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Conserved domains on  [gi|315466556|emb|CBW37684|]
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gag protein, partial [Xenotropic murine leukemia virus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gag_p12 super family cl03117
Gag polyprotein, inner coat protein p12; The retroviral p12 is a virion structural protein. ...
 45-128 1.60e-31

Gag polyprotein, inner coat protein p12; The retroviral p12 is a virion structural protein. p12 is proline rich. The function carried out by p12 in assembly and replication is unknown. p12 is associated with pathogenicity of the virus.


The actual alignment was detected with superfamily member pfam01141:

Pssm-ID: 279483 [Multi-domain]  Cd Length: 85  Bit Score: 108.30  E-value: 1.60e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315466556   45 PALTPSIKSKPPKPQVLPDSGGPLIDLLTEDPPPY-GAQPSSSARENDEEEAATTSEVSPPSPMVSRLRGRRDPPAADST 123
Cdd:pfam01141   1 PALTPSIGAKPPKPQVLPDSGGPLIDLLTEDPPPYrDAQPPPSARDGNEEEAAPAGEAPDPSPMASRLRGRRDPPAADST 80


                  ....*
gi 315466556  124 SSQAF 128
Cdd:pfam01141  81 TSQAF 85
Gag_p30 super family cl03444
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 139-160 1.17e-09

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


The actual alignment was detected with superfamily member pfam02093:

Pssm-ID: 426597  Cd Length: 208  Bit Score: 54.67  E-value: 1.17e-09
                          10        20
                  ....*....|....*....|..
gi 315466556  139 QYWPFSSSDLYNWKNNNPSFSE 160
Cdd:pfam02093   1 QYWPFSSSDLYNWKNNNPSFSE 22
 
Name Accession Description Interval E-value
Gag_p12 pfam01141
Gag polyprotein, inner coat protein p12; The retroviral p12 is a virion structural protein. ...
 45-128 1.60e-31

Gag polyprotein, inner coat protein p12; The retroviral p12 is a virion structural protein. p12 is proline rich. The function carried out by p12 in assembly and replication is unknown. p12 is associated with pathogenicity of the virus.


Pssm-ID: 279483 [Multi-domain]  Cd Length: 85  Bit Score: 108.30  E-value: 1.60e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315466556   45 PALTPSIKSKPPKPQVLPDSGGPLIDLLTEDPPPY-GAQPSSSARENDEEEAATTSEVSPPSPMVSRLRGRRDPPAADST 123
Cdd:pfam01141   1 PALTPSIGAKPPKPQVLPDSGGPLIDLLTEDPPPYrDAQPPPSARDGNEEEAAPAGEAPDPSPMASRLRGRRDPPAADST 80


                  ....*
gi 315466556  124 SSQAF 128
Cdd:pfam01141  81 TSQAF 85
Gag_p30 pfam02093
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 139-160 1.17e-09

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


Pssm-ID: 426597  Cd Length: 208  Bit Score: 54.67  E-value: 1.17e-09
                          10        20
                  ....*....|....*....|..
gi 315466556  139 QYWPFSSSDLYNWKNNNPSFSE 160
Cdd:pfam02093   1 QYWPFSSSDLYNWKNNNPSFSE 22
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 4-138 2.11e-07

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 49.33  E-value: 2.11e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315466556   4 LAYDPPPWVKPFVSPKPPPLPTAPVLPPGPSAQPPSRSALYPALTPSIKSKPPKPQVLPDSGGPLIDLLTEDPPPYGAQP 83
Cdd:PRK14951 362 LAFKPAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPAAAPAAA 441

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 315466556  84 SSSARENDEEEAATTSEVSPPSPMVSRLRGRRDPPAADSTSSQAFPLRMGGDGQL 138
Cdd:PRK14951 442 PAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAAARLTPTEEGDV 496
 
Name Accession Description Interval E-value
Gag_p12 pfam01141
Gag polyprotein, inner coat protein p12; The retroviral p12 is a virion structural protein. ...
 45-128 1.60e-31

Gag polyprotein, inner coat protein p12; The retroviral p12 is a virion structural protein. p12 is proline rich. The function carried out by p12 in assembly and replication is unknown. p12 is associated with pathogenicity of the virus.


Pssm-ID: 279483 [Multi-domain]  Cd Length: 85  Bit Score: 108.30  E-value: 1.60e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315466556   45 PALTPSIKSKPPKPQVLPDSGGPLIDLLTEDPPPY-GAQPSSSARENDEEEAATTSEVSPPSPMVSRLRGRRDPPAADST 123
Cdd:pfam01141   1 PALTPSIGAKPPKPQVLPDSGGPLIDLLTEDPPPYrDAQPPPSARDGNEEEAAPAGEAPDPSPMASRLRGRRDPPAADST 80


                  ....*
gi 315466556  124 SSQAF 128
Cdd:pfam01141  81 TSQAF 85
Gag_p30 pfam02093
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 139-160 1.17e-09

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


Pssm-ID: 426597  Cd Length: 208  Bit Score: 54.67  E-value: 1.17e-09
                          10        20
                  ....*....|....*....|..
gi 315466556  139 QYWPFSSSDLYNWKNNNPSFSE 160
Cdd:pfam02093   1 QYWPFSSSDLYNWKNNNPSFSE 22
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 4-138 2.11e-07

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 49.33  E-value: 2.11e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315466556   4 LAYDPPPWVKPFVSPKPPPLPTAPVLPPGPSAQPPSRSALYPALTPSIKSKPPKPQVLPDSGGPLIDLLTEDPPPYGAQP 83
Cdd:PRK14951 362 LAFKPAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPAAAPAAA 441

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 315466556  84 SSSARENDEEEAATTSEVSPPSPMVSRLRGRRDPPAADSTSSQAFPLRMGGDGQL 138
Cdd:PRK14951 442 PAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAAARLTPTEEGDV 496
 
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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