4QF0

Structure of a 16 nm protein cage designed by fusing symmetric oligomeric domains, quadruple mutant, P21212 form

PDB DOI: https://doi.org/10.2210/pdb4QF0/pdb

Classification: OXIDOREDUCTASE, VIRAL PROTEIN
Organism(s): Kitasatospora aureofaciens, Influenza A virus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2014-05-19 Released: 2015-05-20
Deposition Author(s): Lai, Y.-T., Yeates, T.O.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 6.49 Å
R-Value Free: 0.324
R-Value Work: 0.271
R-Value Observed: 0.274

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structural transition of a protein nanocage as a function of pH and salt concentration.

Lai, Y.-T., Yeates, T.O.

To be published.

Macromolecule Content

Total Structure Weight: 301.14 kDa
Atom Count: 20,256
Modelled Residue Count: 2,646
Deposited Residue Count: 2,736
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-haem bromoperoxidase BPO-A2, Matrix protein 1 chimera	A, B, C, D, E A, B, C, D, E, F	456	Kitasatospora aureofaciens, Influenza A virus This entity is chimeric	Mutation(s): 3 Gene Names: bpoA2, M EC: 1.11.1
UniProt
Find proteins for P29715 (Kitasatospora aureofaciens) Explore P29715 Go to UniProtKB: P29715
Find proteins for P03485 (Influenza A virus (strain A/Puerto Rico/8/1934 H1N1)) Explore P03485 Go to UniProtKB: P03485
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Groups	P29715P03485
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 6.49 Å
R-Value Free: 0.324
R-Value Work: 0.271
R-Value Observed: 0.274
Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 175.5	α = 90
b = 147.73	β = 90
c = 167.63	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2015-05-20

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-05-20
Type: Initial release
Version 1.1: 2017-07-26
Changes: Refinement description, Source and taxonomy
Version 1.2: 2024-02-28
Changes: Data collection, Database references, 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 R01GM157729.