5YXA

Crystal structure of the C-terminal fragment of NS1 protein from yellow fever virus

PDB DOI: https://doi.org/10.2210/pdb5YXA/pdb

Classification: VIRAL PROTEIN
Organism(s): Yellow fever virus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2017-12-04 Released: 2018-01-24
Deposition Author(s): Wang, H., Song, H., Qi, J., Shi, Y., Gao, G.F.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.258
R-Value Work: 0.223
R-Value Observed: 0.225

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Crystal structure of the C-terminal fragment of NS1 protein from yellow fever virus.

Wang, H., Han, M., Qi, J., Hilgenfeld, R., Luo, T., Shi, Y., Gao, G.F., Song, H.

(2017) Sci China Life Sci 60: 1403-1406

PubMed: 29285718 Search on PubMed
DOI: https://doi.org/10.1007/s11427-017-9238-8
Primary Citation of Related Structures:
5YXA

Organizational Affiliation

Laboratory of Animal Infectious Diseases, College of Animal Sciences and Veterinary Medicine, Guangxi University, Nanning, 530004, China.

Macromolecule Content

Total Structure Weight: 79.93 kDa
Atom Count: 5,540
Modelled Residue Count: 708
Deposited Residue Count: 724
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural protein 1	A, B, C, D	181	Yellow fever virus	Mutation(s): 0
UniProt
Find proteins for Q1X881 (Yellow fever virus (isolate Angola/14FA/1971)) Explore Q1X881 Go to UniProtKB: Q1X881
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q1X881
Sequence AnnotationsExpand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.258
R-Value Work: 0.223
R-Value Observed: 0.225
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.291	α = 90
b = 114.104	β = 90
c = 139.215	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2018-01-24

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2018-01-24
Type: Initial release
Version 1.1: 2018-01-31
Changes: Database references
Version 1.2: 2018-02-07
Changes: Structure summary
Version 1.3: 2023-11-22
Changes: Data collection, Database references, Refinement description
Version 1.4: 2024-11-06
Changes: Structure summary

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.

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