5TXG | pdb_00005txg

Crystal structure of the Zika virus NS3 helicase.

PDB DOI: https://doi.org/10.2210/pdb5TXG/pdb

Classification: HYDROLASE
Organism(s): Zika virus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-11-16 Released: 2016-12-14
Deposition Author(s): Nocadello, S., Light, S.H., Minasov, G., Shuvalova, L., Cardona-Correa, A.A., Ojeda, I., Vargas, J., Johnson, M.E., Lee, H., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free:
0.247 (Depositor), 0.269 (DCC)
R-Value Work:
0.184 (Depositor)
R-Value Observed:
0.187 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 5TXG

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

Literature

Crystal structure of the Zika virus NS3 helicase.

Nocadello, S., Light, S.H., Minasov, G., Shuvalova, L., Cardona-Correa, A.A., Ojeda, I., Vargas, J., Johnson, M.E., Lee, H., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecule Content

Total Structure Weight: 50.75 kDa
Atom Count: 3,693
Modeled Residue Count: 432
Deposited Residue Count: 449
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NS3 helicase	A	449	Zika virus	Mutation(s): 0
UniProt
Find proteins for A0A0X8GJ44 (Zika virus) Explore A0A0X8GJ44 Go to UniProtKB: A0A0X8GJ44
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0X8GJ44
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TRS Query on TRS Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₄ H₁₂ N O₃ LENZDBCJOHFCAS-UHFFFAOYSA-O		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
K Query on K Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.247 (Depositor), 0.269 (DCC)
R-Value Work: 0.184 (Depositor)
R-Value Observed: 0.187 (Depositor)

Diffraction Data:

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.639	α = 90
b = 69.855	β = 93.41
c = 58.461	γ = 90

Software Package:

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

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2016-12-14

Deposition Author(s):

Cardona-Correa, A.A.

Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History (Full details and data files)

Version 1.0: 2016-12-14
Type: Initial release
Version 1.1: 2023-10-04
Changes: Data collection, Database references, Refinement description

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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.