1SID

MURINE POLYOMAVIRUS COMPLEXED WITH 3'SIALYL LACTOSE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.65 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.236 
  • R-Value Observed: 0.236 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Crystal structures of murine polyomavirus in complex with straight-chain and branched-chain sialyloligosaccharide receptor fragments.

Stehle, T.Harrison, S.C.

(1996) Structure 4: 183-194

  • DOI: 10.1016/s0969-2126(96)00021-4
  • Primary Citation of Related Structures:  
    1SID, 1SIE

  • PubMed Abstract: 
  • Murine polyomavirus recognizes (alpha2,3)-linked alpha-5-N-acetylneuraminic acid (sialic acid) on the surface of susceptible cells. While all strains bind to straight-chain receptors terminating in (alpha2,3)-linked sialic acid, some strains also bind to branched oligosaccharides that carry a second, (alpha2,6)-linked sialic acid ...

    Murine polyomavirus recognizes (alpha2,3)-linked alpha-5-N-acetylneuraminic acid (sialic acid) on the surface of susceptible cells. While all strains bind to straight-chain receptors terminating in (alpha2,3)-linked sialic acid, some strains also bind to branched oligosaccharides that carry a second, (alpha2,6)-linked sialic acid. The ability to bind to these branched-chain receptors correlates with a single amino acid mutation at position 91 on the outer surface of the major capsid protein, VP1, and with a significant decrease in tumorigenicity.


    Related Citations: 
    • The Structure of Simian Virus 40 Refined at 3.1 Angstroms Resolution
      Stehle, T., Gamblin, S.J., Yan, Y., Harrison, S.C.
      () To be published --: --
    • Structure Determination of Simian Virus 40 and Murine Polyomavirus by a Combination of 5-Fold and 30-Fold Electron Density Averaging
      Yan, Y., Stehle, T., Liddington, R.C., Zhao, H.C., Harrison, S.C.
      () To be published --: --
    • Structure of Murine Polyomavirus Complexed with an Oligosaccharide Receptor Fragment
      Stehle, T., Yan, Y., Benjamin, T.L., Harrison, S.C.
      (1994) Nature 369: 160

    Organizational Affiliation

    Howard Hughes Medical Institute and Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
POLYOMAVIRUS COAT PROTEIN VP1
A, B, C, D, E, F
A, B, C, D, E, F
383Mouse polyomavirus (strain p16 small-plaque)Mutation(s): 0 
UniProt
Find proteins for P49302 (Murine polyomavirus (strain P16 small-plaque))
Explore P49302 
Go to UniProtKB:  P49302
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49302
Protein Feature View
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-beta-D-glucopyranose
G, H, I, J, K, L
G, H, I, J, K, L
3N/A Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G91237TK
GlyCosmos:  G91237TK
GlyGen:  G91237TK
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.65 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.236 
  • R-Value Observed: 0.236 
  • Space Group: I 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 570α = 90
b = 570β = 90
c = 570γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1996-06-20
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Database references, Derived calculations, Other, Structure summary