DNA-binding response regulator [Candidatus Acetothermia bacterium]
response regulator transcription factor( domain architecture ID 11450879)
response regulator transcription factor with a signal receiver (REC) domain and a LuxR family helix-turn-helix (HTH) domain that may be part of a two-component regulatory system; similar to Staphylococcus aureus response regulator VraR
List of domain hits
Name | Accession | Description | Interval | E-value | ||||
CitB | COG2197 | DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ... |
4-189 | 8.20e-26 | ||||
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: 96.11 E-value: 8.20e-26
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Name | Accession | Description | Interval | E-value | ||||
CitB | COG2197 | DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ... |
4-189 | 8.20e-26 | ||||
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: 96.11 E-value: 8.20e-26
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PRK15369 | PRK15369 | two component system response regulator; |
1-189 | 1.15e-23 | ||||
two component system response regulator; Pssm-ID: 185267 [Multi-domain] Cd Length: 211 Bit Score: 92.83 E-value: 1.15e-23
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REC_NarL-like | cd17535 | phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ... |
6-118 | 3.68e-19 | ||||
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: 78.71 E-value: 3.68e-19
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HTH_LUXR | smart00421 | helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon |
129-184 | 5.10e-18 | ||||
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon Pssm-ID: 197715 [Multi-domain] Cd Length: 58 Bit Score: 74.10 E-value: 5.10e-18
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GerE | pfam00196 | Bacterial regulatory proteins, luxR family; |
130-184 | 1.29e-14 | ||||
Bacterial regulatory proteins, luxR family; Pssm-ID: 425517 [Multi-domain] Cd Length: 57 Bit Score: 64.91 E-value: 1.29e-14
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sigma70-ECF | TIGR02937 | RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ... |
130-172 | 1.31e-03 | ||||
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: 37.71 E-value: 1.31e-03
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Name | Accession | Description | Interval | E-value | ||||
CitB | COG2197 | DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ... |
4-189 | 8.20e-26 | ||||
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: 96.11 E-value: 8.20e-26
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PRK15369 | PRK15369 | two component system response regulator; |
1-189 | 1.15e-23 | ||||
two component system response regulator; Pssm-ID: 185267 [Multi-domain] Cd Length: 211 Bit Score: 92.83 E-value: 1.15e-23
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REC_NarL-like | cd17535 | phosphoacceptor receiver (REC) domain of NarL (Nitrate/Nitrite response regulator L) family ... |
6-118 | 3.68e-19 | ||||
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: 78.71 E-value: 3.68e-19
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HTH_LUXR | smart00421 | helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon |
129-184 | 5.10e-18 | ||||
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon Pssm-ID: 197715 [Multi-domain] Cd Length: 58 Bit Score: 74.10 E-value: 5.10e-18
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PRK10403 | PRK10403 | nitrate/nitrite response regulator protein NarP; |
5-177 | 9.34e-18 | ||||
nitrate/nitrite response regulator protein NarP; Pssm-ID: 182431 [Multi-domain] Cd Length: 215 Bit Score: 77.59 E-value: 9.34e-18
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PRK10360 | PRK10360 | transcriptional regulator UhpA; |
4-187 | 4.15e-17 | ||||
transcriptional regulator UhpA; Pssm-ID: 182408 [Multi-domain] Cd Length: 196 Bit Score: 75.40 E-value: 4.15e-17
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GerE | COG5905 | Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ... |
130-193 | 5.12e-17 | ||||
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: 71.91 E-value: 5.12e-17
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LuxR_C_like | cd06170 | C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ... |
130-186 | 3.10e-16 | ||||
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: 69.49 E-value: 3.10e-16
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PRK09483 | PRK09483 | response regulator; Provisional |
4-175 | 1.02e-14 | ||||
response regulator; Provisional Pssm-ID: 236538 [Multi-domain] Cd Length: 217 Bit Score: 69.36 E-value: 1.02e-14
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GerE | pfam00196 | Bacterial regulatory proteins, luxR family; |
130-184 | 1.29e-14 | ||||
Bacterial regulatory proteins, luxR family; Pssm-ID: 425517 [Multi-domain] Cd Length: 57 Bit Score: 64.91 E-value: 1.29e-14
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FixJ | COG4566 | DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ... |
130-188 | 1.51e-13 | ||||
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: 65.89 E-value: 1.51e-13
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PRK10651 | PRK10651 | transcriptional regulator NarL; Provisional |
5-187 | 1.73e-13 | ||||
transcriptional regulator NarL; Provisional Pssm-ID: 182619 [Multi-domain] Cd Length: 216 Bit Score: 66.21 E-value: 1.73e-13
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PRK09958 | PRK09958 | acid-sensing system DNA-binding response regulator EvgA; |
8-189 | 2.69e-13 | ||||
acid-sensing system DNA-binding response regulator EvgA; Pssm-ID: 182168 [Multi-domain] Cd Length: 204 Bit Score: 65.30 E-value: 2.69e-13
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CsgD | COG2771 | DNA-binding transcriptional regulator, CsgD family [Transcription]; |
4-189 | 3.28e-13 | ||||
DNA-binding transcriptional regulator, CsgD family [Transcription]; Pssm-ID: 442052 [Multi-domain] Cd Length: 188 Bit Score: 64.78 E-value: 3.28e-13
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AmiR | COG3707 | Two-component response regulator, AmiR/NasT family, consists of REC and RNA-binding ... |
1-119 | 1.21e-08 | ||||
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: 52.27 E-value: 1.21e-08
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PRK09935 | PRK09935 | fimbriae biosynthesis transcriptional regulator FimZ; |
1-189 | 7.68e-08 | ||||
