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Conserved domains on  [gi|2756499958|ref|WP_354771627|]
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response regulator transcription factor [Streptomyces avermitilis]

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
 5-225 2.21e-19

transcriptional regulator NarL; Provisional


The actual alignment was detected with superfamily member PRK10651:

Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 83.54  E-value: 2.21e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   5 RVLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALrslerAAAEGRRFDVLLVDAdlggNVPGtrpavsvrdgneeg 83
Cdd:PRK10651    8 TILLIDDHPMLRTGVKQLISMAPDITVVGeASNGEQGI-----ELAESLDPDLILLDL----NMPG-------------- 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  84 lVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALlTGVLreLT 163
Cdd:PRK10651   65 -MNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEAL-TPVL--AA 140

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2756499958 164 AARKHRTESERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK10651  141 SLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKS 202
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-225 2.21e-19

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 83.54  E-value: 2.21e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   5 RVLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALrslerAAAEGRRFDVLLVDAdlggNVPGtrpavsvrdgneeg 83
Cdd:PRK10651    8 TILLIDDHPMLRTGVKQLISMAPDITVVGeASNGEQGI-----ELAESLDPDLILLDL----NMPG-------------- 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  84 lVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALlTGVLreLT 163
Cdd:PRK10651   65 -MNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEAL-TPVL--AA 140

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2756499958 164 AARKHRTESERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK10651  141 SLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKS 202
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 177-225 6.48e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 69.86  E-value: 6.48e-16
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 2756499958  177 ESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
GerE pfam00196
Bacterial regulatory proteins, luxR family;
177-225 7.03e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 69.54  E-value: 7.03e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2756499958 177 ESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHS 49
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 118-225 8.33e-16

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: 73.21  E-value: 8.33e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 118 ALQAGASGWVAKDCSLSRLLTVIRGVLRdethlppalltgVLRELTAARKHRTESERLVESLTPREREVLRCMVAGLGRK 197
Cdd:COG4566    89 AMKAGAVDFLEKPFDDQALLDAVRRALA------------RDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNK 156

                          90       100
                  ....*....|....*....|....*...
gi 2756499958 198 AVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:COG4566   157 QIARELGISPRTVEVHRANVMEKLGARS 184
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 179-225 2.70e-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: 2.70e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2756499958 179 LTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKS 47
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 136-221 5.12e-04

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 39.64  E-value: 5.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 136 LLTVIRGVLRD----------ETHLPPALLTGVLRELTAARKHRTESE--RLVESLTPREREVLR-CMVAGLGRKAVAER 202
Cdd:TIGR02937  56 LFRIARNLILDylrrkrrlrrELDLLEELLDSDPSPEEELEQEEEREAlrEALEKLPEREREVLVlRYLEGLSYKEIAEI 135

                          90
                  ....*....|....*....
gi 2756499958 203 LFLSPHTVRTHMQNVLGKL 221
Cdd:TIGR02937 136 LGISVGTVKRRLKRARKKL 154
 
Name Accession Description Interval E-value
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 5-225 2.21e-19

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 83.54  E-value: 2.21e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   5 RVLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALrslerAAAEGRRFDVLLVDAdlggNVPGtrpavsvrdgneeg 83
Cdd:PRK10651    8 TILLIDDHPMLRTGVKQLISMAPDITVVGeASNGEQGI-----ELAESLDPDLILLDL----NMPG-------------- 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  84 lVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALlTGVLreLT 163
Cdd:PRK10651   65 -MNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEAL-TPVL--AA 140

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2756499958 164 AARKHRTESERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK10651  141 SLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKS 202
PRK15369 PRK15369
two component system response regulator;
1-224 3.04e-17

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 77.81  E-value: 3.04e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   1 MLRIRVLVVDDHRIFAESLAAALAAEPDVDVSAAGSGPAALRSLERAAAEgrrfDVLLVDADLggnvPGtrpavsvrdgn 80
Cdd:PRK15369    1 MKNYKILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEP----DIVILDLGL----PG----------- 61

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  81 eeglVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALLTGVLR 160
Cdd:PRK15369   62 ----MNGLDVIPQLHQRWPAMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAIL 137

