6J5E | pdb_00006j5e

Crystal structure of HIV-1 fusion inhibitor SC29EK complexed with gp41 NHR (N44)

• PDB DOI: https://doi.org/10.2210/pdb6J5E/pdb

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


• Deposited: 2019-01-10 Released: 2020-01-15 
• Deposition Author(s): Liu, Z.X., Geng, X.Z., Qin, B., Cui, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.33 Å
• R-Value Free: 
  0.286 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.233 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.236 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of HIV-1 fusion inhibitor SC29EK complexed with gp41 NHR (N44)

Liu, Z.X., Geng, X.Z., Qin, B., Cui, S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: native gel electrophoresis

Macromolecule Content 

• Total Structure Weight: 26.43 kDa 
• Atom Count: 1,772 
• Modeled Residue Count: 208 
• Deposited Residue Count: 222 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein	A [auth G], C [auth I], E [auth K]	44	Human immunodeficiency virus 1	Mutation(s): 0
UniProt
Find proteins for P04578 (Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)) Explore P04578  Go to UniProtKB:  P04578

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
SC29EK	B [auth H], D [auth J], F [auth L]	30	Human immunodeficiency virus 1	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.33 Å
• R-Value Free:  0.286 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.233 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.236 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.5	α = 90
b = 39.86	β = 90
c = 171.503	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-01-15 
Deposition Author(s): Liu, Z.X., Geng, X.Z., Qin, B., Cui, S.

Revision History  

• Version 1.0: 2020-01-15
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-10-23
  Changes: Structure summary