NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|475050051|gb|AGI56143|]
View 

VP1, partial [JC polyomavirus]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PHA02614 super family cl47082
Major capsid protein VP1; Provisional
 1-64 9.76e-36

Major capsid protein VP1; Provisional


The actual alignment was detected with superfamily member PHA02614:

Pssm-ID: 222910 [Multi-domain]  Cd Length: 363  Bit Score: 122.41  E-value: 9.76e-36
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 475050051   1 PYPISFLLTDLINRRTPRVDGQPMYGMDAQVEEVRVFEGTEELPGDPDMMRYVDRYGQLQTKML 64
Cdd:PHA02614 295 PYPVSSLLNSLFNRMMPRVQGQPMEGEDTQVEEVRVYEGTEGLPGDPDMIRYIDKFGQQSTKPP 358
 
Name Accession Description Interval E-value
PHA02614 PHA02614
Major capsid protein VP1; Provisional
 1-64 9.76e-36

Major capsid protein VP1; Provisional


Pssm-ID: 222910 [Multi-domain]  Cd Length: 363  Bit Score: 122.41  E-value: 9.76e-36
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 475050051   1 PYPISFLLTDLINRRTPRVDGQPMYGMDAQVEEVRVFEGTEELPGDPDMMRYVDRYGQLQTKML 64
Cdd:PHA02614 295 PYPVSSLLNSLFNRMMPRVQGQPMEGEDTQVEEVRVYEGTEGLPGDPDMIRYIDKFGQQSTKPP 358
Polyoma_coat pfam00718
Polyomavirus coat protein;
1-21 6.34e-04

Polyomavirus coat protein;


Pssm-ID: 425836  Cd Length: 293  Bit Score: 35.47  E-value: 6.34e-04
                          10        20
                  ....*....|....*....|.
gi 475050051    1 PYPISFLLTDLINRRTPRVDG 21
Cdd:pfam00718 273 PSGIQFLKGDLINFKIQLRDG 293
 
Name Accession Description Interval E-value
PHA02614 PHA02614
Major capsid protein VP1; Provisional
 1-64 9.76e-36

Major capsid protein VP1; Provisional


Pssm-ID: 222910 [Multi-domain]  Cd Length: 363  Bit Score: 122.41  E-value: 9.76e-36
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 475050051   1 PYPISFLLTDLINRRTPRVDGQPMYGMDAQVEEVRVFEGTEELPGDPDMMRYVDRYGQLQTKML 64
Cdd:PHA02614 295 PYPVSSLLNSLFNRMMPRVQGQPMEGEDTQVEEVRVYEGTEGLPGDPDMIRYIDKFGQQSTKPP 358
Polyoma_coat pfam00718
Polyomavirus coat protein;
1-21 6.34e-04

Polyomavirus coat protein;


Pssm-ID: 425836  Cd Length: 293  Bit Score: 35.47  E-value: 6.34e-04
                          10        20
                  ....*....|....*....|.
gi 475050051    1 PYPISFLLTDLINRRTPRVDG 21
Cdd:pfam00718 273 PSGIQFLKGDLINFKIQLRDG 293
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH