9MET | pdb_00009met

CXCR4-HIV-2/gp120-CD4

• PDB DOI: https://doi.org/10.2210/pdb9MET/pdb
• EM Map EMD-48219: EMDB EMDataResource

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Virus-associated RNAs
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-12-08 Released: 2025-09-10 
• Deposition Author(s): Zhang, Z., Patel, D.J.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 5.65 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of CXCR4-HIV-2/gp120-CD4 complex.

Zhang, Z., Patel, D.J.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 8-mer - A4B2C2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 312.8 kDa 
• Atom Count: 19,078 
• Modeled Residue Count: 2,370 
• Deposited Residue Count: 2,750 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C-X-C chemokine receptor type 4	A [auth M], B [auth N], C [auth O], D [auth S]	360	Homo sapiens	Mutation(s): 0  Gene Names: CXCR4
UniProt & NIH Common Fund Data Resources
Find proteins for P61073 (Homo sapiens) Explore P61073  Go to UniProtKB:  P61073
PHAROS:  P61073 GTEx:  ENSG00000121966

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
T-cell surface glycoprotein CD4	E [auth R], G [auth A]	176	Homo sapiens	Mutation(s): 0  Gene Names: CD4
UniProt & NIH Common Fund Data Resources
Find proteins for P01730 (Homo sapiens) Explore P01730  Go to UniProtKB:  P01730
PHAROS:  P01730 GTEx:  ENSG00000010610

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
HIV-1/gp120	F [auth T], H [auth Q]	479	Virus-associated RNAs	Mutation(s): 0
UniProt
Find proteins for P05883 (Human immunodeficiency virus type 2 subtype A (isolate NIH-Z)) Explore P05883  Go to UniProtKB:  P05883

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 5.65 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-10 
Deposition Author(s): Zhang, Z., Patel, D.J.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	P30CA008748

Revision History  

• Version 1.0: 2025-09-10
  Type: Initial release