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Conserved domains on  [gi|1558146793|ref|WP_128125365|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Longicatena]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10007659)

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
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-69 1.53e-18

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


:

Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 71.33  E-value: 1.53e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1558146793  1 MIRIRLSRLLGEKKMTQVELSRKTGVRKATINELYWELCDYVKLETIDKICHALNCKVYELLENESDNE 69
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVPDEE 69
 
Name Accession Description Interval E-value
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-69 1.53e-18

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 71.33  E-value: 1.53e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1558146793  1 MIRIRLSRLLGEKKMTQVELSRKTGVRKATINELYWELCDYVKLETIDKICHALNCKVYELLENESDNE 69
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVPDEE 69
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 5-67 1.21e-13

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: 59.09  E-value: 1.21e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1558146793  5 RLSRLLGEKKMTQVELSRKTGVRKATINELYWELCDYVKLETIDKICHALNCKVYELLENESD 67
Cdd:pfam13443  1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLEYVPD 63
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-61 4.60e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 4.60e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1558146793   5 RLSRLLGEKKMTQVELSRKTGVRKATINElyWELCDY-VKLETIDKICHALNCKVYEL 61
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSR--IENGKRkPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 5-61 3.99e-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: 37.15  E-value: 3.99e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 1558146793  5 RLSRLLGEKKMTQVELSRKTGVRKATINElyWELCDY-VKLETIDKICHALNCKVYEL 61
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISR--IENGKRnPSLETLEKLAKALGVSLDEL 58
 
Name Accession Description Interval E-value
YozG COG3655
DNA-binding transcriptional regulator, XRE family [Transcription];
1-69 1.53e-18

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


Pssm-ID: 442872 [Multi-domain]  Cd Length: 69  Bit Score: 71.33  E-value: 1.53e-18
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1558146793  1 MIRIRLSRLLGEKKMTQVELSRKTGVRKATINELYWELCDYVKLETIDKICHALNCKVYELLENESDNE 69
Cdd:COG3655    1 MIYVKLDELLAERGMTKKELAEATGISRATLSRLKNGKAKAVRLDTLEKICKALDCQPGDLLEYVPDEE 69
HTH_26 pfam13443
Cro/C1-type HTH DNA-binding domain; This is a helix-turn-helix domain that probably binds to ...
 5-67 1.21e-13

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: 59.09  E-value: 1.21e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1558146793  5 RLSRLLGEKKMTQVELSRKTGVRKATINELYWELCDYVKLETIDKICHALNCKVYELLENESD 67
Cdd:pfam13443  1 KLRKLMADRGISKSDLARATGISRATLSRLRKGKPKRVSLDTLDKICDALGCQPGDLLEYVPD 63
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
1-65 2.62e-08

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 45.61  E-value: 2.62e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1558146793  1 MIRIRLSRLLGEKKMTQVELSRKTGVRKATINelYWELCDYV-KLETIDKICHALNCKVYELLENE 65
Cdd:COG1476    4 KLGNRLKELRKERGLTQEELAELLGVSRQTIS--AIENGKYNpSLELALKIARALGVSLEELFSLE 67
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
5-74 3.51e-07

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 43.06  E-value: 3.51e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1558146793  5 RLSRLLGEKKMTQVELSRKTGVRKATINElyWELCD-YVKLETIDKICHALNCKVYELLENESDNERKKNA 74
Cdd:COG1396   11 RLRELRKARGLTQEELAERLGVSRSTISR--IERGRrNPSLETLLKLAKALGVSLDELLGGADEELPEALL 79
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
5-61 4.60e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 4.60e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1558146793   5 RLSRLLGEKKMTQVELSRKTGVRKATINElyWELCDY-VKLETIDKICHALNCKVYEL 61
Cdd:smart00530  1 RLKELREEKGLTQEELAEKLGVSRSTLSR--IENGKRkPSLETLKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 5-61 3.99e-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: 37.15  E-value: 3.99e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 1558146793  5 RLSRLLGEKKMTQVELSRKTGVRKATINElyWELCDY-VKLETIDKICHALNCKVYEL 61
Cdd:cd00093    3 RLKELRKEKGLTQEELAEKLGVSRSTISR--IENGKRnPSLETLEKLAKALGVSLDEL 58
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 3-60 4.80e-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: 34.53  E-value: 4.80e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 1558146793  3 RIRLSRLlgEKKMTQVELSRKTGVRKATINElyWELCDYV-KLETIDKICHALNCKVYE 60
Cdd:COG1813   16 RIREARE--ARGLSQEELAEKLGVSESTIRR--IERGEATpSLDTLRKLEKALGISLAE 70
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 6-61 3.27e-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: 32.13  E-value: 3.27e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1558146793  6 LSRLLGEKKMTQVELSRKTGVRKATINElyWELCDY-VKLETIDKICHALNCKVYEL 61
Cdd:pfam01381  1 LKELREELGLSQEELAEKLGVSRSTISK--IENGKRePSLETLKKLAEALGVSLDEL 55
 
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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