9Z5N | pdb_00009z5n

Cryo-EM structure of rabbit vault cap

PDB DOI: https://doi.org/10.2210/pdb9Z5N/pdb
EM Map EMD-73819: EMDB EMDataResource

Classification: STRUCTURAL PROTEIN
Organism(s): Oryctolagus cuniculus
Mutation(s): No

Deposited: 2025-11-12 Released: 2026-01-21
Deposition Author(s): Li, H., Clarke, O.B.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.25 Å
Aggregation State: TISSUE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

The vault particle is enclosed by a C13-symmetric cap with a positively charged exterior

Huan, L., Oliver, C.

To be published.

Macromolecule Content

Total Structure Weight: 577.16 kDa
Atom Count: 27,703
Modeled Residue Count: 3,653
Deposited Residue Count: 5,460
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major vault protein	A [auth B] AA [auth a] B [auth A] BA [auth b] C A [auth B], AA [auth a], B [auth A], BA [auth b], C, CA [auth c], D, DA [auth d], E, EA [auth e], F, FA [auth f], G, GA [auth g], H, HA [auth h], I, IA [auth i], J, JA [auth j], K, KA [auth k], L, LA [auth l], M, MA [auth m], N, O, P, Q, R, S, T, U, V, W, X, Y, Z	140	Oryctolagus cuniculus	Mutation(s): 0
UniProt
Find proteins for G1SVM1 (Oryctolagus cuniculus) Explore G1SVM1 Go to UniProtKB: G1SVM1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G1SVM1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.25 Å
Aggregation State: TISSUE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2026-01-21

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2026-01-21
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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.