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Conserved domains on  [gi|23477289|gb|AAN34630|]
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response regulator GacA, partial [Pseudomonas putida]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK09483 super family cl35841
response regulator; Provisional
1-134 2.08e-69

response regulator; Provisional


The actual alignment was detected with superfamily member PRK09483:

Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 207.65  E-value: 2.08e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFQPQ- 79
Cdd:PRK09483  63 LEATRKILRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPAt 142
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 23477289   80 GSPFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK09483 143 ENPFASLSERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDV 197
 
Name Accession Description Interval E-value
PRK09483 PRK09483
response regulator; Provisional
1-134 2.08e-69

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 207.65  E-value: 2.08e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFQPQ- 79
Cdd:PRK09483  63 LEATRKILRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPAt 142
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 23477289   80 GSPFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK09483 143 ENPFASLSERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDV 197
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
1-58 2.02e-16

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: 69.85  E-value: 2.02e-16
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFA 58
Cdd:cd17535  60 IEALRRLRRRYPDLKVIVLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
83-134 3.40e-14

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 62.54  E-value: 3.40e-14
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 23477289     83 FDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRT 52
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
8-132 1.40e-11

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: 58.96  E-value: 1.40e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289   8 LSSHPDikvVAVTVceedpfptRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFqpqgspFDALS 87
Cdd:COG4566  77 LTGHGD---VPMAV--------RAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRAR------LASLT 139
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 23477289  88 EREIQIALMIV-GCQ-KVqiISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:COG4566 140 PREREVLDLVVaGLSnKQ--IARELGISPRTVEVHRANVMEKLGARS 184
GerE pfam00196
Bacterial regulatory proteins, luxR family;
84-134 4.25e-10

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 51.82  E-value: 4.25e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 23477289    84 DALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRV 51
 
Name Accession Description Interval E-value
PRK09483 PRK09483
response regulator; Provisional
1-134 2.08e-69

response regulator; Provisional


Pssm-ID: 236538 [Multi-domain]  Cd Length: 217  Bit Score: 207.65  E-value: 2.08e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFQPQ- 79
Cdd:PRK09483  63 LEATRKILRYTPDVKIIMLTVHTENPLPAKVMQAGAAGYLSKGAAPQEVVSAIRSVHSGQRYIASDIAQQMALSQIEPAt 142
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 23477289   80 GSPFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK09483 143 ENPFASLSERELQIMLMITKGQKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDV 197
PRK10360 PRK10360
transcriptional regulator UhpA;
6-134 4.55e-19

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 78.48  E-value: 4.55e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    6 KLLSSHPD-IKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFQPqgspfd 84
Cdd:PRK10360  64 ELLSQLPKgMATIMLSVHDSPALVEQALNAGARGFLSKRCSPDELIAAVHTVATGGCYLTPDIAIKLASGRQDP------ 137
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 23477289   85 aLSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK10360 138 -LTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDV 186
REC_NarL-like cd17535
phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ...
1-58 2.02e-16

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: 69.85  E-value: 2.02e-16
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFA 58
Cdd:cd17535  60 IEALRRLRRRYPDLKVIVLTAHDDPEYVLRALKAGAAGYLLKDSSPEELIEAIRAVAA 117
PRK15369 PRK15369
two component system response regulator;
1-128 1.44e-15

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 69.72  E-value: 1.44e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFQPQG 80
Cdd:PRK15369  65 LDVIPQLHQRWPAMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTVAVGKRYIDPALNREAILALLNADD 144
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 23477289   81 SPFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKL 128
Cdd:PRK15369 145 TNPPLLTPRERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKL 192
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
83-134 3.40e-14

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 62.54  E-value: 3.40e-14
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 23477289     83 FDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:smart00421   1 LASLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRT 52
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
8-132 1.40e-11

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: 58.96  E-value: 1.40e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289   8 LSSHPDikvVAVTVceedpfptRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFqpqgspFDALS 87
Cdd:COG4566  77 LTGHGD---VPMAV--------RAMKAGAVDFLEKPFDDQALLDAVRRALARDRARRAERARRAELRAR------LASLT 139
                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
gi 23477289  88 EREIQIALMIV-GCQ-KVqiISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:COG4566 140 PREREVLDLVVaGLSnKQ--IARELGISPRTVEVHRANVMEKLGARS 184
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
1-134 7.70e-11

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 57.35  E-value: 7.70e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLAL---KSFQ 77
Cdd:PRK10651  68 LETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALQQAAAGEMVLSEALTPVLAAslrANRA 147
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 23477289   78 PQGSPFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK10651 148 TTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRV 204
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
78-134 8.33e-11

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: 55.67  E-value: 8.33e-11
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 23477289  78 PQGSPFDA----LSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:COG2197  58 PGMDGLEAlrrlLTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRT 118
GerE pfam00196
Bacterial regulatory proteins, luxR family;
84-134 4.25e-10

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 51.82  E-value: 4.25e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 23477289    84 DALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:pfam00196   1 DSLSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRV 51
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
86-134 1.04e-08

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: 48.30  E-value: 1.04e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
gi 23477289  86 LSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:cd06170   1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRT 49
Response_reg pfam00072
Response regulator receiver domain; This domain receives the signal from the sensor partner in ...
1-54 2.96e-08

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: 48.30  E-value: 2.96e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 23477289     1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIR 54
Cdd:pfam00072  58 LELLKRIRRRDPTTPVIILTAHGDEDDAVEALEAGADDFLSKPFDPDELLAAIR 111
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
82-132 4.57e-08

