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Conserved domains on  [gi|15832974|ref|NP_311747|]
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transcriptional regulator [Escherichia coli O157:H7 str. Sakai]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10006622)

helix-turn-helix (HTH) transcriptional regulator binds DNA and functions as a repressor or activator; similar to CsgD family transcriptional regulators which function in controlling the expression of structural components and assembly factors of curli fimbriae

Gene Ontology:  GO:0003700|GO:0003677|GO:0006355
PubMed:  20466769

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
15-150 9.02e-09

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


:

Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 52.07  E-value: 9.02e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15832974  15 NALLASQKEYYSDLVALVDLGHSFVVIDEHQHRNLKPNTEPVNILLSNNFIWINKNITLSDLTHFLVSNLHTQNVYSTQE 94
Cdd:COG2771  47 LAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAP 126

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 15832974  95 PLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELfIALC 150
Cdd:COG2771 127 GLTPREREVLRLLAEgLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAEL-VALA 182
 
Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
15-150 9.02e-09

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 52.07  E-value: 9.02e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15832974  15 NALLASQKEYYSDLVALVDLGHSFVVIDEHQHRNLKPNTEPVNILLSNNFIWINKNITLSDLTHFLVSNLHTQNVYSTQE 94
Cdd:COG2771  47 LAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAP 126

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 15832974  95 PLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELfIALC 150
Cdd:COG2771 127 GLTPREREVLRLLAEgLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAEL-VALA 182
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 94-147 3.18e-07

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 45.21  E-value: 3.18e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 15832974     94 EPLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELFI 147
Cdd:smart00421   2 ASLTPREREVLRLLAEgLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVR 56
GerE pfam00196
Bacterial regulatory proteins, luxR family;
94-145 8.21e-07

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 44.11  E-value: 8.21e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 15832974    94 EPLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVEL 145
Cdd:pfam00196   1 DSLSPREREVLRWLAAgKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVEL 53
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 96-147 1.49e-06

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: 43.29  E-value: 1.49e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 15832974  96 LTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELFI 147
Cdd:cd06170   1 LTPREREVLRLLAEgKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVA 53
 
Name Accession Description Interval E-value
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
15-150 9.02e-09

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 52.07  E-value: 9.02e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15832974  15 NALLASQKEYYSDLVALVDLGHSFVVIDEHQHRNLKPNTEPVNILLSNNFIWINKNITLSDLTHFLVSNLHTQNVYSTQE 94
Cdd:COG2771  47 LAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAALLARLAALLLALALAALLLAALARLLARAP 126

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 15832974  95 PLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELfIALC 150
Cdd:COG2771 127 GLTPREREVLRLLAEgLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAEL-VALA 182
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 94-147 3.18e-07

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 45.21  E-value: 3.18e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 15832974     94 EPLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELFI 147
Cdd:smart00421   2 ASLTPREREVLRLLAEgLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQAVR 56
GerE pfam00196
Bacterial regulatory proteins, luxR family;
94-145 8.21e-07

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 44.11  E-value: 8.21e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 15832974    94 EPLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVEL 145
Cdd:pfam00196   1 DSLSPREREVLRWLAAgKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVEL 53
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 96-147 1.49e-06

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: 43.29  E-value: 1.49e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 15832974  96 LTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELFI 147
Cdd:cd06170   1 LTPREREVLRLLAEgKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVA 53
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 88-152 1.85e-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: 40.71  E-value: 1.85e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15832974  88 NVYSTQEPLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELFIALCEW 152
Cdd:COG5905   5 SSTSHPSLLTKREREVLELLAEgLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQAVVWALRL 70
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 92-147 9.52e-05

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: 40.26  E-value: 9.52e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 15832974  92 TQEPLTHDEIDILRLCVS-YSLKQIAIIKGIDYKTVSYHKIRALNQLNIKGTVELFI 147
Cdd:COG2197  66 LRRLLTPREREVLRLLAEgLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVL 122
 
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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