLRALLRrhnfQ------VLEAANGQEALEVLEQHPDIKLVITDYNMPEMDGFELVREIRKKYSRdq 75

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1943015426  83 IPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNE 116
Cdd:cd17544    76 LAIIGISASGDNALSARFIKAGANDFLTKPFLPE 109
REC_D1_PleD-like cd17538
first (D1) phosphoacceptor receiver (REC) domain of response regulator PleD and similar ...
 9-111 1.58e-06

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: 45.18  E-value: 1.58e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLDDAglVLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRDSHAG--IPVV 86
Cdd:cd17538     1 KILVVDDEPANRELLEALLSAEGYE--VLTADSGQEALALAEEELPDLILLD-VMMPGMDGFEVCRRLKEDPETrhIPVI 77

                          90       100
                  ....*....|....*....|....*
gi 1943015426  87 ALSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd17538    78 MITALDDREDRIRGLEAGADDFLSK 102
REC_OmpR_EcPhoP-like cd19934
phosphoacceptor receiver (REC) domain of EcPhoP-like OmpR family response regulators; ...
 10-123 4.96e-06

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: 44.20  E-value: 4.96e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALpgvLRQLDDAGLVLD-APDWPSAGKVLAEHPDLDLILLDLHlPGISGLEALSELRDSHAGIPVVAL 88
Cdd:cd19934     1 LLLVEDDALLAAQL---KEQLSDAGYVVDvAEDGEEALFQGEEEPYDLVVLDLGL-PGMDGLSVLRRWRSEGRATPVLIL 76

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1943015426  89 SAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd19934    77 TARDSWQDKVEGLDAGADDYLTKPFHIEELLARLR 111
REC_DctD-like cd17549
phosphoacceptor receiver (REC) domain of C4-dicarboxylic acid transport protein D (DctD) and ...
 10-123 5.47e-06

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: 44.40  E-value: 5.47e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVL-------RQLDDAGLVLDA--PDWPsaGKVLAEhpdldlilldLHLPGISGLEALSELRDSH 80
Cdd:cd17549     1 VLLVDDDADVREALQQTLelagfrvRAFADAEEALAAlsPDFP--GVVISD----------IRMPGMDGLELLAQIRELD 68

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1943015426  81 AGIPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd17549    69 PDLPVILITGHGDVPMAVEAMRAGAYDFLEKPFDPERLLDVVR 111
REC_PA4781-like cd19920
phosphoacceptor receiver (REC) domain of cyclic di-GMP phosphodiesterase PA4781 and similar ...
 10-111 5.50e-06

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: 43.65  E-value: 5.50e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRqldDAGL-VLDAPDWPSA-GKVLAEHPDLDLILldLHLPGISGLEALSELRDSH--AGIPV 85
Cdd:cd19920     1 ILIVDDVPDNLRLLSELLR---AAGYrVLVATDGQQAlQRAQAEPPDLILLD--VMMPGMDGFEVCRRLKADPatRHIPV 75

                          90       100
                  ....*....|....*....|....*.
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd19920    76 IFLTALTDTEDKVKGFELGAVDYITK 101
PRK10100 PRK10100
transcriptional regulator CsgD;
162-213 1.51e-05

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 44.48  E-value: 1.51e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1943015426 162 LTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQAL 213
Cdd:PRK10100  156 LTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAV 207
PRK11361 PRK11361
acetoacetate metabolism transcriptional regulator AtoC;
6-111 1.89e-05

acetoacetate metabolism transcriptional regulator AtoC;


Pssm-ID: 183099 [Multi-domain]  Cd Length: 457  Bit Score: 44.84  E-value: 1.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   6 ARLKILVVDDHPLIRQALPGVLRQldDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHlPGISGLEALSELRDSHAGIPV 85
Cdd:PRK11361    3 AINRILIVDDEDNVRRMLSTAFAL--QGFETHCANNGRTALHLFADIHPDVVLMDIRM-PEMDGIKALKEMRSHETRTPV 79

                          90       100
                  ....*....|....*....|....*.
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:PRK11361   80 ILMTAYAEVETAVEALRCGAFDYVIK 105
REC_typeB_ARR-like cd17584
phosphoacceptor receiver (REC) domain of type B Arabidopsis response regulators (ARRs) and ...
 65-120 2.39e-05

