7WC2 | pdb_00007wc2

Cryo-EM structure of alphavirus, Getah virus

PDB DOI: https://doi.org/10.2210/pdb7WC2/pdb
EM Map EMD-32412: EMDB EMDataResource

Classification: VIRUS
Organism(s): Getah virus
Mutation(s): Yes

Deposited: 2021-12-18 Released: 2022-11-02
Deposition Author(s): Wang, M., Sun, Z.Z., Wang, J.F.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: CELL
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 7WC2

This is version 1.1 of the entry. See complete history.

Literature

Implications for the pathogenicity and antigenicity of alpha viruses revealed by a 3.5 angstrom Cryo-EM structure of Getah virus

Wang, M., Sun, Z.Z., Wang, J.F.

To be published.

Macromolecule Content

Total Structure Weight: 387.08 kDa
Atom Count: 27,108
Modeled Residue Count: 3,440
Deposited Residue Count: 3,440
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein E1	A, C [auth D], E [auth G], G [auth J]	438	Getah virus	Mutation(s): 0
UniProt
Find proteins for Q5Y388 (Getah virus) Explore Q5Y388 Go to UniProtKB: Q5Y388
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5Y388
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain C [auth D] Focus chain E [auth G] Focus chain G [auth J]
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein E2	B, D [auth E], F [auth H], H [auth K]	422	Getah virus	Mutation(s): 2
UniProt
Find proteins for Q5Y388 (Getah virus) Explore Q5Y388 Go to UniProtKB: Q5Y388
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5Y388
Glycosylation
Glycosylation Sites: 2	Glycosylation Focus chain B Focus chain D [auth E] Focus chain F [auth H] Focus chain H [auth K]
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	I [auth a], J [auth b], K [auth c], L [auth d], M [auth e], I [auth a], J [auth b], K [auth c], L [auth d], M [auth e], N [auth f], O [auth g], P [auth h], Q [auth i], R [auth j], S [auth k], T [auth l]	5		N-Glycosylation	Interactions Focus chain I [auth a] Focus chain J [auth b] Focus chain K [auth c] Focus chain L [auth d] Focus chain M [auth e] Focus chain N [auth f] Focus chain O [auth g] Focus chain P [auth h] Focus chain Q [auth i] Focus chain R [auth j] Focus chain S [auth k] Focus chain T [auth l] Interactions & Density Focus chain I [auth a] Focus chain J [auth b] Focus chain K [auth c] Focus chain L [auth d] Focus chain M [auth e] Focus chain N [auth f] Focus chain O [auth g] Focus chain P [auth h] Focus chain Q [auth i] Focus chain R [auth j] Focus chain S [auth k] Focus chain T [auth l]
Glycosylation Resources
GlyTouCan: G22768VO GlyCosmos: G22768VO GlyGen: G22768VO

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: CELL
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-11-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2022-11-02
Type: Initial release
Version 1.1: 2024-10-16
Changes: Data collection, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.