6ESB
BK polyomavirus + 20 mM GT1b oligosaccharide
- PDB DOI: https://doi.org/10.2210/pdb6ESB/pdb
- EM Map EMD-3944: EMDB EMDataResource
- Classification: VIRUS
- Organism(s): Betapolyomavirus hominis
- Mutation(s): No 
- Deposited: 2017-10-20 Released: 2018-05-02 
- Funding Organization(s): Wellcome Trust
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.40 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
wwPDB Validation   3D Report Full Report
This is version 2.0 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 |
Capsid protein VP1 | 361 | Betapolyomavirus hominis | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for P03088 (BK polyomavirus) Explore P03088  Go to UniProtKB:  P03088 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P03088 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Minor capsid protein VP2 | G [auth 7] | 350 | Betapolyomavirus hominis | Mutation(s): 0  | |
UniProt | |||||
Find proteins for P03094 (BK polyomavirus) Explore P03094  Go to UniProtKB:  P03094 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P03094 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
N-acetyl-alpha-neuraminic acid-(2-8)-N-acetyl-alpha-neuraminic acid | H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], H [auth A], I [auth B], J [auth C], K [auth D], L [auth E], M [auth F] | 2 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G87492XO GlyCosmos:  G87492XO GlyGen:  G87492XO |
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
CA (Subject of Investigation/LOI) Query on CA | N [auth 1] O [auth 1] P [auth 2] Q [auth 3] R [auth 3] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.40 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: SINGLE PARTICLE 
Entry History & Funding Information
Deposition Data
- Released Date: 2018-05-02  Deposition Author(s): Hurdiss, D.L., Ranson, N.A.
Funding Organization | Location | Grant Number |
---|---|---|
Wellcome Trust | United Kingdom | 102572/B/13/Z |
Revision History (Full details and data files)
- Version 1.0: 2018-05-02
Type: Initial release - Version 1.1: 2018-05-09
Changes: Data collection, Database references - Version 1.2: 2018-06-13
Changes: Data collection, Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary