7E1K

Crystal structure of Pr55Gag-matrix domain in complex with IP6 in space group R32

• PDB DOI: https://doi.org/10.2210/pdb7E1K/pdb

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


• Deposited: 2021-02-01 Released: 2021-08-04 
• Deposition Author(s): DeMirci, H., Senda, T., Destan, E.
• Funding Organization(s): National Science Foundation (NSF, United States), Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.276 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 

Literature

Crystal structure of Pr55Gag-matrix domain in complex with IP6 in space group R32

DeMirci, H., Senda, T., Destan, E.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: native gel electrophoresis

Macromolecule Content

• Total Structure Weight: 28.72 kDa 
• Atom Count: 2,125 
• Modelled Residue Count: 242 
• Deposited Residue Count: 244 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein p24	A, B	122	Human immunodeficiency virus 1	Mutation(s): 0  Gene Names: gag
UniProt
Find proteins for T2CJ20 (Human immunodeficiency virus 1) Explore T2CJ20  Go to UniProtKB:  T2CJ20

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IHP (Subject of Investigation/LOI)	C [auth A], D [auth B]	INOSITOL HEXAKISPHOSPHATE C6 H18 O24 P6 IMQLKJBTEOYOSI-GPIVLXJGSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.276 
• R-Value Work: 0.220 
• R-Value Observed: 0.223 
• Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.828	α = 90
b = 97.828	β = 90
c = 176.297	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-08-04 
Deposition Author(s): DeMirci, H., Senda, T., Destan, E.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	NSF-1231306
Other government	Turkey	118C270

Revision History  

• Version 1.0: 2021-08-04
  Type: Initial release
  
• Version 1.1: 2024-03-27
  Changes: Data collection, Database references