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Conserved domains on  [gi|974612247|ref|WP_059201935|]
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MULTISPECIES: helix-turn-helix transcriptional regulator [Serratia]

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];
24-77 3.29e-09

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


:

Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.08  E-value: 3.29e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSLFD 77
Cdd:COG1476    9 LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEE 62
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
24-77 3.29e-09

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.08  E-value: 3.29e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSLFD 77
Cdd:COG1476    9 LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEE 62
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 24-75 3.64e-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: 43.70  E-value: 3.64e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:cd00093    4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
24-75 1.33e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 42.12  E-value: 1.33e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 974612247    24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 24-75 9.12e-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: 39.83  E-value: 9.12e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 974612247   24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
 
Name Accession Description Interval E-value
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
24-77 3.29e-09

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.08  E-value: 3.29e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSLFD 77
Cdd:COG1476    9 LKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEE 62
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
24-75 5.07e-08

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 46.53  E-value: 5.07e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:COG1396   12 LRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSL 63
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 24-75 3.64e-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: 43.70  E-value: 3.64e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:cd00093    4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSL 55
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
24-75 1.33e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 42.12  E-value: 1.33e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 974612247    24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSL 53
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 24-77 2.17e-06

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: 41.85  E-value: 2.17e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSLFD 77
Cdd:COG1813   17 IREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 24-75 9.12e-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: 39.83  E-value: 9.12e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 974612247   24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSL 52
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 24-74 8.24e-05

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: 37.65  E-value: 8.24e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 974612247   24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVS 74
Cdd:pfam12844   4 LRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVP 54
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 20-75 8.48e-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: 38.46  E-value: 8.48e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 974612247  20 LAVSIRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVFEVAKIVGVSL 75
Cdd:COG3620   18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKEL 73
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 24-65 2.86e-04

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: 36.32  E-value: 2.86e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 974612247  24 IRAARLERKLTTSEVAERAGISRGLLQRIEKADPRCGIGVVF 65
Cdd:COG1426   10 LRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVY 51
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 25-57 9.61e-04

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


Pssm-ID: 433187 [Multi-domain]  Cd Length: 62  Bit Score: 34.78  E-value: 9.61e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 974612247   25 RAARLERKLTTSEVAERAGISRGLLQRIEKADP 57
Cdd:pfam13413   3 RAAREARGLSLEDVAERTKIRPRYLEALEEDDF 35
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 20-74 4.96e-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: 32.89  E-value: 4.96e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 974612247   20 LAVSIRAARLERKLTTSEVAERAGISRGLLQRIEKA-DPRCGIGVVFEVAKIVGVS 74
Cdd:pfam13560   2 LGARLRRLRERAGLSQEALARRLGVSRSTLSRLETGrRGRPSPAVVERLARALGVD 57
 
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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