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Conserved domains on  [gi|1398627605|gb|AWS81735|]
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transcriptional regulator (plasmid) [Enterobacter cloacae complex sp.]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 366238)

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

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_XRE super family cl22854
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 15-89 1.91e-07

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


The actual alignment was detected with superfamily member pfam13744:

Pssm-ID: 473980 [Multi-domain]  Cd Length: 80  Bit Score: 44.52  E-value: 1.91e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1398627605  15 EVVAKAQKAATemllnihLAELRDRMNLTQGEIAASLGVRQPTVSEMEKP-GRDLKLSSIKRYVEASGGKLRLDVE 89
Cdd:pfam13744  12 ELQAKAQLARA-------IARLIEGRGLSQQEAAALLGIAQPKVSALLKGkLSRFSLDKLLDFLTALGQDVEIVVK 80
 
Name Accession Description Interval E-value
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 15-89 1.91e-07

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: 44.52  E-value: 1.91e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1398627605  15 EVVAKAQKAATemllnihLAELRDRMNLTQGEIAASLGVRQPTVSEMEKP-GRDLKLSSIKRYVEASGGKLRLDVE 89
Cdd:pfam13744  12 ELQAKAQLARA-------IARLIEGRGLSQQEAAALLGIAQPKVSALLKGkLSRFSLDKLLDFLTALGQDVEIVVK 80
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-79 9.08e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 9.08e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1398627605   33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKA 48
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 33-97 2.98e-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: 39.23  E-value: 2.98e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEASGGKLRLDVELPDGTHYG 97
Cdd:COG3620    22 LRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDDGKLVG 86
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-79 5.82e-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: 5.82e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:cd00093     4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKA 50
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
32-62 8.26e-03

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 32.64  E-value: 8.26e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1398627605  32 HLAELRDRMNLTQGEIAASLGVRQPTVSEME 62
Cdd:PRK09726   16 AMKLVRQQNGWTQSELAKKIGIKQATISNFE 46
 
Name Accession Description Interval E-value
HTH_37 pfam13744
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain.
 15-89 1.91e-07

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: 44.52  E-value: 1.91e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1398627605  15 EVVAKAQKAATemllnihLAELRDRMNLTQGEIAASLGVRQPTVSEMEKP-GRDLKLSSIKRYVEASGGKLRLDVE 89
Cdd:pfam13744  12 ELQAKAQLARA-------IARLIEGRGLSQQEAAALLGIAQPKVSALLKGkLSRFSLDKLLDFLTALGQDVEIVVK 80
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
33-79 9.08e-06

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 39.42  E-value: 9.08e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1398627605   33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:smart00530   2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKA 48
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 33-97 2.98e-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: 39.23  E-value: 2.98e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEASGGKLRLDVELPDGTHYG 97
Cdd:COG3620    22 LRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVLVVDDGKLVG 86
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 33-79 5.82e-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: 5.82e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:cd00093     4 LKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKA 50
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 33-79 9.12e-05

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: 9.12e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEA 47
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
27-79 1.94e-04

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 36.36  E-value: 1.94e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1398627605  27 MLLNIHLAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:COG1476     3 KKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARA 55
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
33-79 7.08e-04

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 35.36  E-value: 7.08e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEKPGRDLKLSSIKRYVEA 79
Cdd:COG1396    12 LRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKA 58
COG5606 COG5606
Predicted DNA-binding protein, XRE-type HTH domain [General function prediction only];
18-61 5.52e-03

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


Pssm-ID: 444337  Cd Length: 105  Bit Score: 33.32  E-value: 5.52e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1398627605  18 AKAQKAATEMLLNIHLAELRDRMNLTQGEIAASLGVRQPTVSEM 61
Cdd:COG5606    22 EEAEELKLKAQLMAAIRKLIKERGLTQAEAAELLGITQPRVSDL 65
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
32-62 8.26e-03

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 32.64  E-value: 8.26e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1398627605  32 HLAELRDRMNLTQGEIAASLGVRQPTVSEME 62
Cdd:PRK09726   16 AMKLVRQQNGWTQSELAKKIGIKQATISNFE 46
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
33-63 8.76e-03

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 32.21  E-value: 8.76e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1398627605  33 LAELRDRMNLTQGEIAASLGVRQPTVSEMEK 63
Cdd:COG2944    11 IRALRERLGLSQAEFAALLGVSVSTVRRWEQ 41
 
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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