8RZ1

Synthetic immunogen RH5-34EM bound to monoclonal antibody R5.034

PDB DOI: https://doi.org/10.2210/pdb8RZ1/pdb

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens, synthetic construct
Expression System: Homo sapiens, Escherichia coli
Mutation(s): No

Deposited: 2024-02-11 Released: 2024-07-17
Deposition Author(s): Farrell, B., Higgins, M.K.
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.218
R-Value Work: 0.198
R-Value Observed: 0.199

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

Synthetic immunogen RH5-34EM bound to monoclonal antibody R5.034

Farrell, B., Higgins, M.K.

To be published.

Macromolecule Content

Total Structure Weight: 88.19 kDa
Atom Count: 5,668
Modelled Residue Count: 667
Deposited Residue Count: 808
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
R5.034 scFv	A, C	285	Homo sapiens	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
RH5-34EM	B, D	119	synthetic construct	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: 1.75 Å
R-Value Free: 0.218
R-Value Work: 0.198
R-Value Observed: 0.199
Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 111.83	α = 90
b = 111.83	β = 90
c = 91.57	γ = 120

Software Package:

Software Name	Purpose
BUSTER	refinement
PDB_EXTRACT	data extraction
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-07-17

Deposition Author(s):

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	--

Revision History (Full details and data files)

Version 1.0: 2024-07-17
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.