8TDX

TRNM-b.01 in complex with HIV Env fusion peptide

• PDB DOI: https://doi.org/10.2210/pdb8TDX/pdb

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


• Deposited: 2023-07-05 Released: 2024-07-10 
• Deposition Author(s): Olia, A.S., Kwong, P.D.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.240 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 

Starting Model: in silico

Literature

Broad and potent HIV-1 neutralization in fusion peptide-primed SHIV-boosted macaques

Wang, H., Olia, A.S., Kwong, P.D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 97.24 kDa 
• Atom Count: 7,500 
• Modelled Residue Count: 886 
• Deposited Residue Count: 896 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRNM-b.01 Fab Heavy Chain	A, D [auth B]	227	Macaca mulatta	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
TRNM-b.01 Fab Light Chain	B [auth C], C [auth D]	213	Macaca mulatta	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Env Fusion Peptide	E [auth F], F [auth E]	8	Human immunodeficiency virus 1	Mutation(s): 0
UniProt
Find proteins for P12489 (Human immunodeficiency virus type 1 group M subtype B (isolate JH32)) Explore P12489  Go to UniProtKB:  P12489

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.240 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.464	α = 90
b = 88.926	β = 90
c = 129.108	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SERGUI	data collection
HKL-2000	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-10 
Deposition Author(s): Olia, A.S., Kwong, P.D.

---

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

Revision History  

• Version 1.0: 2024-07-10
  Type: Initial release