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 49.37  E-value: 4.57e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 23477289  82 PFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:COG2771 124 RAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
PRK09958 PRK09958
acid-sensing system DNA-binding response regulator EvgA;
30-132 1.36e-07

acid-sensing system DNA-binding response regulator EvgA;


Pssm-ID: 182168 [Multi-domain]  Cd Length: 204  Bit Score: 48.35  E-value: 1.36e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289   30 RLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISpqiaqqLALKSFQPQGSP----FDALSEREIQIALMIVGCQKVQI 105
Cdd:PRK09958  90 HCADAGANGFVSKKEGMNNIIAAIEAAKNGYCYFP------FSLNRFVGSLTSdqqkLDSLSKQEISVMRYILDGKDNND 163
                         90       100
                 ....*....|....*....|....*..
gi 23477289  106 ISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:PRK09958 164 IAEKMFISNKTVSTYKSRLMEKLECKS 190
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
5-134 2.52e-07

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 47.56  E-value: 2.52e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289    5 RKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQLALKSFQPQGSPFD 84
Cdd:PRK09935  69 KRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSKCNDQNDIFHAVQMILSGYTFFPSETLNYIKSNKCSTNSSTDT 148
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 23477289   85 ALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK09935 149 VLSNREVTILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIV 198
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
15-134 3.69e-07

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 47.15  E-value: 3.69e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289   15 KVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQRYISPQIAQQL-ALKSFQPQGSPFDALSEREIQI 93
Cdd:PRK10403  82 QIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRAGAKGSKVFSERVNQYLrEREMFGAEEDPFSVLTERELDV 161
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 23477289   94 ALMIV-GCQKVQIISdKLCLSPKTVNTYRYRIFEKLSITSDV 134
Cdd:PRK10403 162 LHELAqGLSNKQIAS-VLNISEQTVKVHIRNLLRKLNVRSRV 202
CheY COG0784
CheY-like REC (receiver) domain, includes chemotaxis protein CheY and sporulation regulator ...
1-61 1.01e-05

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: 42.14  E-value: 1.01e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 23477289   1 LEATRKL--LSSHPDIKVVAVT--VCEEDPfpTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQR 61
Cdd:COG0784  65 LELLRRIraLPRLPDIPIIALTayADEEDR--ERALEAGADDYLTKPVDPEELLEALRRLLARAS 127
REC_DesR-like cd19930
phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ...
1-54 4.40e-05

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: 39.95  E-value: 4.40e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIR 54
Cdd:cd19930  60 LEVAAELREELPDTKVLIVTTFGRPGYFRRALAAGVDGYVLKDRPIEELADAIR 113
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
81-132 5.67e-05

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: 38.79  E-value: 5.67e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 23477289  81 SPFDALSEREIQIALMIVGCQKVQIISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:COG5905   8 SHPSLLTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRN 59
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
1-61 7.47e-05

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: 40.72  E-value: 7.47e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAFAGQR 61
Cdd:COG2204  62 LELLRELRALDPDLPVILLTGYGDVETAVEAIKAGAFDYLTKPFDLEELLAAVERALERRR 122
OmpR COG0745
DNA-binding response regulator, OmpR family, contains REC and winged-helix (wHTH) domain ...
1-93 1.05e-03

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: 37.24  E-value: 1.05e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIR--LAFAGQRYISPQIAQQLALKSFQP 78
Cdd:COG0745  61 LEVCRRLRARPSDIPIIMLTARDDEEDRVRGLEAGADDYLTKPFDPEELLARIRalLRRRAAEVLRVGDLLDLAAREVTR 140
                        90
                ....*....|....*
gi 23477289  79 QGSPFDaLSEREIQI 93
Cdd:COG0745 141 DGEPVE-LTPKEFRL 154
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
106-132 1.22e-03

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 36.99  E-value: 1.22e-03
                        10        20
                ....*....|....*....|....*..
gi 23477289 106 ISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:COG2909 143 IAERLFISVNTVKTHLRNIYRKLGVRS 169
fixJ PRK09390
response regulator FixJ; Provisional
32-132 6.01e-03

response regulator FixJ; Provisional


Pssm-ID: 181815 [Multi-domain]  Cd Length: 202  Bit Score: 34.98  E-value: 6.01e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 23477289   32 LQAGAAGYLTKGAGLDEMVQAIRLAF------AGQRYISPQIAQQLAlksfqpqgspfdALSEREIQIALMIVGCQKVQI 105
Cdd:PRK09390  94 MKLGAVDFIEKPFEDERLIGAIERALaqapeaAKSEAVAADIRARIA------------SLSERERQVMDGLVAGLSNKV 161
                         90       100
                 ....*....|....*....|....*..
gi 23477289  106 ISDKLCLSPKTVNTYRYRIFEKLSITS 132
Cdd:PRK09390 162 IARDLDISPRTVEVYRANVMTKMQAGS 188
REC_CheY cd17542
phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ...
1-57 6.21e-03

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: 34.18  E-value: 6.21e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTKGAGLDEMVQAIRLAF 57
Cdd:cd17542  61 IEALKEIKKIDPNAKVIMCSAMGQEEMVKEAIKAGAKDFIVKPFQPERVLEAVEKVL 117
REC cd00156
phosphoacceptor receiver (REC) domain of response regulators (RRs) and pseudo response ...
1-42 6.96e-03

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: 33.74  E-value: 6.96e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 23477289   1 LEATRKLLSSHPDIKVVAVTVCEEDPFPTRLLQAGAAGYLTK 42
Cdd:cd00156  57 LELLRKLRELPPDIPVIVLTAKADEEDAVRALELGADDYLVK 98
 
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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