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Conserved domains on  [gi|2822369|gb|AAC82875|]
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unknown (plasmid) [Halobacterium salinarum NRC-1]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRiA4_ORF3 super family cl06802
Plasmid pRiA4b ORF-3-like protein; Members of this family are similar to the protein product ...
 4-150 1.22e-10

Plasmid pRiA4b ORF-3-like protein; Members of this family are similar to the protein product of ORF-3 found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process. Other proteins found in this family are annotated as being putative TnpR resolvases (Swiss:Q9LCU7, Swiss:Q50439), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor and in fact carries a LexA DNA binding domain (pfam01726), but no references were found to expand on this.


The actual alignment was detected with superfamily member pfam07929:

Pssm-ID: 462319  Cd Length: 165  Bit Score: 56.46  E-value: 1.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2822369      4 YQFRVKFEYAPTELWRDIIVGADRTLDEFQTVLNRAVGLDQDHLWfvgtdqDYWDSDVQYKCPSEFEQSSDGLVRggeey 83
Cdd:pfam07929   3 YQLKVTLKGIKPPIWRRLEVPSDITLARLHDIIQAAMGWEDYHLH------EFEIGGRRYGIPEDDDPDEGPEVL----- 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2822369     84 DAGETTVGQMArrldLDEHDRLCYLFDYGDEWRFYAILKEITEDEPRDTEPAVVNRKGDpvdqyAPP 150
Cdd:pfam07929  72 DERKVRLDDVL----TGEGKKFTYEYDFGDNWEHEITLEKILPDDPGYRYPRCLDGARA-----CPP 129
 
Name Accession Description Interval E-value
PRiA4_ORF3 pfam07929
Plasmid pRiA4b ORF-3-like protein; Members of this family are similar to the protein product ...
 4-150 1.22e-10

Plasmid pRiA4b ORF-3-like protein; Members of this family are similar to the protein product of ORF-3 found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process. Other proteins found in this family are annotated as being putative TnpR resolvases (Swiss:Q9LCU7, Swiss:Q50439), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor and in fact carries a LexA DNA binding domain (pfam01726), but no references were found to expand on this.


Pssm-ID: 462319  Cd Length: 165  Bit Score: 56.46  E-value: 1.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2822369      4 YQFRVKFEYAPTELWRDIIVGADRTLDEFQTVLNRAVGLDQDHLWfvgtdqDYWDSDVQYKCPSEFEQSSDGLVRggeey 83
Cdd:pfam07929   3 YQLKVTLKGIKPPIWRRLEVPSDITLARLHDIIQAAMGWEDYHLH------EFEIGGRRYGIPEDDDPDEGPEVL----- 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2822369     84 DAGETTVGQMArrldLDEHDRLCYLFDYGDEWRFYAILKEITEDEPRDTEPAVVNRKGDpvdqyAPP 150
Cdd:pfam07929  72 DERKVRLDDVL----TGEGKKFTYEYDFGDNWEHEITLEKILPDDPGYRYPRCLDGARA-----CPP 129
 
Name Accession Description Interval E-value
PRiA4_ORF3 pfam07929
Plasmid pRiA4b ORF-3-like protein; Members of this family are similar to the protein product ...
 4-150 1.22e-10

Plasmid pRiA4b ORF-3-like protein; Members of this family are similar to the protein product of ORF-3 found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process. Other proteins found in this family are annotated as being putative TnpR resolvases (Swiss:Q9LCU7, Swiss:Q50439), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor and in fact carries a LexA DNA binding domain (pfam01726), but no references were found to expand on this.


Pssm-ID: 462319  Cd Length: 165  Bit Score: 56.46  E-value: 1.22e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2822369      4 YQFRVKFEYAPTELWRDIIVGADRTLDEFQTVLNRAVGLDQDHLWfvgtdqDYWDSDVQYKCPSEFEQSSDGLVRggeey 83
Cdd:pfam07929   3 YQLKVTLKGIKPPIWRRLEVPSDITLARLHDIIQAAMGWEDYHLH------EFEIGGRRYGIPEDDDPDEGPEVL----- 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2822369     84 DAGETTVGQMArrldLDEHDRLCYLFDYGDEWRFYAILKEITEDEPRDTEPAVVNRKGDpvdqyAPP 150
Cdd:pfam07929  72 DERKVRLDDVL----TGEGKKFTYEYDFGDNWEHEITLEKILPDDPGYRYPRCLDGARA-----CPP 129
 
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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