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
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

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.

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

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(by identity cutoff) | 3D Structure

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
Sequence Annotations Expand
Reference Sequence

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(by identity cutoff) | 3D Structure

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 Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

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)) Go to UniProtKB: P12489
Sequence Annotations Expand
Reference Sequence

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

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Entry History & Funding Information

Deposition Data

Released Date: 2024-07-10

Deposition Author(s):

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

Revision History (Full details and data files)

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.