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Conserved domains on  [gi|1821087090|ref|WP_165569177|]
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helix-turn-helix transcriptional regulator [Schaalia georgiae]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10650117)

helix-turn-helix (HTH) domain-containing protein with an XRE (Xenobiotic Response Element) family HTH domain, binds DNA and may function as a transcriptional regulator

CATH:  1.10.10.10
Gene Ontology:  GO:0003677
PubMed:  15808743|2644244|8831795
SCOP:  4000362

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5606 super family cl42560
Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];
15-64 6.33e-07

Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];


The actual alignment was detected with superfamily member COG5606:

Pssm-ID: 444337  Cd Length: 105  Bit Score: 42.56  E-value: 6.33e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1821087090  15 FMDARGLTQAALADAIGLTQPKVSARLRGST-RWSLDD-IDALGRIGVPVSL 64
Cdd:COG5606    40 LIKERGLTQAEAAELLGITQPRVSDLLRGKIsKFSLDKlVNMLARLGQDVEI 91
 
Name Accession Description Interval E-value
COG5606 COG5606
Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];
15-64 6.33e-07

Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];


Pssm-ID: 444337  Cd Length: 105  Bit Score: 42.56  E-value: 6.33e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1821087090  15 FMDARGLTQAALADAIGLTQPKVSARLRGST-RWSLDD-IDALGRIGVPVSL 64
Cdd:COG5606    40 LIKERGLTQAEAAELLGITQPRVSDLLRGKIsKFSLDKlVNMLARLGQDVEI 91
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
15-63 1.67e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.88  E-value: 1.67e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1821087090  15 FMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDALGR-IGVPVS 63
Cdd:smart00530  5 LREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKaLGVSLD 54
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 15-63 2.21e-05

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: 37.53  E-value: 2.21e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 1821087090 15 FMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDALGRI-GVPVS 63
Cdd:cd00093    7 LRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKAlGVSLD 56
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 10-59 2.99e-05

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.


Pssm-ID: 433449 [Multi-domain]  Cd Length: 80  Bit Score: 37.97  E-value: 2.99e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 1821087090 10 REVLHFMDARGLTQAALADAIGLTQPKVSARLRGS-TRWSLDD-IDALGRIG 59
Cdd:pfam13744 21 RAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKlSRFSLDKlLDFLTALG 72
 
Name Accession Description Interval E-value
COG5606 COG5606
Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];
15-64 6.33e-07

Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];


Pssm-ID: 444337  Cd Length: 105  Bit Score: 42.56  E-value: 6.33e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1821087090  15 FMDARGLTQAALADAIGLTQPKVSARLRGST-RWSLDD-IDALGRIGVPVSL 64
Cdd:COG5606    40 LIKERGLTQAEAAELLGITQPRVSDLLRGKIsKFSLDKlVNMLARLGQDVEI 91
HigA COG5499
Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH ...
 11-64 9.98e-06

Antitoxin component HigA of the HigAB toxin-antitoxin module, contains an N-terminal HTH domain [Defense mechanisms];


Pssm-ID: 444250  Cd Length: 127  Bit Score: 39.81  E-value: 9.98e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1821087090  11 EVLHF-MDARGLTQAALADAIGlTQPKVSARLRGSTRWSLDDIDALG-RIGVPVSL 64
Cdd:COG5499    68 EALKFlMEQHGLTQKDLAPEIG-SKSRVSEILNGKRSLTLEMIRKLAeRFGIPAEL 122
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
15-63 1.67e-05

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 37.88  E-value: 1.67e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1821087090  15 FMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDALGR-IGVPVS 63
Cdd:smart00530  5 LREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKaLGVSLD 54
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 15-63 2.21e-05

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: 37.53  E-value: 2.21e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 1821087090 15 FMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDALGRI-GVPVS 63
Cdd:cd00093    7 LRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKAlGVSLD 56
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 10-59 2.99e-05

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.


Pssm-ID: 433449 [Multi-domain]  Cd Length: 80  Bit Score: 37.97  E-value: 2.99e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 1821087090 10 REVLHFMDARGLTQAALADAIGLTQPKVSARLRGS-TRWSLDD-IDALGRIG 59
Cdd:pfam13744 21 RAIARLIEGRGLSQQEAAALLGIAQPKVSALLKGKlSRFSLDKlLDFLTALG 72
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-63 5.44e-04

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 34.59  E-value: 5.44e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1821087090  1 MITSQTIVSREVLHFMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDALGRI-GVPVS 63
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKAlGVSLD 64
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
18-62 8.43e-04

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 34.05  E-value: 8.43e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 1821087090 18 ARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDALGRI-GVPV 62
Cdd:COG1476   15 ERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARAlGVSL 60
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 11-50 9.67e-04

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 34.01  E-value: 9.67e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 1821087090 11 EVLH--FMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLD 50
Cdd:COG3093   11 EILReeFLEPLGLSQTELAKALGVSRQRISEILNGKRAITAD 52
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 16-55 1.41e-03

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: 32.90  E-value: 1.41e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 1821087090 16 MDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDAL 55
Cdd:pfam01381  5 REELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKL 44
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 15-55 3.91e-03

Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433211 [Multi-domain]  Cd Length: 63  Bit Score: 32.13  E-value: 3.91e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 1821087090 15 FMDARGLTQAALADAIGLTQPKVSARLRG-STRWSLDDIDAL 55
Cdd:pfam13443  5 LMADRGISKSDLARATGISRATLSRLRKGkPKRVSLDTLDKI 46
Spo0J COG1475
Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, ...
 16-42 7.42e-03

Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441084 [Multi-domain]  Cd Length: 241  Bit Score: 33.04  E-value: 7.42e-03
                          10        20
                  ....*....|....*....|....*..
gi 1821087090  16 MDARGLTQAALADAIGLTQPKVSARLR 42
Cdd:COG1475   116 LEEFGLTQEEIAERLGKSRSEVSNLLR 142
AF0184 COG2522
Predicted transcriptional regulator, contains XRE-type HTH domain [Transcription];
1-43 7.65e-03

Predicted transcriptional regulator, contains XRE-type HTH domain [Transcription];


Pssm-ID: 442012 [Multi-domain]  Cd Length: 99  Bit Score: 32.10  E-value: 7.65e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 1821087090  1 MITSQTIVSREVL--------HFMDARGLTQAALADAIGLTQPKVSARLRG 43
Cdd:COG2522    1 MKLPCEIAVREVLpairallaKELVERGLSQSEIAKLLGITQAAVSQYLSG 51
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 2-55 8.97e-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: 31.91  E-value: 8.97e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 1821087090  2 ITSQTIVSREVLHFMDARGLTQAALADAIGLTQPKVSARLRGSTRWSLDDIDAL 55
Cdd:COG3620   12 VSPDDTLGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKI 65
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 14-64 9.34e-03

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: 30.96  E-value: 9.34e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 1821087090 14 HFMDARGLTQAALADAIGLTQPKVSARLRGSTRW-SLDDIDALGRI-GVPVSL 64
Cdd:pfam13560  8 RLRERAGLSQEALARRLGVSRSTLSRLETGRRGRpSPAVVERLARAlGVDGAE 60
 
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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