3JBA Virus Immune System date Aug 11, 2015
title The U4 Antibody Epitope On Human Papillomavirus 16 Identifie Em
authors J.Guan, S.M.Bywaters, S.A.Brendle, H.Lee, R.E.Ashley, N.D.Christe S.Hafenstein
compound source
Molecule: H16.U4 Antibody Light Chain
Chain: L
Fragment: Fab Variable Domain
 Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090

Molecule: H16.U4 Antibody Heavy Chain
Chain: H
Fragment: Fab Variable Domain
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090

Molecule: Major Capsid Protein L1
Chain: B, A, E, D, C, F
Engineered: Yes
Organism_scientific: Human Papillomavirus Type 16
Organism_taxid: 333760
Gene: L1
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293tt
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Sv40
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 12.00 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceThe U4 antibody epitope on human papillomavirus 16 identified by cryo-EM., Guan J, Bywaters SM, Brendle SA, Lee H, Ashley RE, Christensen ND, Hafenstein S, J Virol. 2015 Sep 23. pii: JVI.02020-15. PMID:26401038
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (368 Kb) [Save to disk]
  • Biological Unit Coordinates (3jba.pdb1.gz) 21144 Kb
  • CSU: Contacts of Structural Units for 3JBA
  • Retrieve 3JBA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3JBA from S2C, [Save to disk]
    • View 3JBA in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 3JBA
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3jba] [3jba_L] [3jba_F] [3jba_B] [3jba_A] [3jba_H] [3jba_D] [3jba_C] [3jba_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3JBA: [IGv ] by SMART
    • Other resources with information on 3JBA
  • Community annotation for 3JBA at PDBWiki (http://pdbwiki.org)

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