4WXP | pdb_00004wxp

X-ray crystal structure of NS3 Helicase from HCV with a bound fragment inhibitor at 2.08 A resolution

PDB DOI: https://doi.org/10.2210/pdb4WXP/pdb

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

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

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.08 Å
R-Value Free:
0.232 (Depositor), 0.237 (DCC)
R-Value Work:
0.180 (Depositor), 0.188 (DCC)
R-Value Observed:
0.183 (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 fragment 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: 48.55 kDa
Atom Count: 3,436
Modeled Residue Count: 445
Deposited Residue Count: 451
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NS3-4 protease	A	451	Orthohepacivirus hominis	Mutation(s): 0
UniProt
Find proteins for P26663 (Hepatitis C virus genotype 1b (isolate BK)) Explore P26663 Go to UniProtKB: P26663
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26663
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
3VY Query on 3VY 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]	(1-methyl-1H-indol-3-yl)acetic acid C₁₁ H₁₁ N O₂ NAIPEFIYIQFVFC-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.08 Å
R-Value Free: 0.232 (Depositor), 0.237 (DCC)
R-Value Work: 0.180 (Depositor), 0.188 (DCC)
R-Value Observed: 0.183 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.444	α = 90
b = 92.444	β = 90
c = 104.133	γ = 120

Software Package:

Software Name	Purpose
MOLREP	phasing
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2015-12-23

Deposition Author(s):

Davies, D.R.

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

4WXP | pdb_00004wxp

X-ray crystal structure of NS3 Helicase from HCV with a bound fragment inhibitor at 2.08 A resolution

Literature

crystal structure of NS3 Helicase from HCV with a bound fragment inhibitor

Biological Assembly 1

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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