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2756499958 161 ELTAArkhrteSERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVH 224
Cdd:PRK15369  138 ALLNA------DDTNPPLLTPRERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVH 195
PRK10360 PRK10360
transcriptional regulator UhpA;
4-223 1.21e-16

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 75.78  E-value: 1.21e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   4 IRVLVVDDHRIFAESLAAALAAEPDVDVSAA-GSGPAALRSLEraaaeGRRFDVLLVDadlggnvpgtrpaVSVRDgnee 82
Cdd:PRK10360    2 ITVALIDDHLIVRSGFAQLLGLEPDLQVVAEfGSGREALAGLP-----GRGVQVCICD-------------ISMPD---- 59

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  83 glVDGISLVAGVRSGqpsVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPalltGVLREL 162
Cdd:PRK10360   60 --ISGLELLSQLPKG---MATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTP----DIAIKL 130

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2756499958 163 TAARKhrteserlvESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGV 223
Cdd:PRK10360  131 ASGRQ---------DPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGV 182
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
52-225 1.39e-16

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 75.68  E-value: 1.39e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  52 RRFDVLLVDADLggnvPGTrpavsvrdgneeglvDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDC 131
Cdd:PRK09935   48 RPVDLIIMDIDL----PGT---------------DGFTFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCN 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 132 SLSRLLTVIRGVLRDETHLPpallTGVLRELTAARKHRTESERLVesLTPREREVLRCMVAGLGRKAVAERLFLSPHTVR 211
Cdd:PRK09935  109 DQNDIFHAVQMILSGYTFFP----SETLNYIKSNKCSTNSSTDTV--LSNREVTILRYLVSGLSNKEIADQLLLSNKTVS 182

                         170
                  ....*....|....
gi 2756499958 212 THMQNVLGKLGVHS 225
Cdd:PRK09935  183 AHKSNIYGKLGLHS 196
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 177-225 6.48e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 69.86  E-value: 6.48e-16
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 2756499958  177 ESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:smart00421   2 ASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
GerE pfam00196
Bacterial regulatory proteins, luxR family;
177-225 7.03e-16

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 69.54  E-value: 7.03e-16
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2756499958 177 ESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHS 49
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 118-225 8.33e-16

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: 73.21  E-value: 8.33e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 118 ALQAGASGWVAKDCSLSRLLTVIRGVLRdethlppalltgVLRELTAARKHRTESERLVESLTPREREVLRCMVAGLGRK 197
Cdd:COG4566    89 AMKAGAVDFLEKPFDDQALLDAVRRALA------------RDRARRAERARRAELRARLASLTPREREVLDLVVAGLSNK 156

                          90       100
                  ....*....|....*....|....*...
gi 2756499958 198 AVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:COG4566   157 QIARELGISPRTVEVHRANVMEKLGARS 184
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 179-225 1.46e-15

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: 71.08  E-value: 1.46e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2756499958 179 LTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:COG2197    70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRN 116
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 179-225 2.70e-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: 2.70e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 2756499958 179 LTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:cd06170     1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKS 47
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 169-225 2.09e-13

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: 63.83  E-value: 2.09e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2756499958 169 RTESERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:COG5905     3 PSSSTSHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRN 59
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
 6-145 3.22e-13

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: 64.46  E-value: 3.22e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   6 VLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALRSLERaaaegRRFDVLLVDADLGGnvpgtrpavsvrdgneegl 84
Cdd:cd17535     1 VLIVDDHPLVREGLRRLLESEPDIEVVGeAADGEEALALLRE-----LRPDVVLMDLSMPG------------------- 56

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2756499958  85 VDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:cd17535    57 MDGIEALRRLRRRYPDLKVIVLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
 3-222 1.40e-11

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: 61.90  E-value: 1.40e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   3 RIRVLVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALRsleraAAEGRRFDVLLVDADLggnvPGtrpavsvrdgnee 82
Cdd:COG0745     1 MPRILVVEDDPDIRELLADALERE-GYEVDTAADGEEALE-----LLEEERPDLILLDLML----PG------------- 57

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  83 glVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRdetHLPPALLTGVLREL 162
Cdd:COG0745    58 --MDGLEVCRRLRARPSDIPIIMLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRALLR---RRAAEVLRVGDLLD 132

