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Conserved domains on  [gi|488138712|ref|WP_002209920|]
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MULTISPECIES: AlpA family transcriptional regulator [Yersinia pseudotuberculosis complex]

Protein Classification

helix-turn-helix transcriptional regulator( domain architecture ID 10007181)

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

CATH:  1.10.10.10
Gene Ontology:  GO:0003677|GO:0003700|GO:0006355
PubMed:  15808743|10473770|8831795

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AlpA COG3311
DNA-binding transcriptional regulator AlpA [Transcription, Mobilome: prophages, transposons];
6-62 8.63e-23

DNA-binding transcriptional regulator AlpA [Transcription, Mobilome: prophages, transposons];


:

Pssm-ID: 442540 [Multi-domain]  Cd Length: 64  Bit Score: 81.51  E-value: 8.63e-23
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 488138712  6 LIRLPEVLKRTGFSRPWVYKLLKQKRFPPPIKIGGRAIAFVESEVNDWIEQQIAHSR 62
Cdd:COG3311   8 LLRLKEVAELLGVSRSTIYRLIKKGEFPKPVKLGGRSVRWRESEVEAWLAARIAASR 64
 
Name Accession Description Interval E-value
AlpA COG3311
DNA-binding transcriptional regulator AlpA [Transcription, Mobilome: prophages, transposons];
6-62 8.63e-23

DNA-binding transcriptional regulator AlpA [Transcription, Mobilome: prophages, transposons];


Pssm-ID: 442540 [Multi-domain]  Cd Length: 64  Bit Score: 81.51  E-value: 8.63e-23
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 488138712  6 LIRLPEVLKRTGFSRPWVYKLLKQKRFPPPIKIGGRAIAFVESEVNDWIEQQIAHSR 62
Cdd:COG3311   8 LLRLKEVAELLGVSRSTIYRLIKKGEFPKPVKLGGRSVRWRESEVEAWLAARIAASR 64
Phage_AlpA pfam05930
Prophage CP4-57 regulatory protein (AlpA); This family consists of several short bacterial and ...
 6-54 2.68e-15

Prophage CP4-57 regulatory protein (AlpA); This family consists of several short bacterial and phage proteins which are related to the E. coli protein AlpA. AlpA suppress two phenotypes of a delta lon protease mutant, overproduction of capsular polysaccharide and sensitivity to UV light. Several of the sequences in this family are thought to be DNA-binding proteins.


Pssm-ID: 399137  Cd Length: 51  Bit Score: 62.35  E-value: 2.68e-15
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488138712   6 LIRLPEVLKRTGFSRPWVYKLLKQKRFPPPIKIGGRAIAFVESEVNDWI 54
Cdd:pfam05930  3 ILRLREVEQKTGLSRSSIYRLMKEGEFPKPVRLGVRAVAWVESEIDQWI 51
PRK12859 PRK12859
3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
 22-63 3.90e-03

3-ketoacyl-(acyl-carrier-protein) reductase; Provisional


Pssm-ID: 183797 [Multi-domain]  Cd Length: 256  Bit Score: 33.22  E-value: 3.90e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488138712  22 WVYKLLKQKRFP--PPIKIG-----GRAIAFVESEVNDWIEQQIAHSRG 63
Cdd:PRK12859 205 WMTEEIKQGLLPmfPFGRIGepkdaARLIKFLASEEAEWITGQIIHSEG 253
 
Name Accession Description Interval E-value
AlpA COG3311
DNA-binding transcriptional regulator AlpA [Transcription, Mobilome: prophages, transposons];
6-62 8.63e-23

DNA-binding transcriptional regulator AlpA [Transcription, Mobilome: prophages, transposons];


Pssm-ID: 442540 [Multi-domain]  Cd Length: 64  Bit Score: 81.51  E-value: 8.63e-23
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 488138712  6 LIRLPEVLKRTGFSRPWVYKLLKQKRFPPPIKIGGRAIAFVESEVNDWIEQQIAHSR 62
Cdd:COG3311   8 LLRLKEVAELLGVSRSTIYRLIKKGEFPKPVKLGGRSVRWRESEVEAWLAARIAASR 64
Phage_AlpA pfam05930
Prophage CP4-57 regulatory protein (AlpA); This family consists of several short bacterial and ...
 6-54 2.68e-15

Prophage CP4-57 regulatory protein (AlpA); This family consists of several short bacterial and phage proteins which are related to the E. coli protein AlpA. AlpA suppress two phenotypes of a delta lon protease mutant, overproduction of capsular polysaccharide and sensitivity to UV light. Several of the sequences in this family are thought to be DNA-binding proteins.


Pssm-ID: 399137  Cd Length: 51  Bit Score: 62.35  E-value: 2.68e-15
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488138712   6 LIRLPEVLKRTGFSRPWVYKLLKQKRFPPPIKIGGRAIAFVESEVNDWI 54
Cdd:pfam05930  3 ILRLREVEQKTGLSRSSIYRLMKEGEFPKPVRLGVRAVAWVESEIDQWI 51
HTH_17 pfam12728
Helix-turn-helix domain; This domain is a DNA-binding helix-turn-helix domain.
 6-57 6.39e-06

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


Pssm-ID: 463684 [Multi-domain]  Cd Length: 51  Bit Score: 38.60  E-value: 6.39e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488138712   6 LIRLPEVLKRTGFSRPWVYKLLKQKRFpPPIKIGGRaIAFVESEVNDWIEQQ 57
Cdd:pfam12728  1 LLTVEEAAELLGVSRRTVYRLIRSGEL-PAAKIGRR-WRIRKSDLEEWLERR 50
PRK12859 PRK12859
3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
 22-63 3.90e-03

3-ketoacyl-(acyl-carrier-protein) reductase; Provisional


Pssm-ID: 183797 [Multi-domain]  Cd Length: 256  Bit Score: 33.22  E-value: 3.90e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488138712  22 WVYKLLKQKRFP--PPIKIG-----GRAIAFVESEVNDWIEQQIAHSRG 63
Cdd:PRK12859 205 WMTEEIKQGLLPmfPFGRIGepkdaARLIKFLASEEAEWITGQIIHSEG 253
 
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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