fimbriae biosynthesis transcriptional regulator FimZ; Pssm-ID: 182154 [Multi-domain] Cd Length: 210 Bit Score: 50.26 E-value: 7.68e-08
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MalT | COG2909 | ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription]; |
140-189 | 4.50e-07 | ||||
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription]; Pssm-ID: 442153 [Multi-domain] Cd Length: 184 Bit Score: 47.78 E-value: 4.50e-07
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REC_PdtaR-like | cd19932 | phosphoacceptor receiver (REC) domain of PdtaR and similar proteins; This subfamily includes ... |
4-119 | 7.89e-07 | ||||
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: 45.87 E-value: 7.89e-07
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REC_DesR-like | cd19930 | phosphoacceptor receiver (REC) domain of DesR and similar proteins; This group is composed of ... |
6-115 | 2.87e-06 | ||||
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: 44.57 E-value: 2.87e-06
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Response_reg | pfam00072 | Response regulator receiver domain; This domain receives the signal from the sensor partner in ... |
6-116 | 3.09e-06 | ||||
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: 44.06 E-value: 3.09e-06
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PRK10840 | PRK10840 | transcriptional regulator RcsB; Provisional |
1-193 | 8.80e-06 | ||||
transcriptional regulator RcsB; Provisional Pssm-ID: 182771 [Multi-domain] Cd Length: 216 Bit Score: 44.44 E-value: 8.80e-06
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COG4567 | COG4567 | DNA-binding response regulator, ActR/RegA family, consists of REC and Fis-type HTH domains ... |
5-160 | 1.74e-05 | ||||
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: 43.37 E-value: 1.74e-05
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YesN | COG4753 | Two-component response regulator, YesN/AraC family, consists of REC and AraC-type DNA-binding ... |
5-89 | 3.19e-05 | ||||
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: 41.30 E-value: 3.19e-05
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PRK04841 | PRK04841 | HTH-type transcriptional regulator MalT; |
130-187 | 3.91e-05 | ||||
HTH-type transcriptional regulator MalT; Pssm-ID: 235315 [Multi-domain] Cd Length: 903 Bit Score: 43.39 E-value: 3.91e-05
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REC_YesN-like | cd17536 | phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response ... |
8-89 | 1.34e-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: 40.01 E-value: 1.34e-04
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CitB | COG4565 | DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal ... |
1-120 | 1.35e-04 | ||||
DNA-binding response regulator DpiB of citrate/malate metabolism [Transcription, Signal transduction mechanisms]; Pssm-ID: 443622 [Multi-domain] Cd Length: 138 Bit Score: 40.34 E-value: 1.35e-04
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fixJ | PRK09390 | response regulator FixJ; Provisional |
130-188 | 1.80e-04 | ||||
response regulator FixJ; Provisional Pssm-ID: 181815 [Multi-domain] Cd Length: 202 Bit Score: 40.76 E-value: 1.80e-04
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REC_CheY | cd17542 | phosphoacceptor receiver (REC) domain of chemotaxis protein CheY; The chemotaxis response ... |
4-119 | 3.30e-04 | ||||
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: 38.80 E-value: 3.30e-04
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REC_RegA-like | cd17563 | phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; ... |
5-84 | 8.91e-04 | ||||
phosphoacceptor receiver (REC) domain of photosynthetic apparatus regulatory protein RegA; Rhodobacter sphaeroides RegA, also called response regulator PrrA, is the DNA binding regulatory protein of a redox-responsive two-component regulatory system RegB/RegA that is involved in transactivating anaerobic expression of the photosynthetic apparatus. It contains a REC domain and a DNA-binding helix-turn-helix output domain. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays. Pssm-ID: 381111 [Multi-domain] Cd Length: 112 Bit Score: 37.42 E-value: 8.91e-04
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RpoE | COG1595 | DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ... |
130-172 | 1.29e-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: 38.05 E-value: 1.29e-03
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sigma70-ECF | TIGR02937 | RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ... |
130-172 | 1.31e-03 | ||||
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: 37.71 E-value: 1.31e-03
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AtoC | COG2204 | DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
5-120 | 1.60e-03 | ||||
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: 38.41 E-value: 1.60e-03
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PRK10100 | PRK10100 | transcriptional regulator CsgD; |
130-177 | 2.22e-03 | ||||
transcriptional regulator CsgD; Pssm-ID: 182241 [Multi-domain] Cd Length: 216 Bit Score: 37.54 E-value: 2.22e-03
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PRK10188 | PRK10188 | transcriptional regulator SdiA; |
126-164 | 2.47e-03 | ||||
transcriptional regulator SdiA; Pssm-ID: 182292 [Multi-domain] Cd Length: 240 Bit Score: 37.46 E-value: 2.47e-03
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Sig70_bacteroi1 | TIGR02985 | RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors ... |
143-172 | 2.97e-03 | ||||
RNA polymerase sigma-70 factor, Bacteroides expansion family 1; This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium. Pssm-ID: 274376 [Multi-domain] Cd Length: 161 Bit Score: 36.77 E-value: 2.97e-03
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PRK11475 | PRK11475 | DNA-binding transcriptional activator BglJ; Provisional |
60-184 | 4.58e-03 | ||||
DNA-binding transcriptional activator BglJ; Provisional Pssm-ID: 236915 [Multi-domain] Cd Length: 207 Bit Score: 36.65 E-value: 4.58e-03
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Sigma70_r4_2 | pfam08281 | Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ... |
130-172 | 9.04e-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: 33.20 E-value: 9.04e-03
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Blast search parameters | ||||
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