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Conserved domains on  [gi|742394056|ref|WP_038873182|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Serratia]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 16009404)

helix-turn-helix (HTH) transcriptional regulator containing a XRE (Xenobiotic Response Element) family HTH domain, binds DNA and may function as a transcriptional regulator; also contains a MmyB-like transcription regulator ligand binding domain

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MLTR_LBD pfam17765
MmyB-like transcription regulator ligand binding domain; This domain is found in a family of ...
 110-261 3.69e-31

MmyB-like transcription regulator ligand binding domain; This domain is found in a family of actinobacterial transcription factors. The structure shows it has a PAS domain like fold and it is bound to Myristic acid.


:

Pssm-ID: 465492  Cd Length: 168  Bit Score: 113.43  E-value: 3.69e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742394056  110 DAVLQSVHQMT-VPCYLLDVTWNVVAWNPQAAALFSGWLDVANSP-NLLHFMFFHPLAKTLVSDWEERARRVVAEFRAET 187
Cdd:pfam17765   3 PALRRLLDALEpTPAFVLDRRWDVLAWNRLARALFGDFAALPPPErNLLRLLFLDPGARELYVDWEEVARDLVARLRAAA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 742394056  188 SHHQNTEEMRAFVRNMTHNSADFNHWWKQHDVMAREGGERAFEHPQQGALRYRQLTFHPAEHGGLKLVMLIPLP 261
Cdd:pfam17765  83 GRHPDDPRLAALVGELSARSPEFRRLWARHDVRARTSGTKRFRHPVVGELTLDYETLGLPDDPGLELVVYTAEP 156
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 11-90 8.13e-13

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: 61.78  E-value: 8.13e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742394056   11 ALGAFLRAHRERitpemlglpsssrrrtSGLRREELAQISGISATWYTWIEQGREVSISPYTLARIAKALRLGPAERHYL 90
Cdd:pfam13560   1 ELGARLRRLRER----------------AGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARALGVDGAERAEL 64
 
Name Accession Description Interval E-value
MLTR_LBD pfam17765
MmyB-like transcription regulator ligand binding domain; This domain is found in a family of ...
 110-261 3.69e-31

MmyB-like transcription regulator ligand binding domain; This domain is found in a family of actinobacterial transcription factors. The structure shows it has a PAS domain like fold and it is bound to Myristic acid.


Pssm-ID: 465492  Cd Length: 168  Bit Score: 113.43  E-value: 3.69e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742394056  110 DAVLQSVHQMT-VPCYLLDVTWNVVAWNPQAAALFSGWLDVANSP-NLLHFMFFHPLAKTLVSDWEERARRVVAEFRAET 187
Cdd:pfam17765   3 PALRRLLDALEpTPAFVLDRRWDVLAWNRLARALFGDFAALPPPErNLLRLLFLDPGARELYVDWEEVARDLVARLRAAA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 742394056  188 SHHQNTEEMRAFVRNMTHNSADFNHWWKQHDVMAREGGERAFEHPQQGALRYRQLTFHPAEHGGLKLVMLIPLP 261
Cdd:pfam17765  83 GRHPDDPRLAALVGELSARSPEFRRLWARHDVRARTSGTKRFRHPVVGELTLDYETLGLPDDPGLELVVYTAEP 156
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 11-90 8.13e-13

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: 61.78  E-value: 8.13e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742394056   11 ALGAFLRAHRERitpemlglpsssrrrtSGLRREELAQISGISATWYTWIEQGREVSISPYTLARIAKALRLGPAERHYL 90
Cdd:pfam13560   1 ELGARLRRLRER----------------AGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARALGVDGAERAEL 64
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
35-106 1.37e-10

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 56.16  E-value: 1.37e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 742394056  35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRLGPAerhYLFTLARVADPEQETHRE 106
Cdd:COG1396   15 LRKARGLTQEELAERLGVSRSTISRIERGR-RNPSLETLLKLAKALGVSLD---ELLGGADEELPEALLSEE 82
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
35-86 3.14e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 49.05  E-value: 3.14e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 742394056    35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRLGPAE 86
Cdd:smart00530   5 LREEKGLTQEELAEKLGVSRSTLSRIENGK-RKPSLETLKKLAKALGVSLDE 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 35-86 6.91e-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: 45.24  E-value: 6.91e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 742394056  35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRLGPAE 86
Cdd:cd00093    7 LRKEKGLTQEELAEKLGVSRSTISRIENGK-RNPSLETLEKLAKALGVSLDE 57
 
Name Accession Description Interval E-value
MLTR_LBD pfam17765
MmyB-like transcription regulator ligand binding domain; This domain is found in a family of ...
 110-261 3.69e-31

MmyB-like transcription regulator ligand binding domain; This domain is found in a family of actinobacterial transcription factors. The structure shows it has a PAS domain like fold and it is bound to Myristic acid.