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2756499958 163 TAARKHRTESERLveSLTPREREVLRCMVAGLGRKAVAERL--------FLSPHTVRTHMQNVLGKLG 222
Cdd:COG0745   133 LAAREVTRDGEPV--ELTPKEFRLLELLMRNPGRVVSREQLleevwgydYGDDRTVDVHISRLRKKLE 198
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
102-225 4.50e-11

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 60.15  E-value: 4.50e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 102 RTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALLTGVLRELTAARKHRTESERLVESLTP 181
Cdd:COG2771    51 AAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAPGLTP 130

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2756499958 182 REREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:COG2771   131 REREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
7-225 2.30e-10

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 58.37  E-value: 2.30e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   7 LVVDDHRIfAESLAAALAAEPDVDVSAA-GSGPAALRSLERAAAegrrfDVLLVDADlggnVPGtrpavsvrdgneeglV 85
Cdd:PRK09958    4 IIIDDHPL-AIAAIRNLLIKNDIEILAElTEGGSAVQRVETLKP-----DIVIIDVD----IPG---------------V 58

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  86 DGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALltgvlrelTAA 165
Cdd:PRK09958   59 NGIQVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFPFSL--------NRF 130

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 166 RKHRTESERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK09958  131 VGSLTSDQQKLDSLSKQEISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKS 190
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 3-145 4.14e-10

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: 59.21  E-value: 4.14e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   3 RIRVLVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALRSLERaaaegRRFDVLLVDADLGGnvpgtrpavsvrdgnee 82
Cdd:COG2204     2 MARILVVDDDPDIRRLLKELLERA-GYEVETAASGEEALALLRE-----EPPDLVLLDLRMPG----------------- 58

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2756499958  83 glVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:COG2204    59 --MDGLELLRELRALDPDLPVILLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALE 119
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
5-225 5.57e-10

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 57.55  E-value: 5.57e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   5 RVLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALRSLERAAAegrrfDVLLVDADLGGnvpgtrpavsvrdgneeg 83
Cdd:PRK10403    8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAeAGDGASAIDLANRLDP-----DVILLDLNMKG------------------ 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  84 lVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDEthlppALLTGVLRELT 163
Cdd:PRK10403   65 -MSGLDTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGS-----KVFSERVNQYL 138

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2756499958 164 AARKHRTESERLVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK10403  139 REREMFGAEEDPFSVLTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRS 200
fixJ PRK09390
response regulator FixJ; Provisional
 67-225 4.31e-09

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 55.01  E-value: 4.31e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  67 VPGTRPAVSVRDGNEEGLvDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRd 146
Cdd:PRK09390   43 LPGLRFGCVVTDVRMPGI-DGIELLRRLKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALA- 120

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2756499958 147 etHLPPALLTGVLRELTAARkhrteserlVESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK09390  121 --QAPEAAKSEAVAADIRAR---------IASLSERERQVMDGLVAGLSNKVIARDLDISPRTVEVYRANVMTKMQAGS 188
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
 6-141 6.90e-09

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: 52.15  E-value: 6.90e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   6 VLVVDDHRIFAESLAAALAAePDVDVSAAGSGPAALRSLERaaaegRRFDVLLVDADLGGnvpgtrpavsvrdgneeglV 85
Cdd:pfam00072   1 VLIVDDDPLIRELLRQLLEK-EGYVVAEADDGKEALELLKE-----ERPDLILLDINMPG-------------------M 55

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2756499958  86 DGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIR 141
Cdd:pfam00072  56 DGLELLKRIRRRDPTTPVIILTAHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
PRK11475 PRK11475
DNA-binding transcriptional activator BglJ; Provisional
 149-225 9.79e-08

DNA-binding transcriptional activator BglJ; Provisional


Pssm-ID: 236915 [Multi-domain]  Cd Length: 207  Bit Score: 50.90  E-value: 9.79e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 149 HLPPALLTGV------LRELTAAR-KHRTESERLVES------------LTPREREVLRCMVAGLGRKAVAERLFLSPHT 209
Cdd:PRK11475   86 SLSPSPLDGVlskastLEILQQELfLSLNGVRQATDRlnnqwyinqsrmLSPTEREILRFMSRGYSMPQIAEQLERNIKT 165