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: 42.23  E-value: 2.39e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1943015426  65 PGISGLEALSELRDShAGIPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVN 120
Cdd:cd17584    55 PDMDGFEFLELIRLE-MDLPVIMMSADGSTSTVMKGLAHGACDYLLKPVSIEDLKN 109
LytT COG3279
DNA-binding response regulator, LytR/AlgR family [Transcription, Signal transduction ...
 8-126 3.99e-05

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


Pssm-ID: 442510 [Multi-domain]  Cd Length: 235  Bit Score: 43.27  E-value: 3.99e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   8 LKILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:COG3279     2 MKILIVDDEPLARERLERLLEKYPDLEVVGEASNGEEALELLEEHKpdlv-fldIQMPGLDGFELARQLRELDPPPPIIF 80

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1943015426  88 LSAADDRqtVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:COG3279    81 TTAYDEY--ALEAFEVNAVDYLLKPIDEERLAKALEKAK 117
PRK13558 PRK13558
bacterio-opsin activator; Provisional
 28-168 5.87e-05

bacterio-opsin activator; Provisional


Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 43.29  E-value: 5.87e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  28 RQLDDAGLVLDAPDWPSAGKvLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALSAADDRQTVLEAIDRGAAG 107
Cdd:PRK13558   26 LDEDGRLDVTQIRDFVAARD-RVEAGEIDCVVADHEPDGFDGLALLEAVRQTTAVPPVVVVPTAGDEAVARRAVDADAAA 104

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1943015426 108 FIPKSSSNevlvnalrlvlcggvyLPPEILEHARSTAPGPAQARPAAQ------MRAELGLTERQLE 168
Cdd:PRK13558  105 YVPAVSDD----------------ATAAIAERIESAVPEHSRDTEARMpisdltVESDRRLKERALD 155
PRK10161 PRK10161
phosphate response regulator transcription factor PhoB;
9-223 8.12e-05

phosphate response regulator transcription factor PhoB;


Pssm-ID: 182277 [Multi-domain]  Cd Length: 229  Bit Score: 42.40  E-value: 8.12e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQldDAGLVLDAPDWPSAGKVLAEhPDLDLILLDLHLPGISGLEALSELRDSHA--GIPVV 86
Cdd:PRK10161    4 RILVVEDEAPIREMVCFVLEQ--NGFQPVEAEDYDSAVNQLNE-PWPDLILLDWMLPGGSGIQFIKHLKRESMtrDIPVV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  87 ALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL-------------CGGVYLPPEilEHARSTAPGPAQARPA 153
Cdd:PRK10161   81 MLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMrrispmaveevieMQGLSLDPT--SHRVMAGEEPLEMGPT 158

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1943015426 154 AQMRAELGLT--ERQLEVLALIvqgksNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLGLRF 223
Cdd:PRK10161  159 EFKLLHFFMThpERVYSREQLL-----NHVWGTNVYVEDRTVDVHIRRLRKALEPGGHDRMVQTVRGTGYRF 225
REC_PdtaR-like cd19932
phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ...
 8-126 1.25e-04

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: 40.47  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   8 LKILVVDDHPLIRQALPgvlRQLDDAG--LVLDAPDWPSAGKvLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGiPV 85
Cdd:cd19932     1 VRVLIAEDEALIRMDLR---EMLEEAGyeVVGEASDGEEAVE-LAKKHKPDLVIMDVKMPRLDGIEAAKIITSENIA-PI 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd19932    76 VLLTAYSQQDLVERAKEAGAMAYLVKPFSESDLIPAIEMAI 116
REC_CheB-like cd17541
phosphoacceptor receiver (REC) domain of chemotaxis response regulator protein-glutamate ...
 9-114 1.29e-04

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: 40.45  E-value: 1.29e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLDDAGLVLDAPDwpsaG-----KVLAEHPdldlilldLHLPGISGLEALSELRDSHAgI 83
Cdd:cd17541     2 RVLIVDDSAVMRKLLSRILESDPDIEVVGTARD----GeealeKIKELKPdvi--tldIEMPVMDGLEALRRIMAERP-T 74

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1943015426  84 PVVALSAADDR--QTVLEAIDRGAAGFIPKSSS 114
Cdd:cd17541    75 PVVMVSSLTEEgaEITLEALELGAVDFIAKPSG 107
REC_TrrA-like cd17554
phosphoacceptor receiver (REC) domain of Thermotoga maritima response regulator TrrA and ...
 9-123 1.98e-04