Pssm-ID: 465492  Cd Length: 168  Bit Score: 113.43  E-value: 3.69e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742394056  110 DAVLQSVHQMT-VPCYLLDVTWNVVAWNPQAAALFSGWLDVANSP-NLLHFMFFHPLAKTLVSDWEERARRVVAEFRAET 187
Cdd:pfam17765   3 PALRRLLDALEpTPAFVLDRRWDVLAWNRLARALFGDFAALPPPErNLLRLLFLDPGARELYVDWEEVARDLVARLRAAA 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 742394056  188 SHHQNTEEMRAFVRNMTHNSADFNHWWKQHDVMAREGGERAFEHPQQGALRYRQLTFHPAEHGGLKLVMLIPLP 261
Cdd:pfam17765  83 GRHPDDPRLAALVGELSARSPEFRRLWARHDVRARTSGTKRFRHPVVGELTLDYETLGLPDDPGLELVVYTAEP 156
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 11-90 8.13e-13

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: 61.78  E-value: 8.13e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 742394056   11 ALGAFLRAHRERitpemlglpsssrrrtSGLRREELAQISGISATWYTWIEQGREVSISPYTLARIAKALRLGPAERHYL 90
Cdd:pfam13560   1 ELGARLRRLRER----------------AGLSQEALARRLGVSRSTLSRLETGRRGRPSPAVVERLARALGVDGAERAEL 64
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
35-106 1.37e-10

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 56.16  E-value: 1.37e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 742394056  35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRLGPAerhYLFTLARVADPEQETHRE 106
Cdd:COG1396   15 LRKARGLTQEELAERLGVSRSTISRIERGR-RNPSLETLLKLAKALGVSLD---ELLGGADEELPEALLSEE 82
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
35-86 3.14e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 49.05  E-value: 3.14e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 742394056    35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRLGPAE 86
Cdd:smart00530   5 LREEKGLTQEELAEKLGVSRSTLSRIENGK-RKPSLETLKKLAKALGVSLDE 55
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 35-86 6.91e-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: 45.24  E-value: 6.91e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 742394056  35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRLGPAE 86
Cdd:cd00093    7 LRKEKGLTQEELAEKLGVSRSTISRIENGK-RNPSLETLEKLAKALGVSLDE 57
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 35-80 6.13e-05

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: 40.77  E-value: 6.13e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 742394056  35 RRRTSGLRREELAQISGISATWYTWIEQG-REVSISpyTLARIAKAL 80
Cdd:COG3620   25 MRKELGLSQLPVAELVGVSQSDILRIESGkRDPTVS--TLEKIAEAL 69
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
35-82 1.78e-04

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 38.68  E-value: 1.78e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 742394056  35 RRRTSGLRREELAQISGISATWYTWIEQGReVSISPYTLARIAKALRL 82
Cdd:COG1476   12 LRKERGLTQEELAELLGVSRQTISAIENGK-YNPSLELALKIARALGV 58
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 35-86 4.87e-04

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: 37.13  E-value: 4.87e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 742394056   35 RRRTSGLRREELAQISGISATWYTWIEQGrEVSISPYTLARIAKALRLGPAE 86
Cdd:pfam01381   4 LREELGLSQEELAEKLGVSRSTISKIENG-KREPSLETLKKLAEALGVSLDE 54
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 36-80 5.73e-04

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: 37.61  E-value: 5.73e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 742394056  36 RRTSGLRREELAQISGISATWYTWIEQGrEVSISPYTLARIAKAL 80
Cdd:COG1813   21 REARGLSQEELAEKLGVSESTIRRIERG-EATPSLDTLRKLEKAL 64
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
40-86 5.17e-03

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 34.73  E-value: 5.17e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 742394056  40 GLRREELAQISGISATWYTWIEQGREVSISPYTLARIAKALRLGPAE 86
Cdd:COG3655   14 GMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGD 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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