                          90
                  ....*....|....*.
gi 2756499958 210 VRTHMQNVLGKLGVHS 225
Cdd:PRK11475  166 IRAHKFNVMSKLGVSS 181
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
 1-145 5.44e-07

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: 47.54  E-value: 5.44e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   1 MLRIRVLVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALrslerAAAEGRRFDVLLVDADLggnvPGtrpavsvrdgn 80
Cdd:COG0784     3 LGGKRILVVDDNPDNRELLRRLLERL-GYEVTTAEDGAEAL-----ELLRAGPPDLILLDINM----PG----------- 61

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2756499958  81 eeglVDGISLVAGVRS--GQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:COG0784    62 ----MDGLELLRRIRAlpRLPDIPIIALTAYADEEDRERALEAGADDYLTKPVDPEELLEALRRLLA 124
CitB COG4565
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ...
 1-145 1.41e-06

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


Pssm-ID: 443622 [Multi-domain]  Cd Length: 138  Bit Score: 46.50  E-value: 1.41e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   1 MLRIRVLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALRSLERaaaegRRFDVLLVDADLGGnvpgtrpavsvrdg 79
Cdd:COG4565     1 MKMIRVLIVEDDPMVAELLRRYLERLPGFEVVGvASSGEEALALLAE-----HRPDLILLDIYLPD-------------- 61

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2756499958  80 neeglVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:COG4565    62 -----GDGLELLRELRARGPDVDVIVITAARDPETVREALRAGVVDYLIKPFTFERLREALERYLE 122
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
 7-129 2.53e-06

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: 44.91  E-value: 2.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   7 LVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALrslerAAAEGRRFDVLLVDADLGGnvpgtrpavsvrdgneeglVD 86
Cdd:cd00156     1 LIVDDDPAIRELLKSLLERE-GYEVDTAADGEEAL-----ELLREERPDLVLLDLMMPG-------------------MD 55

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2756499958  87 GISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAK 129
Cdd:cd00156    56 GLELLRKLRELPPDIPVIVLTAKADEEDAVRALELGADDYLVK 98
PRK10100 PRK10100
transcriptional regulator CsgD;
134-223 2.68e-06

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 46.79  E-value: 2.68e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 134 SRLLTVIRGVLRDETHLPPALLTGVLRELTAARKHRTESErlveSLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTH 213
Cdd:PRK10100  115 ERVVNGLQGVLRGECYFTQKLASYLITHSGNYRYNSTESA----LLTHREKEILNKLRIGASNNEIARSLFISENTVKTH 190

                          90
                  ....*....|
gi 2756499958 214 MQNVLGKLGV 223
Cdd:PRK10100  191 LYNLFKKIAV 200
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
112-225 3.12e-06

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 46.24  E-value: 3.12e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 112 PRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALLTGVLReltAARKHRTESERLVESltprerevlRCMV 191
Cdd:COG2909    68 SEEDAARLAERTEGWARLALDPEEALALLERLLALAEAAGRLLLRALAL---RALGDREEALAALRR---------RLLA 135

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2756499958 192 AGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:COG2909   136 EGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRS 169
PRK09483 PRK09483
response regulator; Provisional
 98-225 5.74e-06

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 45.87  E-value: 5.74e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  98 QPSVRTVVL-AEKDDPRRAALaLQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPALltgvlRELTAARKHRTESERLV 176
Cdd:PRK09483   73 TPDVKIIMLtVHTENPLPAKV-MQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDI-----AQQMALSQIEPATENPF 146

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2756499958 177 ESLTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGVHS 225
Cdd:PRK09483  147 ASLSERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISG 195
REC_HP-RR-like cd17573
phosphoacceptor receiver (REC) domain of orphan response regulator HP-RR and similar proteins; ...
 52-140 1.89e-05

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


Pssm-ID: 381115 [Multi-domain]  Cd Length: 110  Bit Score: 42.80  E-value: 1.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  52 RRFDVLLVDADLGgnvpgtrpavsvrDGNeeglvdGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDC 131
Cdd:cd17573    41 RNYDLVLVSDKLP-------------DGN------GLSIVSRIKEKHPSIVVIVLSDNPKTEQEIEAFKEGADDYIAKPF 101


