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Conserved domains on  [gi|2029976355|gb|QUG99376|]
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hypothetical protein HCM98_31700 (plasmid) [Bacillus tropicus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 229396)

helix-turn-helix domain-containing protein may bind DNA and be involved in the regulation of gene expression

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARSR super family cl46857
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 3-130 7.70e-05

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.


The actual alignment was detected with superfamily member pfam05732:

Pssm-ID: 481197  Cd Length: 164  Bit Score: 40.69  E-value: 7.70e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2029976355   3 KVSMIENNKIINSNGEIVEEIQsVTFNYGKEPDYIKVYLDNIM-FLAEISGWIGKVMYELLKSVSYADkgQFIIINagyk 81
Cdd:pfam05732   6 KVKYKGTETYINEETGEVIEVQ-VLYIEERDFNFVKVWIVQLIsMLDLIGNQKTRLVNWIIDNLNSNN--TLIATT---- 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2029976355  82 RIIAANLGIKLQSVTNAINQLAKKGILIRKEVGVFLLNPQYFGKGEWKD 130
Cdd:pfam05732  79 REIAEATGISLQTVITTMKALEEGNFLKKKTSGVYMLNPDLLFKGDDQK 127
 
Name Accession Description Interval E-value
RepL pfam05732
Firmicute plasmid replication protein (RepL); This family consists of Firmicute RepL proteins ...
 3-130 7.70e-05

Firmicute plasmid replication protein (RepL); This family consists of Firmicute RepL proteins which are involved in plasmid replication.


Pssm-ID: 428608  Cd Length: 164  Bit Score: 40.69  E-value: 7.70e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2029976355   3 KVSMIENNKIINSNGEIVEEIQsVTFNYGKEPDYIKVYLDNIM-FLAEISGWIGKVMYELLKSVSYADkgQFIIINagyk 81
Cdd:pfam05732   6 KVKYKGTETYINEETGEVIEVQ-VLYIEERDFNFVKVWIVQLIsMLDLIGNQKTRLVNWIIDNLNSNN--TLIATT---- 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2029976355  82 RIIAANLGIKLQSVTNAINQLAKKGILIRKEVGVFLLNPQYFGKGEWKD 130
Cdd:pfam05732  79 REIAEATGISLQTVITTMKALEEGNFLKKKTSGVYMLNPDLLFKGDDQK 127
 
Name Accession Description Interval E-value
RepL pfam05732
Firmicute plasmid replication protein (RepL); This family consists of Firmicute RepL proteins ...
 3-130 7.70e-05

Firmicute plasmid replication protein (RepL); This family consists of Firmicute RepL proteins which are involved in plasmid replication.


Pssm-ID: 428608  Cd Length: 164  Bit Score: 40.69  E-value: 7.70e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2029976355   3 KVSMIENNKIINSNGEIVEEIQsVTFNYGKEPDYIKVYLDNIM-FLAEISGWIGKVMYELLKSVSYADkgQFIIINagyk 81
Cdd:pfam05732   6 KVKYKGTETYINEETGEVIEVQ-VLYIEERDFNFVKVWIVQLIsMLDLIGNQKTRLVNWIIDNLNSNN--TLIATT---- 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2029976355  82 RIIAANLGIKLQSVTNAINQLAKKGILIRKEVGVFLLNPQYFGKGEWKD 130
Cdd:pfam05732  79 REIAEATGISLQTVITTMKALEEGNFLKKKTSGVYMLNPDLLFKGDDQK 127
 
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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