8VBR

Structure of bovine anti-HIV Fab ElsE11

PDB DOI: https://doi.org/10.2210/pdb8VBR/pdb

Classification: IMMUNE SYSTEM
Organism(s): Bos taurus
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2023-12-12 Released: 2024-09-04
Deposition Author(s): Stanfield, R.L., Wilson, I.A.
Funding Organization(s): Bill & Melinda Gates Foundation

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free: 0.260
R-Value Work: 0.247
R-Value Observed: 0.330

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Immunization of cows with HIV envelope trimers generates broadly neutralizing antibodies to the V2-apex from the ultra-long CDRH3 repertoire

Altman, P., Ozorowski, G., Stanfield, R.L., Haakenson, J., Appel, M., Parren, M., Lee, W.-H., Woehl, J., Saye-Francisco, K., Joyce, C., Song, G., Porter, K., Landais, E., Andrabi, R., Wilson, I.A., Ward, A.B., Mwangi, W., Smider, V.V., Burton, D.R., Sok, D.

To be published.

Macromolecule Content

Total Structure Weight: 100.89 kDa
Atom Count: 7,026
Modelled Residue Count: 956
Deposited Residue Count: 962
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bovine Fab ElsE11 light chain	A [auth L], C [auth A]	216	Bos taurus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Bovine Fab Else11 heavy chain	B [auth H], D [auth B]	265	Bos taurus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free: 0.260
R-Value Work: 0.247
R-Value Observed: 0.330
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.053	α = 90
b = 70.187	β = 90
c = 241.825	γ = 90

Software Package:

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

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2024-09-04

Deposition Author(s):

Stanfield, R.L.

Funding Organization	Location	Grant Number
Bill & Melinda Gates Foundation	United States	INV-034657

Revision History (Full details and data files)

Version 1.0: 2024-09-04
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 R01GM133198.