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: 39.51  E-value: 1.98e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPgvlRQLDDAGL-VLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:cd17554     2 KILVVDDEENIRELYK---EELEDEGYeVVTAGNGEEALEKLESEDPDLVILD-IKMPGMDGLETLRKIREKKPDLPVII 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1943015426  88 LSAADDRQTVLEAIdrGAAGFIPKSSSNEVLVNALR 123
Cdd:cd17554    78 CTAYSEYKSDFSSW--AADAYVVKSSDLTELKETIK 111
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 9-126 2.13e-04

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: 39.64  E-value: 2.13e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQlddAGL-VLDAPDWPSAGKVlAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVA 87
Cdd:cd17615     1 RVLVVDDEPNITELLSMALRY---EGWdVETAADGAEALAA-AREFRPDAVVLDIMLPDMDGLEVLRRLRADGPDVPVLF 76

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17615    77 LTAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALL 115
REC_OmpR cd17574
phosphoacceptor receiver (REC) domain of OmpR family response regulators; OmpR-like proteins ...
 11-111 2.96e-04

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: 38.93  E-value: 2.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  11 LVVDDHPLIRQALPGVLRQlddAGL-VLDAPDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:cd17574     1 LVVEDDEEIAELLSDYLEK---EGYeVDTAADGEEALELAREEQpdli-ildVMLPGMDGFEVCRRLREKGSDIPIIMLT 76

                          90       100
                  ....*....|....*....|..
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd17574    77 AKDEEEDKVLGLELGADDYITK 98
REC_YesN-like cd17536
phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ...
 65-123 5.48e-04

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: 38.47  E-value: 5.48e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1943015426  65 PGISGLEALSELRDSHAGIPVVALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd17536    56 PGMDGLELIEKIRELYPDIKIIILSGYDDFEYAQKAIRLGVVDYLLKPVDEEELEEALE 114
COG4567 COG4567
DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ...
 9-123 6.13e-04

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: 39.13  E-value: 6.13e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALpgvLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVAL 88
Cdd:COG4567     6 SLLLVDDDEAFARVL---ARALERRGFEVTTAASVEEALALLEQAPPDYAVLDLRLGDGSGLDLIEALRERDPDARIVVL 82

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1943015426  89 SAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:COG4567    83 TGYASIATAVEAIKLGADDYLAKPADADDLLAALE 117
REC_DivK-like cd17548
phosphoacceptor receiver (REC) domain of DivK and similar proteins; Caulobacter crescentus ...
 9-111 6.38e-04

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: 38.29  E-value: 6.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQlddAGL-VLDAPDwPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELR--DSHAGIPV 85
Cdd:cd17548     1 KILIVEDNPLNMKLARDLLES---AGYeVLEAAD-GEEALEIARKEKPDLILMDIQLPGMDGLEATRLLKedPATRDIPV 76

                          90       100
                  ....*....|....*....|....*....
gi 1943015426  86 VALSA---ADDRQTVLEAidrGAAGFIPK 111
Cdd:cd17548    77 IALTAyamKGDREKILEA---GCDGYISK 102
REC_OmpR_PmrA-like cd17624
phosphoacceptor receiver (REC) domain of PmrA-like OmpR family response regulators; This ...
 10-126 6.50e-04

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: 38.23  E-value: 6.50e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQalpGVLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRDSHAGIPVVALS 89
Cdd:cd17624     1 ILLVEDDALLGD---GLKTGLRKAGYAVDWVRTGAEAEAALASGPYDLVILDLGLPDGDGLDLLRRWRRQGQSLPVLILT 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17624    78 ARDGVDDRVAGLDAGADDYLVKPFALEELLARLRALL 114
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
162-219 6.88e-04

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 40.31  E-value: 6.88e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1943015426 162 LTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRL 219
Cdd:PRK04841  839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEAVQHAQDL 896
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 9-126 7.15e-04

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: 38.05  E-value: 7.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRqldDAGL-VLDAPDwPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRD--SHAGIPV 85
Cdd:cd17562     2 KILAVDDSASIRQMVSFTLR---GAGYeVVEAAD-GRDALSKAQSKKFDLIITDQNMPNMDGIELIKELRKlpAYKFTPI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:cd17562    78 LMLTTESSDEKKQEGKAAGATGWLVKPFDPEQLLEVVKKVL 118
PRK13719 PRK13719
conjugal transfer transcriptional regulator TraJ; Provisional
 156-223 1.24e-03

conjugal transfer transcriptional regulator TraJ; Provisional


Pssm-ID: 237479  Cd Length: 217  Bit Score: 38.56  E-value: 1.24e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1943015426 156 MRAELGLTERQLEVLALIVQGKSNKVIGRQLDLAEATVKIHVSAILKAFKVTSRTQALIAATRLGLRF 223
Cdd:PRK13719  138 LEAKNKVTKYQNDVFILYSFGFSHEYIAQLLNITVGSSKNKISEILKFFGISSRDELLIILHTSEMIF 205
REC_OmpR_ArcA_TorR-like cd17619
phosphoacceptor receiver (REC) domain of ArcA- and TorR-like OmpR family response regulators; ...
 10-121 2.12e-03

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: 36.60  E-value: 2.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQldDAGLVLDAPDWPSAGKVLAEHPDLDLILLdLHLPGISGLEALSELRdSHAGIPVVALS 89
Cdd:cd17619     3 ILIVEDEPVTRATLKSYFEQ--EGYDVSEAGDGEEMRQILARQDIDLVLLD-INLPGKDGLSLTRELR-EQSEVGIILVT 78

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPKS-SSNEVLVNA 121
Cdd:cd17619    79 GRDDEVDRIVGLEIGADDYVTKPfNPRELLVRA 111
REC_HupR-like cd17569
phosphoacceptor receiver (REC) domain of hydrogen uptake protein regulator (HupR) and similar ...
 9-123 2.35e-03

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: 36.61  E-value: 2.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLD-DaglVLDAPDWPSAGKVLAEHPdldlilldlhlPGISGLEALSELRDSHAGIPVVA 87
Cdd:cd17569     2 TILLVDDEPNILKALKRLLRREGyE---VLTATSGEEALEILKQEPvdvvi-sdqrmPGMDGAELLKRVRERYPDTVRIL 77

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1943015426  88 LSAADDRQTVLEAIDRGAA-GFIPKSSSNEVLVNALR 123
Cdd:cd17569    78 LTGYADLDAAIEAINEGEIyRFLTKPWDDEELKETIR 114
REC_hyHK_blue-like cd18161
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators ...
 10-108 2.37e-03

phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinase/response regulators similar to Pseudomonas savastanoi blue-light-activated histidine kinase; 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 (HK)/response regulators contain all the elements of a classical TCS in a single polypeptide chain. Pseudomonas savastanoi blue-light-activated histidine kinase is a photosensitive HK and RR that is involved in increased bacterial virulence upon exposure to light. 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: 381145 [Multi-domain]  Cd Length: 102  Bit Score: 36.17  E-value: 2.37e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGvlrQLDDAG-LVLDAPDWPSAGKVLAEHPDLDLILLDLHLPG-ISGLEALSELRDSHAGIPVVA 87
Cdd:cd18161     1 VLVVEDDPDVRRLTAE---VLEDLGyTVLEAASGDEALDLLESGPDIDLLVTDVIMPGgMNGSQLAEEARRRRPDLKVLL 77

                          90       100
                  ....*....|....*....|.
gi 1943015426  88 LSAADDRQTVLEaidRGAAGF 108
Cdd:cd18161    78 TSGYAENAIEGG---DLAPGV 95
REC_NtrC cd19919
phosphoacceptor receiver (REC) domain of DNA-binding transcriptional regulator NtrC; ...
 65-111 3.26e-03

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: 36.10  E-value: 3.26e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1943015426  65 PGISGLEALSELRDSHAGIPVVALSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd19919    55 PGMDGLALLAQIKQRHPDLPVIIMTAHSDLDSAVSAYQGGAFEYLPK 101
REC_GlnL-like cd17565
phosphoacceptor receiver (REC) domain of transcriptional regulatory protein GlnL and similar ...
 10-111 3.69e-03

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: 35.71  E-value: 3.69e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQlDDAGLVLDAPDWPS--AGKVLAEHPDLDLILLDLhlPGISGLEALSELRDSHAGIPVVA 87
Cdd:cd17565     1 FYIVDDDKNIIKILSDIIED-DDLGEVVGEADNGAqaYDEILFLQPDIVLIDLLM--PGMDGIQLVRKLKDTGSNGKFIM 77

