6OGV

X-ray crystal structure of darunavir-resistant HIV-1 protease (P30) in apo state

PDB DOI: https://doi.org/10.2210/pdb6OGV/pdb

Classification: VIRAL PROTEIN/INHIBITOR
Organism(s): Human immunodeficiency virus 1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-04-03 Released: 2020-04-08
Deposition Author(s): Bulut, H., Hattori, S.I., Aoki-Ogata, H., Hayashi, H., Aoki, M., Ghosh, A.K., Mitsuya, H.
Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.57 Å
R-Value Work: 0.247
R-Value Observed: 0.247

wwPDB Validation 3D Report Full Report

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

Literature

Novel HIV-1 protease inhibitors, GRL-142 and its analogs, markedly adapt to the structural plasticity of HIV-1 protease and exerts extreme potency with high genetic barrier

Bulut, H., Hattori, S.I., Aoki-Ogata, H., Hayashi, H., Aoki, M., Ghosh, A.K., Mitsuya, H.

To be published.

Macromolecule Content

Total Structure Weight: 10.78 kDa
Atom Count: 784
Modelled Residue Count: 99
Deposited Residue Count: 99
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protease	A	99	Human immunodeficiency virus 1	Mutation(s): 0 Gene Names: pol
UniProt
Find proteins for O38885 (Human immunodeficiency virus 1) Explore O38885 Go to UniProtKB: O38885
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O38885
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.57 Å
R-Value Work: 0.247
R-Value Observed: 0.247
Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.621	α = 90
b = 46.621	β = 90
c = 100.67	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2020-04-08

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	--

Revision History (Full details and data files)

Version 1.0: 2020-04-08
Type: Initial release
Version 1.1: 2023-10-11
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.