9NW9 | pdb_00009nw9

CA117v2v8 Fab bound to HLA-E-RL9HIV

• PDB DOI: https://doi.org/10.2210/pdb9NW9/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Human immunodeficiency virus 1
• Expression System: Escherichia coli, Homo sapiens
• Mutation(s): No 


• Deposited: 2025-03-21 Released: 2026-03-25 
• Deposition Author(s): Wrapp, D., Hwang, J.K., Marston, D.J., Haynes, B.F., Azoitei, M.L.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.239 (Depositor), 0.242 (DCC) 
• R-Value Work: 
  0.191 (Depositor), 0.194 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: experimental

Literature

HLA-E-VL9 antibodies mediate NKG2A+ NK cell and CD8+ T cell killing of HIV-infected CD4+ T cells

Hwang, J.K., Marston, D.J., Tuyishime, M., Yang, H., Wrapp, D., Li, D., Brackenridge, S., Frazier, M., Rhodes, B., Harris, C., Quastel, M., Kapingidza, A.B., Gater, J., Borrow, P., Gillespie, G.M., Ferrari, G., McMichael, A.J., Haynes, B.F., Azoitei, M.L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A2B1C1D1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 92.58 kDa 
• Atom Count: 6,516 
• Modeled Residue Count: 818 
• Deposited Residue Count: 834 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HLA class I histocompatibility antigen, alpha chain E	A	275	Homo sapiens	Mutation(s): 0  Gene Names: HLA-E, HLA-6.2, HLAE
UniProt & NIH Common Fund Data Resources
Find proteins for P13747 (Homo sapiens) Explore P13747  Go to UniProtKB:  P13747
PHAROS:  P13747 GTEx:  ENSG00000204592

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	B	100	Homo sapiens	Mutation(s): 0  Gene Names: B2M, CDABP0092, HDCMA22P
UniProt & NIH Common Fund Data Resources
Find proteins for P61769 (Homo sapiens) Explore P61769  Go to UniProtKB:  P61769
PHAROS:  P61769 GTEx:  ENSG00000166710

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CA117v2v8 heavy chain	C [auth H]	233	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
CA117v2v8 light chain	D [auth L]	217	Homo sapiens	Mutation(s): 0

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
RL9HIV peptide	E [auth P]	9	Human immunodeficiency virus 1	Mutation(s): 0
UniProt
Find proteins for P03366 (Human immunodeficiency virus type 1 group M subtype B (isolate BH10)) Explore P03366  Go to UniProtKB:  P03366

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.239 (Depositor), 0.242 (DCC) 
• R-Value Work:  0.191 (Depositor), 0.194 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.54	α = 90
b = 72.52	β = 100.79
c = 122.35	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-03-25 
Deposition Author(s): Wrapp, D., Hwang, J.K., Marston, D.J., Haynes, B.F., Azoitei, M.L.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	UM1AI164567

Revision History  

• Version 1.0: 2026-03-25
  Type: Initial release