4WXR

X-ray crystal structure of NS3 Helicase from HCV with a bound inhibitor at 2.42 A resolution

PDB DOI: https://doi.org/10.2210/pdb4WXR/pdb

Classification: HYDROLASE/HYDROLASE INHIBITOR
Organism(s): Hepacivirus hominis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-11-14 Released: 2015-12-23
Deposition Author(s): Davies, D.R., Kim, H., Lorimer, D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.42 Å
R-Value Free:
0.310 (Depositor), 0.310 (DCC)
R-Value Work:
0.239 (Depositor), 0.240 (DCC)
R-Value Observed:
0.243 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

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

Literature

crystal structure of NS3 Helicase from HCV with a bound inhibitor

Buckman, B.O., Kossen, K., Misialek, S., Stevens, S., Rajagopalan, R., Ruhmund, D., Hooi, L., Snarskaya, N., Serebryany, V., Wang, G., Stoycheva, A., Nicholas, J.B., Davies, D.R., Brunton, S., Montalbetti, C., Weddell, D., Goodwin, C., Schonfeld, D., Mather, O., Cheng, R., Blatt, L., Beigelman, L.

To be published.

Macromolecule Content

Total Structure Weight: 97.43 kDa
Atom Count: 6,750
Modelled Residue Count: 865
Deposited Residue Count: 902
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NS3	A, B	451	Hepacivirus hominis	Mutation(s): 0
UniProt
Find proteins for A1Z092 (Hepacivirus hominis) Explore A1Z092 Go to UniProtKB: A1Z092
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A1Z092
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
3VZ Query on 3VZ Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth B]	C [auth A], D [auth B]	{6-(3,5-diaminophenyl)-1-[4-(propan-2-yl)benzyl]-1H-indol-3-yl}acetic acid C₂₆ H₂₇ N₃ O₂ VQXYFFBYBKESTK-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.42 Å
R-Value Free: 0.310 (Depositor), 0.310 (DCC)
R-Value Work: 0.239 (Depositor), 0.240 (DCC)
R-Value Observed: 0.243 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.074	α = 90
b = 112.776	β = 126.52
c = 99.592	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2015-12-23

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-12-23
Type: Initial release
Version 1.1: 2023-09-27
Changes: Data collection, Database references, Derived calculations, Refinement description

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.