1ZP8 | pdb_00001zp8

HIV Protease with inhibitor AB-2

PDB DOI: https://doi.org/10.2210/pdb1ZP8/pdb

Classification: HYDROLASE
Organism(s): Human immunodeficiency virus 1
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2005-05-16 Released: 2005-06-21
Deposition Author(s): Brik, A., Alexandratos, J.N., Elder, J.H., Olson, A.J., Wlodawer, A., Goodsell, D.S., Wong, C.H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.02 Å
R-Value Free:
0.326 (Depositor)
R-Value Work:
0.197 (Depositor), 0.194 (DCC)
R-Value Observed:
0.197 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.3 of the entry. See complete history.

Literature

1,2,3-triazole as a peptide surrogate in the rapid synthesis of HIV-1 protease inhibitors.

Brik, A., Alexandratos, J., Lin, Y.C., Elder, J.H., Olson, A.J., Wlodawer, A., Goodsell, D.S., Wong, C.H.

(2005) Chembiochem 6: 1167-1169

PubMed: 15934050 Search on PubMed
DOI: https://doi.org/10.1002/cbic.200500101
Primary Citation Related Structures:
1ZP8, 1ZPA

Organizational Affiliation

Department of Chemistry and the Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.

Macromolecule Content

Total Structure Weight: 11.47 kDa
Atom Count: 892
Modeled Residue Count: 99
Deposited Residue Count: 99
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pol polyprotein	A	99	Human immunodeficiency virus 1	Mutation(s): 1 EC: 3.4.23.16
UniProt
Find proteins for P03366 (Human immunodeficiency virus type 1 group M subtype B (isolate BH10)) Explore P03366 Go to UniProtKB: P03366
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P03366
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AB2 Query on AB2 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]	[1-((1S,2R)-1-BENZYL-2-HYDROXY-3-{ISOBUTYL[(4-METHOXYPHENYL)SULFONYL]AMINO}PROPYL)-1H-1,2,3-TRIAZOL-4-YL]METHYL (1R,2R)-2-HYDROXY-2,3-DIHYDRO-1H-INDEN-1-YLCARBAMATE C₃₄ H₄₁ N₅ O₇ S MEWAZRJLRMEJDV-LDLFXXLYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.02 Å
R-Value Free: 0.326 (Depositor)
R-Value Work: 0.197 (Depositor), 0.194 (DCC)
R-Value Observed: 0.197 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.1	α = 90
b = 63.1	β = 90
c = 82.1	γ = 120

Software Package:

Software Name	Purpose
SHELX	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
SHELXL-97	refinement

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2005-06-21

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-06-21
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance
Version 1.3: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description