7MYT

Crystal Structure of HPV L1-directed B25.M05 Fab

PDB DOI: https://doi.org/10.2210/pdb7MYT/pdb

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

Deposited: 2021-05-21 Released: 2022-11-09
Deposition Author(s): Singh, S., Pancera, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.223
R-Value Work: 0.173
R-Value Observed: 0.175

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

Structural Characterization of Immune Responses to HPV vaccination

Singh, S., Pancera, M., Rodarte, J., Carter, J.

To be published.

Macromolecule Content

Total Structure Weight: 110.41 kDa
Atom Count: 6,812
Modelled Residue Count: 872
Deposited Residue Count: 1,018
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
B25.M05 Fab Heavy Chain	A, C [auth H]	274	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
B25.M05 Fab Light Chain	B, D [auth L]	235	Homo sapiens	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: 2.10 Å
R-Value Free: 0.223
R-Value Work: 0.173
R-Value Observed: 0.175
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.949	α = 94.406
b = 64.475	β = 97.125
c = 72.792	γ = 93.311

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2022-11-09

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2022-11-09
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Refinement description

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.