5W1O

Crystal Structure of HPV16 L1 Pentamer Bound to Heparin Oligosaccharides


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.226 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structural basis of oligosaccharide receptor recognition by human papillomavirus.

Dasgupta, J.Bienkowska-Haba, M.Ortega, M.E.Patel, H.D.Bodevin, S.Spillmann, D.Bishop, B.Sapp, M.Chen, X.S.

(2011) J Biol Chem 286: 2617-2624

  • DOI: 10.1074/jbc.M110.160184
  • Primary Citation of Related Structures:  
    5W1X, 5W1O

  • PubMed Abstract: 
  • High risk human papillomavirus types 16 (HPV16) and 18 (HPV18) can cause cervical cancer. Efficient infection by HPV16 and HPV18 pseudovirions requires interactions of particles with cell-surface receptor heparan sulfate oligosaccharide. To understand the virus-receptor interactions for HPV infection, we determined the crystal structures of HPV16 and HPV18 capsids bound to the oligosaccharide receptor fragment using oligomeric heparin ...

    High risk human papillomavirus types 16 (HPV16) and 18 (HPV18) can cause cervical cancer. Efficient infection by HPV16 and HPV18 pseudovirions requires interactions of particles with cell-surface receptor heparan sulfate oligosaccharide. To understand the virus-receptor interactions for HPV infection, we determined the crystal structures of HPV16 and HPV18 capsids bound to the oligosaccharide receptor fragment using oligomeric heparin. The HPV-heparin structures revealed multiple binding sites for the highly negatively charged oligosaccharide fragment on the capsid surface, which is different from previously reported virus-receptor interactions in which a single type of binding pocket is present for a particular receptor. We performed structure-guided mutagenesis to generate mutant viruses, and cell binding and infectivity assays demonstrated the functional role of viral residues involved in heparin binding. These results provide a basis for understanding virus-heparan sulfate receptor interactions critical for HPV infection and for the potential development of inhibitors against HPV infection.


    Organizational Affiliation

    Department of Molecular and Computational Biology, University of Southern California, Los Angeles, California 90089, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Major capsid protein L1A, B, C, D, E427Human papillomavirusMutation(s): 0 
Gene Names: L1
UniProt
Find proteins for Q81007 (Human papillomavirus)
Explore Q81007 
Go to UniProtKB:  Q81007
Protein Feature View
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranose
F, H, I, J, K, L, M, N
F, H, I, J, K, L, M, N, O, P
2N/A Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G75183WV
GlyCosmos:  G75183WV
Entity ID: 3
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-alpha-D-glucopyranoseG6N/A Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G29325GF
GlyCosmos:  G29325GF
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.226 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 96.62α = 90
b = 101.252β = 90.63
c = 128.182γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2017-06-04 
  • Released Date: 2017-10-18 
  • Deposition Author(s): Dasgupta, J., Chen, X.S.
  • This entry supersedes: 3OAE

Revision History  (Full details and data files)

  • Version 1.0: 2017-10-18
    Type: Initial release
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary