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Conserved domains on  [gi|1055411554|ref|WP_067074027|]
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helix-turn-helix transcriptional regulator [Streptomyces hygroscopicus]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10787697)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain may act as a transcriptional regulator that controls the expression of genes involved in stress response

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  10473770|2644244
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
41-88 1.76e-08

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.39  E-value: 1.76e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:COG1476    10 KELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALG 57
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
41-88 1.76e-08

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.39  E-value: 1.76e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:COG1476    10 KELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALG 57
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 41-88 1.03e-07

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 49.09  E-value: 1.03e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:cd00093     5 KELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALG 52
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
41-88 1.82e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.28  E-value: 1.82e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 1055411554   41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:smart00530   3 KELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 41-87 5.01e-06

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 44.07  E-value: 5.01e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLL 87
Cdd:pfam01381   2 KELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEAL 48
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 38-123 3.75e-05

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 47.04  E-value: 3.75e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1055411554  38 AER-KRLREAAGLTQDQVAGALQTR-----REAVGNWEAGRTEPRPPKRAAYAR--------LLEGLAARFPAPGAAGNT 103
Cdd:PRK13355    5 AERlKQAMKARGLKQEDLVHAAEARgvklgKSHISQYVSGKTGPRRDVLPFLAAilgvsedwLLGGESPADQESDASAVV 84

                          90       100
                  ....*....|....*....|
gi 1055411554 104 STASAGPTATPAREAAAQTS 123
Cdd:PRK13355   85 ESAPNSHLADPSAPTTPISQ 104
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 9-75 4.99e-03

putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.


Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 37.61  E-value: 4.99e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1055411554   9 GEVLSDEEELfSAVDALLEQAVR--DPLPEPAERKRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEP 75
Cdd:TIGR03830  38 GEELFDPEDS-KRNSAALADFYRkvDGLLTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRP 105
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
41-88 1.76e-08

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 51.39  E-value: 1.76e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:COG1476    10 KELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALG 57
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 41-88 8.25e-08

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 49.94  E-value: 8.25e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:COG1813    18 REAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALG 65
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
32-95 8.69e-08

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 49.55  E-value: 8.69e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1055411554  32 DPLPEPAERKRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRaayaRLLEgLAARFP 95
Cdd:COG2944     3 KKPLTPEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAAL----KLLR-LLEKHP 61
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 41-88 1.03e-07

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 49.09  E-value: 1.03e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:cd00093     5 KELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALG 52
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
41-88 1.82e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.28  E-value: 1.82e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 1055411554   41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:smart00530   3 KELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
41-88 5.63e-07

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 47.68  E-value: 5.63e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:COG1396    13 RELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALG 60
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 41-87 5.01e-06

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 44.07  E-value: 5.01e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLL 87
Cdd:pfam01381   2 KELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEAL 48
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 41-88 8.11e-06

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 43.82  E-value: 8.11e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:pfam12844   5 RKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLG 52
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 41-92 9.70e-06

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 43.67  E-value: 9.70e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1055411554  41 KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTepRPPKRAAYARLLEGLAA 92
Cdd:pfam13560   7 RRLRERAGLSQEALARRLGVSRSTLSRLETGRR--GRPSPAVVERLARALGV 56
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 38-123 3.75e-05

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 47.04  E-value: 3.75e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1055411554  38 AER-KRLREAAGLTQDQVAGALQTR-----REAVGNWEAGRTEPRPPKRAAYAR--------LLEGLAARFPAPGAAGNT 103
Cdd:PRK13355    5 AERlKQAMKARGLKQEDLVHAAEARgvklgKSHISQYVSGKTGPRRDVLPFLAAilgvsedwLLGGESPADQESDASAVV 84

                          90       100
                  ....*....|....*....|
gi 1055411554 104 STASAGPTATPAREAAAQTS 123
Cdd:PRK13355   85 ESAPNSHLADPSAPTTPISQ 104
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 22-88 1.33e-03

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 38.46  E-value: 1.33e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1055411554  22 VDALLEQAVRDPLPE---PAERKRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPKRAAYARLLE 88
Cdd:COG3620     1 VRDLMSRDVVTVSPDdtlGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALG 70
PRK10072 PRK10072
HTH-type transcriptional regulator;
17-77 3.18e-03

HTH-type transcriptional regulator;


Pssm-ID: 182222  Cd Length: 96  Bit Score: 37.46  E-value: 3.18e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1055411554  17 ELFSAvdalLEQAV-RD------------PLPEPaerKRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRP 77
Cdd:PRK10072    9 ELLSS----LEQIVfKDetqkitltqkttSFTEF---EQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSS 75
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 32-88 3.56e-03

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 36.71  E-value: 3.56e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1055411554  32 DPLPEPAER-KRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEPRPPK---RA---AYARLLE 88
Cdd:COG1426     1 EALETIGELlRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPvyvRGflrSYARALG 64
CxxCG_CxxCG_HTH TIGR03830
putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of ...
 9-75 4.99e-03

putative zinc finger/helix-turn-helix protein, YgiT family; This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.


Pssm-ID: 274805 [Multi-domain]  Cd Length: 127  Bit Score: 37.61  E-value: 4.99e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1055411554   9 GEVLSDEEELfSAVDALLEQAVR--DPLPEPAERKRLREAAGLTQDQVAGALQTRREAVGNWEAGRTEP 75
Cdd:TIGR03830  38 GEELFDPEDS-KRNSAALADFYRkvDGLLTGPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRP 105
 
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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