NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2560744689|ref|WP_305221808|]
View 

major capsid protein, partial [Klebsiella variicola]

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
Phage_cap_E super family cl20258
Phage major capsid protein E; Major capsid protein E is involved with the stabilization of the ...
 1-76 3.98e-10

Phage major capsid protein E; Major capsid protein E is involved with the stabilization of the condensed form of the DNA molecule in phage heads.


The actual alignment was detected with superfamily member pfam03864:

Pssm-ID: 427552  Cd Length: 335  Bit Score: 53.52  E-value: 3.98e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2560744689   1 DDIEAYALN----ASGVVNIIVFDPKGWALFRSFKAVKEKLDTRR-GSNSELETAVKDLGKAVSYKGmygdVAIVVYSGQ 75
Cdd:pfam03864 173 EDLRAWEDLlakgTGGTGVRALCGPKFFDALISHPKVKEAYDNTQaGLVGQLEAAELDLRDGFTFGG----ITFEEYRGT 248


                  .
gi 2560744689  76 Y 76
Cdd:pfam03864 249 Y 249
 
Name Accession Description Interval E-value
Phage_cap_E pfam03864
Phage major capsid protein E; Major capsid protein E is involved with the stabilization of the ...
 1-76 3.98e-10

Phage major capsid protein E; Major capsid protein E is involved with the stabilization of the condensed form of the DNA molecule in phage heads.


Pssm-ID: 427552  Cd Length: 335  Bit Score: 53.52  E-value: 3.98e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2560744689   1 DDIEAYALN----ASGVVNIIVFDPKGWALFRSFKAVKEKLDTRR-GSNSELETAVKDLGKAVSYKGmygdVAIVVYSGQ 75
Cdd:pfam03864 173 EDLRAWEDLlakgTGGTGVRALCGPKFFDALISHPKVKEAYDNTQaGLVGQLEAAELDLRDGFTFGG----ITFEEYRGT 248


                  .
gi 2560744689  76 Y 76
Cdd:pfam03864 249 Y 249
 
Name Accession Description Interval E-value
Phage_cap_E pfam03864
Phage major capsid protein E; Major capsid protein E is involved with the stabilization of the ...
 1-76 3.98e-10

Phage major capsid protein E; Major capsid protein E is involved with the stabilization of the condensed form of the DNA molecule in phage heads.


Pssm-ID: 427552  Cd Length: 335  Bit Score: 53.52  E-value: 3.98e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2560744689   1 DDIEAYALN----ASGVVNIIVFDPKGWALFRSFKAVKEKLDTRR-GSNSELETAVKDLGKAVSYKGmygdVAIVVYSGQ 75
Cdd:pfam03864 173 EDLRAWEDLlakgTGGTGVRALCGPKFFDALISHPKVKEAYDNTQaGLVGQLEAAELDLRDGFTFGG----ITFEEYRGT 248


                  .
gi 2560744689  76 Y 76
Cdd:pfam03864 249 Y 249
 
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