                          90       100
                  ....*....|....*....|....
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd17565    78 ISQVSDKEMIGKAYQAGIEFFINK 101
REC_hyHK_CKI1_RcsC-like cd17546
phosphoacceptor receiver (REC) domain of hybrid sensor histidine kinases/response regulators ...
 10-122 4.47e-03

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: 35.91  E-value: 4.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALPGVLRQLddaGLVLD-APDWPSAGKVLAEHPdldlilldLHLPGISGLEALSELRD---SHAGIPV 85
Cdd:cd17546     1 VLVVDDNPVNRKVLKKLLEKL---GYEVDvAENGQEALELLKEEPfdlv-lmdLQMPVMDGLEATRRIRElegGGRRTPI 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1943015426  86 VALSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNAL 122
Cdd:cd17546    77 IALTANALEEDREKCLEAGMDDYLSKPVKLDQLKEVL 113
REC_OmpR_KdpE-like cd17620
phosphoacceptor receiver (REC) domain of KdpE-like OmpR family response regulators; KdpE is a ...
 10-111 6.22e-03

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: 35.22  E-value: 6.22e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426  10 ILVVDDHPLIRQALpgvLRQLDDAGLVLDAPDWPSAGKVLAEHPDLDLILLDLHLPGISGLEALSELRdSHAGIPVVALS 89
Cdd:cd17620     1 ILVIEDEPQIRRFL---RTALEAHGYRVFEAETGQEGLLEAATRKPDLIILDLGLPDMDGLEVIRRLR-EWSAVPVIVLS 76

                          90       100
                  ....*....|....*....|..
gi 1943015426  90 AADDRQTVLEAIDRGAAGFIPK 111
Cdd:cd17620    77 ARDEESDKIAALDAGADDYLTK 98
glnG PRK10923
nitrogen regulation protein NR(I); Provisional
 7-111 7.19e-03

nitrogen regulation protein NR(I); Provisional


Pssm-ID: 182842 [Multi-domain]  Cd Length: 469  Bit Score: 37.16  E-value: 7.19e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   7 RLKILVVDDHPLIRQALPgvlRQLDDAGL----------VLDAPDWPSAGKVLAEhpdldlilldLHLPGISGLEALSEL 76
Cdd:PRK10923    3 RGIVWVVDDDSSIRWVLE---RALAGAGLtcttfengneVLEALASKTPDVLLSD----------IRMPGMDGLALLKQI 69

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1943015426  77 RDSHAGIPVVALSAADDRQTVLEAIDRGAAGFIPK 111
Cdd:PRK10923   70 KQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPK 104
REC_OmpR_MtrA-like cd17626
phosphoacceptor receiver (REC) domain of MtrA-like OmpR family response regulators; MtrA is ...
 9-123 7.76e-03

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: 35.14  E-value: 7.76e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRqlDDAGLVLDAPDWPSAGKVLAEHpDLDLILLDLHLPGISGLEALSELRDShAGIPVVAL 88
Cdd:cd17626     2 RILVVDDDAALAEMIGIVLR--GEGFDPAFCGDGTQALAAFREV-RPDLVLLDLMLPGIDGIEVCRQIRAE-SGVPIVML 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1943015426  89 SAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALR 123
Cdd:cd17626    78 TAKSDTVDVVLGLESGADDYVAKPFKPKELVARIR 112
orf27 CHL00148
Ycf27; Reviewed
 9-126 9.65e-03

Ycf27; Reviewed


Pssm-ID: 214376 [Multi-domain]  Cd Length: 240  Bit Score: 36.23  E-value: 9.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1943015426   9 KILVVDDHPLIRQALPGVLRQLDDAglVLDAPDWPSAGKVLA-EHPDLDLILldLHLPGISGLEALSELRdSHAGIPVVA 87
Cdd:CHL00148    8 KILVVDDEAYIRKILETRLSIIGYE--VITASDGEEALKLFRkEQPDLVILD--VMMPKLDGYGVCQEIR-KESDVPIIM 82

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1943015426  88 LSAADDRQTVLEAIDRGAAGFIPKSSSNEVLVNALRLVL 126
Cdd:CHL00148   83 LTALGDVSDRITGLELGADDYVVKPFSPKELEARIRSVL 121
 
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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