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Conserved domains on  [gi|1470960736|gb|RHD59156|]
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DNA-binding protein [Phocaeicola plebeius]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 10578545)

helix-turn-helix DNA-binding protein similar to Mycobacterium phage excisionase, which is necessary for the excision of prophage from the host genome by site-specific recombination at the attachment site

Gene Ontology:  GO:0003677
PubMed:  15808743

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_17 pfam12728
Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.
 43-87 4.86e-08

Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.


:

Pssm-ID: 463684 [Multi-domain]  Cd Length: 51  Bit Score: 45.53  E-value: 4.86e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1470960736  43 WMDNHEVCRRLRISPRTLQTLRDNGTLAFTKIGNRTYYRPDDVER 87
Cdd:pfam12728   1 LLTVEEAAELLGVSRRTVYRLIRSGELPAAKIGRRWRIRKSDLEE 45
 
Name Accession Description Interval E-value
HTH_17 pfam12728
Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.
 43-87 4.86e-08

Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.


Pssm-ID: 463684 [Multi-domain]  Cd Length: 51  Bit Score: 45.53  E-value: 4.86e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1470960736  43 WMDNHEVCRRLRISPRTLQTLRDNGTLAFTKIGNRTYYRPDDVER 87
Cdd:pfam12728   1 LLTVEEAAELLGVSRRTVYRLIRSGELPAAKIGRRWRIRKSDLEE 45
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 48-97 5.02e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 33.04  E-value: 5.02e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1470960736  48 EVCRRLRISPRT----LQTLRDNGTLAFTKIGNRTYYRPDDVERVVGNVDEKRK 97
Cdd:cd00090    25 ELAERLGLSQSTvsrhLKKLEEAGLVESRREGRRVYYSLTDAERLLALLESLLE 78
 
Name Accession Description Interval E-value
HTH_17 pfam12728
Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.
 43-87 4.86e-08

Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.


Pssm-ID: 463684 [Multi-domain]  Cd Length: 51  Bit Score: 45.53  E-value: 4.86e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1470960736  43 WMDNHEVCRRLRISPRTLQTLRDNGTLAFTKIGNRTYYRPDDVER 87
Cdd:pfam12728   1 LLTVEEAAELLGVSRRTVYRLIRSGELPAAKIGRRWRIRKSDLEE 45
HTH_ARSR cd00090
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 48-97 5.02e-03

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


Pssm-ID: 238042 [Multi-domain]  Cd Length: 78  Bit Score: 33.04  E-value: 5.02e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1470960736  48 EVCRRLRISPRT----LQTLRDNGTLAFTKIGNRTYYRPDDVERVVGNVDEKRK 97
Cdd:cd00090    25 ELAERLGLSQSTvsrhLKKLEEAGLVESRREGRRVYYSLTDAERLLALLESLLE 78
MerR_1 pfam13411
MerR HTH family regulatory protein;
48-106 5.34e-03

MerR HTH family regulatory protein;


Pssm-ID: 463870  Cd Length: 66  Bit Score: 32.91  E-value: 5.34e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1470960736  48 EVCRRLRISPRTLQTLRDNGTLAFTKIG-NRTYYRPDDVERVvgnvdEKRKEARWKGKTI 106
Cdd:pfam13411   5 ELARLLGVTPRTLRYWEREGLLPPPRTErGRRYYTDEDVERL-----RLIKALLERGLSL 59
 
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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