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Conserved domains on  [gi|496662679|ref|WP_009305172|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Eggerthella]

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
 431-482 4.70e-16

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


:

Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 72.17  E-value: 4.70e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 496662679   431 GLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQEL 482
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQA 54
 
Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 431-482 4.70e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 72.17  E-value: 4.70e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 496662679   431 GLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQEL 482
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQA 54
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 432-487 7.19e-16

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: 74.16  E-value: 7.19e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLVL 487
Cdd:COG2197   70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLAL 125
GerE pfam00196
Bacterial regulatory proteins, luxR family;
432-486 7.63e-15

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 68.77  E-value: 7.63e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 496662679  432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLV 486
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 432-487 1.03e-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: 68.33  E-value: 1.03e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLVL 487
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAI 56
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 431-481 1.93e-11

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 63.51  E-value: 1.93e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 496662679 431 GLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQE 481
Cdd:PRK10651 155 QLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVE 205
 
Name Accession Description Interval E-value
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 431-482 4.70e-16

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


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 72.17  E-value: 4.70e-16
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 496662679   431 GLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQEL 482
Cdd:smart00421   3 SLTPREREVLRLLAEGLTNKEIAERLGISEKTVKTHLSNIMRKLGVRSRTQA 54
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 432-487 7.19e-16

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: 74.16  E-value: 7.19e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLVL 487
Cdd:COG2197   70 LTPREREVLRLLAEGLSNKEIAERLGISERTVKTHVSNILRKLGVRNRTELVLLAL 125
CsgD COG2771
DNA-binding transcriptional regulator, CsgD family [Transcription];
423-487 6.91e-15

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


Pssm-ID: 442052 [Multi-domain]  Cd Length: 188  Bit Score: 72.87  E-value: 6.91e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 496662679 423 CRKLALENGLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLVL 487
Cdd:COG2771  119 ARLLARAPGLTPREREVLRLLAEGLTLKEIARILGISERTVRTHLKRIYRKLGVSSRAELVALAL 183
GerE pfam00196
Bacterial regulatory proteins, luxR family;
432-486 7.63e-15

Bacterial regulatory proteins, luxR family;


Pssm-ID: 425517 [Multi-domain]  Cd Length: 57  Bit Score: 68.77  E-value: 7.63e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 496662679  432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLV 486
Cdd:pfam00196   3 LSPREREVLRWLAAGKSNKEIADELGISEKTVKVHRSNIMRKLNVHSRVELVRMA 57
LuxR_C_like cd06170
C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix ...
 432-487 1.03e-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: 68.33  E-value: 1.03e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLVL 487
Cdd:cd06170    1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAI 56
GerE COG5905
Spore transcriptional regulator GerE (stand-alone HTH domain) [Cell cycle control, cell ...
 432-482 3.61e-12

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: 61.90  E-value: 3.61e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQEL 482
Cdd:COG5905   13 LTKREREVLELLAEGLTNKEIARQLFISEKTVKNHVSNILRKLGVRNRVQA 63
PRK10651 PRK10651
transcriptional regulator NarL; Provisional
 431-481 1.93e-11

transcriptional regulator NarL; Provisional


Pssm-ID: 182619 [Multi-domain]  Cd Length: 216  Bit Score: 63.51  E-value: 1.93e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 496662679 431 GLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQE 481
Cdd:PRK10651 155 QLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVE 205
PRK04841 PRK04841
HTH-type transcriptional regulator MalT;
432-481 2.10e-10

HTH-type transcriptional regulator MalT;


Pssm-ID: 235315 [Multi-domain]  Cd Length: 903  Bit Score: 63.42  E-value: 2.10e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQE 481
Cdd:PRK04841 839 LTQREWQVLGLIYSGYSNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQE 888
MalT COG2909
ATP-, maltotriose- and DNA-dependent transcriptional regulator MalT [Transcription];
426-485 9.27e-10

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


Pssm-ID: 442153 [Multi-domain]  Cd Length: 184  Bit Score: 57.79  E-value: 9.27e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 496662679 426 LALENGLTPREAEIL--GLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDL 485
Cdd:COG2909  115 ALRALGDREEALAALrrRLLAEGLSNKEIAERLFISVNTVKTHLRNIYRKLGVRSRTEAVAR 176
PRK15369 PRK15369
two component system response regulator;
412-483 1.15e-08

two component system response regulator;


Pssm-ID: 185267 [Multi-domain]  Cd Length: 211  Bit Score: 55.08  E-value: 1.15e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 496662679 412 DEAMPSEMLAYCRKLALENG--LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELL 483
Cdd:PRK15369 128 DPALNREAILALLNADDTNPplLTPRERQILKLITEGYTNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELL 201
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 432-487 1.04e-07

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: 52.02  E-value: 1.04e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDLVL 487
Cdd:COG4566  138 LTPREREVLDLVVAGLSNKQIARELGISPRTVEVHRANVMEKLGARSLAELVRLAL 193
PRK09935 PRK09935
fimbriae biosynthesis transcriptional regulator FimZ;
416-484 1.36e-06

fimbriae biosynthesis transcriptional regulator FimZ;


Pssm-ID: 182154 [Multi-domain]  Cd Length: 210  Bit Score: 49.10  E-value: 1.36e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 496662679 416 PSEMLAYCRKLALENG------LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLD 484
Cdd:PRK09935 128 PSETLNYIKSNKCSTNsstdtvLSNREVTILRYLVSGLSNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELID 202
PRK13719 PRK13719
conjugal transfer transcriptional regulator TraJ; Provisional
 422-492 1.69e-05

conjugal transfer transcriptional regulator TraJ; Provisional


Pssm-ID: 237479  Cd Length: 217  Bit Score: 45.88  E-value: 1.69e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 496662679 422 YCRKLAL----ENGLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQELLDlVLFGSGL 492
Cdd:PRK13719 130 IIRGLSTnleaKNKVTKYQNDVFILYSFGFSHEYIAQLLNITVGSSKNKISEILKFFGISSRDELLI-ILHTSEM 203
PRK10403 PRK10403
nitrate/nitrite response regulator protein NarP;
432-479 6.66e-05

nitrate/nitrite response regulator protein NarP;


Pssm-ID: 182431 [Multi-domain]  Cd Length: 215  Bit Score: 44.07  E-value: 6.66e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSK 479
Cdd:PRK10403 154 LTERELDVLHELAQGLSNKQIASVLNISEQTVKVHIRNLLRKLNVRSR 201
PRK10100 PRK10100
transcriptional regulator CsgD;
432-481 8.75e-05

transcriptional regulator CsgD;


Pssm-ID: 182241 [Multi-domain]  Cd Length: 216  Bit Score: 43.71  E-value: 8.75e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 496662679 432 LTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQE 481
Cdd:PRK10100 156 LTHREKEILNKLRIGASNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQ 205
PRK10360 PRK10360
transcriptional regulator UhpA;
425-482 3.75e-03

transcriptional regulator UhpA;


Pssm-ID: 182408 [Multi-domain]  Cd Length: 196  Bit Score: 38.80  E-value: 3.75e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 496662679 425 KLAL--ENGLTPREAEILGLIAMGRSAKYIAEELTISHNTTRTHIKHVYEKLNIHSKQEL 482
Cdd:PRK10360 129 KLASgrQDPLTKRERQVAEKLAQGMAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVEL 188
 
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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