                  ....*....
gi 2756499958 132 SLSRLLTVI 140
Cdd:cd17573   102 DFKVLVARI 110
AmiR COG3707
Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ...
 1-141 2.24e-05

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: 43.79  E-value: 2.24e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   1 MLRIRVLVVDDHRIFAESLAAALAAEPDVDVSAAGSGPAALRsleraAAEGRRFDVLLVDADLGGnvpgtrpavsvRDGN 80
Cdd:COG3707     1 MRGLRVLVVDDEPLRRADLREGLREAGYEVVAEAADGEDAVE-----LVRELKPDLVIVDIDMPD-----------RDGL 64

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2756499958  81 EeglvdgislVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIR 141
Cdd:COG3707    65 E---------AARQISEERPAPVILLTAYSDPELIERALEAGVSAYLVKPLDPEDLLPALE 116
PRK10840 PRK10840
transcriptional regulator RcsB; Provisional
 1-223 3.98e-05

transcriptional regulator RcsB; Provisional


Pssm-ID: 182771 [Multi-domain]  Cd Length: 216  Bit Score: 43.67  E-value: 3.98e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   1 MLRIRVLVVDDHRIFAESLAAALAAEPDVDVSAAGSGPAAL-RSLERAAAegrrfDVLLVDADLGGNVPGtrpavsvrdg 79
Cdd:PRK10840    1 MNNMNVIIADDHPIVLFGIRKSLEQIEWVNVVGEFEDSTALiNNLPKLDA-----HVLITDLSMPGDKYG---------- 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  80 neeglvDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLRDETHLPPAlltgVL 159
Cdd:PRK10840   66 ------DGITLIKYIKRHFPSLSIIVLTMNNNPAILSAVLDLDIEGIVLKQGAPTDLPKALAALQKGKKFTPES----VS 135

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2756499958 160 RELTAARKHRTESERLveslTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGV 223
Cdd:PRK10840  136 RLLEKISAGGYGDKRL----SPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGV 195
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
179-223 7.05e-05

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 43.78  E-value: 7.05e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2756499958 179 LTPREREVLRCMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKLGV 223
Cdd:PRK04841  839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGI 883
PleD COG3706
Two-component response regulator, PleD family, consists of two REC domains and a diguanylate ...
 3-145 7.44e-05

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: 42.20  E-value: 7.44e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   3 RIRVLVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALRSLERaaaegRRFDVLLVDADLGGnvpgtrpavsvrdgnee 82
Cdd:COG3706     1 PARILVVDDDPTNRKLLRRLLEAA-GYEVVEAADGEEALELLQE-----HRPDLILLDLEMPD----------------- 57

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2756499958  83 glVDGISLVAGVRS--GQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:COG3706    58 --MDGLELCRRLRAdpRTADIPIIFLTALDDEEDRARALEAGADDYLTKPFDPEELLARVDLVAR 120
RpfG COG3437
Response regulator c-di-GMP phosphodiesterase, RpfG family, contains REC and HD-GYP domains ...
 3-145 2.38e-04

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: 41.30  E-value: 2.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   3 RIRVLVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALRsleraAAEGRRFDVLLVDADLGGnvpgtrpavsvrdgnee 82
Cdd:COG3437     6 APTVLIVDDDPENLELLRQLLRTL-GYDVVTAESGEEALE-----LLLEAPPDLILLDVRMPG----------------- 62

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2756499958  83 glVDGISLVAGVRSGQPSVRT--VVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:COG3437    63 --MDGFELLRLLRADPSTRDIpvIFLTALADPEDRERALEAGADDYLTKPFDPEELLARVRNALE 125
REC_NarL cd19931
phosphoacceptor receiver (REC) domain of Nitrate/Nitrite response regulator L (NarL); Nitrate ...
 6-141 2.77e-04

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: 39.64  E-value: 2.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   6 VLVVDDHRIFAESLAAALAAEPDVDVSA-AGSGPAALRSLERAAAegrrfDVLLVDAdlggNVPGtrpavsvrdgneegl 84
Cdd:cd19931     1 VLLIDDHPLLRKGIKQLIELDPDFTVVGeASSGEEGIELAERLDP-----DLILLDL----NMKG--------------- 56

