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Conserved domains on  [gi|2303409996|ref|WP_260146603|]
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helix-turn-helix transcriptional regulator [Streptomyces sp. 2132.2]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10648172)

helix-turn-helix transcriptional regulator having a LuxR-type DNA-binding helix-turn-helix domain

Gene Ontology:  GO:0003677|GO:0006355
PubMed:  19076237|15808743

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 277-322 7.21e-08

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


:

Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 48.68  E-value: 7.21e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 2303409996  277 REIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:smart00421   7 RERE--VLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
163-322 9.34e-06

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


:

Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 9.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2303409996 163 AMQEALVRDRAMLERGIRLRTLYHHTARFNGPSQAYVAAASALGGQYRTAHELFGRLIVFDREVAFIPVRDDSWGAVVIR 242
Cdd:COG2771    17 LLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAA 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2303409996 243 EPSTVAYLCEVFEQTWDRATPFADAADQGLEVVSREIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG2771    97 LLARLAALLLALALAALLLAALARLLARAPGLTPRERE--VLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
 
Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 277-322 7.21e-08

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 48.68  E-value: 7.21e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 2303409996  277 REIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:smart00421   7 RERE--VLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 271-322 5.03e-07

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: 48.35  E-value: 5.03e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2303409996 271 GLEVVS-----REIheTIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG2197    62 GLEALRrlltpRER--EVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRN 116
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 277-322 1.01e-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: 45.22  E-value: 1.01e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2303409996 277 REIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:cd06170     4 RERE--VLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKS 47
GerE pfam00196
Bacterial regulatory proteins, luxR family;
277-322 8.62e-06

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 42.57  E-value: 8.62e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2303409996 277 REIheTIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:pfam00196   6 RER--EVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHS 49
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
163-322 9.34e-06

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 9.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2303409996 163 AMQEALVRDRAMLERGIRLRTLYHHTARFNGPSQAYVAAASALGGQYRTAHELFGRLIVFDREVAFIPVRDDSWGAVVIR 242
Cdd:COG2771    17 LLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAA 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2303409996 243 EPSTVAYLCEVFEQTWDRATPFADAADQGLEVVSREIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG2771    97 LLARLAALLLALALAALLLAALARLLARAPGLTPRERE--VLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
 
Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 277-322 7.21e-08

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 48.68  E-value: 7.21e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 2303409996  277 REIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:smart00421   7 RERE--VLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRS 50
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 271-322 5.03e-07

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: 48.35  E-value: 5.03e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2303409996 271 GLEVVS-----REIheTIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG2197    62 GLEALRrlltpRER--EVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRN 116
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 277-322 1.01e-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: 45.22  E-value: 1.01e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2303409996 277 REIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:cd06170     4 RERE--VLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKS 47
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 283-322 2.25e-06

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: 44.95  E-value: 2.25e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 2303409996 283 IVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG5905    20 VLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRN 59
GerE pfam00196
Bacterial regulatory proteins, luxR family;
277-322 8.62e-06

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 42.57  E-value: 8.62e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2303409996 277 REIheTIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:pfam00196   6 RER--EVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHS 49
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
163-322 9.34e-06

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 45.90  E-value: 9.34e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2303409996 163 AMQEALVRDRAMLERGIRLRTLYHHTARFNGPSQAYVAAASALGGQYRTAHELFGRLIVFDREVAFIPVRDDSWGAVVIR 242
Cdd:COG2771    17 LLALLALLLLLLLAALLLLLALLLLAALLLLAAAAAALAAALAAALLLGLLLLLLIALLLLLLLLLALLLLLALLALLAA 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2303409996 243 EPSTVAYLCEVFEQTWDRATPFADAADQGLEVVSREIHetIVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG2771    97 LLARLAALLLALALAALLLAALARLLARAPGLTPRERE--VLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSS 174
HTH_23 pfam13384
Homeodomain-like domain;
283-317 2.87e-03

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 35.32  E-value: 2.87e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2303409996 283 IVRLLAAGLKDEAIARRLGMSLRTARRHIADIMEE 317
Cdd:pfam13384  10 ALLLLAEGLSVKEIAELLGVSRRTVYRWLKRYNEE 44
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
285-322 4.30e-03

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 37.76  E-value: 4.30e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2303409996 285 RLLAAGLKDEAIARRLGMSLRTARRHIADIMEELGAAS 322
Cdd:COG2909   132 RLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRS 169
 
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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