7YW7 | pdb_00007yw7

Crystal structure of zika virus E protein

PDB DOI: https://doi.org/10.2210/pdb7YW7/pdb

Classification: VIRAL PROTEIN
Organism(s): Zika virus
Expression System: Spodoptera frugiperda
Mutation(s): No
Membrane Protein: Yes OPM

Deposited: 2022-08-21 Released: 2022-11-09
Deposition Author(s): Wang, X.X., Yang, Y.X.
Funding Organization(s): National Science Foundation (NSF, China)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.279 (Depositor), 0.277 (DCC)
R-Value Work:
0.243 (Depositor), 0.243 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of zika virus E protein

Wang, x.x., Yang, Y.X.

To be published.

Macromolecule Content

Total Structure Weight: 175.96 kDa
Atom Count: 12,270
Modeled Residue Count: 1,588
Deposited Residue Count: 1,612
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Genome polyprotein	A, B, C, D	403	Zika virus	Mutation(s): 0 Membrane Entity: Yes
UniProt
Find proteins for A0A024B7W1 (Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013)) Explore A0A024B7W1 Go to UniProtKB: A0A024B7W1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A024B7W1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.279 (Depositor), 0.277 (DCC)
R-Value Work: 0.243 (Depositor), 0.243 (DCC)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.329	α = 90
b = 134.084	β = 90
c = 215.589	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
Coot	model building
HKL-2000	data scaling

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-11-09

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	31770190

Revision History (Full details and data files)

Version 1.0: 2022-11-09
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, Refinement description
Version 1.2: 2024-11-13
Changes: 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.