9EQW | pdb_00009eqw

Human Picobirnavirus CP Reassembled VLP

PDB DOI: https://doi.org/10.2210/pdb9EQW/pdb
EM Map EMD-19908: EMDB EMDataResource

Classification: VIRUS LIKE PARTICLE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-03-22 Released: 2025-04-02
Deposition Author(s): Rodriguez-Espinosa, M.J., Novoa, G., Martinez-Romero, J.M., de Pablo, P.J., Caston, J.R.
Funding Organization(s): Spanish Ministry of Science, Innovation, and Universities

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.25 Å
Aggregation State: 3D ARRAY
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Human Picobirnavirus CP Reassembled VLP

Rodriguez-Espinosa, M.J., Novoa, G., Martinez-Romero, J.M., de Pablo, P.J., Caston, J.R.

To be published.

Macromolecule Content

Total Structure Weight: 112.45 kDa
Atom Count: 7,904
Modeled Residue Count: 1,000
Deposited Residue Count: 1,002
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein precursor	A, B	501	Homo sapiens	Mutation(s): 0 Gene Names: Segment-1, ORF2
UniProt
Find proteins for Q50LE5 (Human picobirnavirus (strain Human/Thailand/Hy005102/-)) Explore Q50LE5 Go to UniProtKB: Q50LE5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q50LE5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.25 Å
Aggregation State: 3D ARRAY
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-04-02

Deposition Author(s):

Rodriguez-Espinosa, M.J.

Martinez-Romero, J.M.

Funding Organization	Location	Grant Number
Spanish Ministry of Science, Innovation, and Universities	Spain	PID2020-113287RB-I00

Revision History (Full details and data files)

Version 1.0: 2025-04-02
Type: Initial release
Version 1.1: 2025-07-02
Changes: Data collection

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.