5JMT | pdb_00005jmt

Crystal structure of Zika virus NS3 helicase

• PDB DOI: https://doi.org/10.2210/pdb5JMT/pdb

• Classification: HYDROLASE
• Organism(s): Zika virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-04-29 Released: 2016-05-25 
• Deposition Author(s): Tian, H., Ji, X., Yang, X., Xie, W., Yang, K., Chen, C., Wu, C., Chi, H., Mu, Z., Wang, Z., Yang, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.200 (Depositor), 0.202 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.183 (DCC) 
• R-Value Observed: 
  0.181 (Depositor) 

Starting Model: experimental

Literature

The crystal structure of Zika virus helicase: basis for antiviral drug design

Tian, H., Ji, X., Yang, X., Xie, W., Yang, K., Chen, C., Wu, C., Chi, H., Mu, Z., Wang, Z., Yang, H.

(2016) Protein Cell 7: 450-454

• PubMed: 27172988 
• DOI: https://doi.org/10.1007/s13238-016-0275-4
• Primary Citation Related Structures: 
  5JMT

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Organizational Affiliation: 
• School of Life Sciences, Tianjin University, Tianjin, 300072, China.
Tianjin International Joint Academy of Biotechnology and Medicine, Tianjin, 300457, China.
The State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, Jiangsu, 210023, China.
Cleveland Clinic Lerner College of Medicine of Case Western Reserve University, Cleveland, OH, 44195, USA.
School of Life Sciences, Tianjin University, Tianjin, 300072, China. [e-mail].
Tianjin International Joint Academy of Biotechnology and Medicine, Tianjin, 300457, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 50.57 kDa 
• Atom Count: 3,955 
• Modeled Residue Count: 443 
• Deposited Residue Count: 450 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NS3 helicase	A	450	Zika virus	Mutation(s): 0
UniProt
Find proteins for A0A024B7W1 (Zika virus (isolate ZIKV/Human/French Polynesia/10087PF/2013)) Explore A0A024B7W1  Go to UniProtKB:  A0A024B7W1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.200 (Depositor), 0.202 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.183 (DCC) 
• R-Value Observed: 0.181 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.378	α = 90
b = 68.99	β = 94.39
c = 57.903	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-05-25 
Deposition Author(s): Tian, H., Ji, X., Yang, X., Xie, W., Yang, K., Chen, C., Wu, C., Chi, H., Mu, Z., Wang, Z., Yang, H.

Revision History  

• Version 1.0: 2016-05-25
  Type: Initial release
  
• Version 1.1: 2016-06-15
  Changes: Database references
• Version 1.2: 2017-09-27
  Changes: Data collection, Derived calculations
• Version 1.3: 2023-11-08
  Changes: Data collection, Database references, Refinement description