1VPS
POLYOMAVIRUS VP1 PENTAMER COMPLEXED WITH A DISIALYLATED HEXASACCHARIDE
- PDB DOI: https://doi.org/10.2210/pdb1VPS/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Alphapolyomavirus muris
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 1997-03-07 Released: 1997-05-15 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.205 
- R-Value Work: 0.177 
- R-Value Observed: 0.177 
wwPDB Validation   3D Report Full Report
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
POLYOMAVIRUS VP1 PENTAMER | 289 | Alphapolyomavirus muris | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for P49302 (Murine polyomavirus (strain P16 small-plaque)) Explore P49302  Go to UniProtKB:  P49302 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P49302 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-3)-[N-acetyl-alpha-neuraminic acid-(2-6)]2-acetamido-2-deoxy-beta-D-glucopyranose | F, G, H, I, J | 4 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G14000ZZ GlyCosmos:  G14000ZZ GlyGen:  G14000ZZ |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.205 
- R-Value Work: 0.177 
- R-Value Observed: 0.177 
- Space Group: P 31 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 221.5 | α = 90 |
b = 221.5 | β = 90 |
c = 99.8 | γ = 120 |
Software Name | Purpose |
---|---|
X-PLOR | model building |
X-PLOR | refinement |
DENZO | data reduction |
SCALEPACK | data scaling |
X-PLOR | phasing |
Entry History 
Deposition Data
- Released Date: 1997-05-15  Deposition Author(s): Stehle, T., Harrison, S.C.
Revision History (Full details and data files)
- Version 1.0: 1997-05-15
Type: Initial release - Version 1.1: 2008-03-24
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Other, Structure summary - Version 2.1: 2023-08-09
Changes: Database references, Refinement description, Structure summary