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2756499958  85 VDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIR 141
Cdd:cd19931    57 MSGLDTLKALREEGVSARIVILTVSDAEDDVVTALRAGADGYLLKDMEPEDLLEALK 113
YesN COG4753
Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ...
 5-129 3.60e-04

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: 38.99  E-value: 3.60e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   5 RVLVVDDHRIFAESLAAALAAEPDVD-VSAAGSGPAALRSLERaaaegRRFDVLLVDADLggnvPGtrpavsvrdgneeg 83
Cdd:COG4753     1 KVLIVDDEPLIREGLKRILEWEAGFEvVGEAENGEEALELLEE-----HKPDLVITDINM----PG-------------- 57

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2756499958  84 lVDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAK 129
Cdd:COG4753    58 -MDGLELLEAIRELDPDTKIIILSGYSDFEYAQEAIKLGADDYLLK 102
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 136-221 5.12e-04

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 39.64  E-value: 5.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958 136 LLTVIRGVLRD----------ETHLPPALLTGVLRELTAARKHRTESE--RLVESLTPREREVLR-CMVAGLGRKAVAER 202
Cdd:TIGR02937  56 LFRIARNLILDylrrkrrlrrELDLLEELLDSDPSPEEELEQEEEREAlrEALEKLPEREREVLVlRYLEGLSYKEIAEI 135

                          90
                  ....*....|....*....
gi 2756499958 203 LFLSPHTVRTHMQNVLGKL 221
Cdd:TIGR02937 136 LGISVGTVKRRLKRARKKL 154
REC_CheY4-like cd17562
phosphoacceptor receiver (REC) domain of chemotaxis response regulator CheY4 and similar CheY ...
 30-144 5.32e-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: 38.82  E-value: 5.32e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958  30 DVSAAGSGPAALRSleraaAEGRRFDVLLVDAdlggNVPGtrpavsvrdgneeglVDGISLVAGVRsGQPSVRTV---VL 106
Cdd:cd17562    26 EVVEAADGRDALSK-----AQSKKFDLIITDQ----NMPN---------------MDGIELIKELR-KLPAYKFTpilML 80

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2756499958 107 A-EKDDPRRAAlALQAGASGWVAKDCSLSRLLTVIRGVL 144
Cdd:cd17562    81 TtESSDEKKQE-GKAAGATGWLVKPFDPEQLLEVVKKVL 118
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 173-221 3.14e-03

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 37.67  E-value: 3.14e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2756499958 173 ERLVESLTPREREVLR-CMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKL 221
Cdd:COG1595   122 LAALERLPPRQREVLVlRYLEGLSYAEIAEILGISEGTVKSRLSRARKKL 171
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 173-221 3.14e-03

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 34.74  E-value: 3.14e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2756499958 173 ERLVESLTPREREVLR-CMVAGLGRKAVAERLFLSPHTVRTHMQNVLGKL 221
Cdd:pfam08281   5 LRALEELPPRQREVFLlRYLEGLSYAEIAELLGISEGTVKSRLSRARKKL 54
REC_OmpR_MtPhoP-like cd17615
phosphoacceptor receiver (REC) domain of MtPhoP-like OmpR family response regulators; ...
 5-145 4.86e-03

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: 36.18  E-value: 4.86e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2756499958   5 RVLVVDDHRIFAESLAAALAAEpDVDVSAAGSGPAALRSLERAAAEGRRFDVLLVDadlggnvpgtrpavsvrdgneegl 84
Cdd:cd17615     1 RVLVVDDEPNITELLSMALRYE-GWDVETAADGAEALAAAREFRPDAVVLDIMLPD------------------------ 55

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2756499958  85 VDGISLVAGVRSGQPSVRTVVLAEKDDPRRAALALQAGASGWVAKDCSLSRLLTVIRGVLR 145
Cdd:cd17615    56 MDGLEVLRRLRADGPDVPVLFLTAKDSVEDRIAGLTAGGDDYVTKPFSLEEVVARLRALLR 116
 
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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