8X5O | pdb_00008x5o

Crystal structure of the post-fusion core of MjHKUr-CoV spike protein.

PDB DOI: https://doi.org/10.2210/pdb8X5O/pdb

Classification: VIRAL PROTEIN
Organism(s): Coronavirus HKU15
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-11-17 Released: 2025-05-21
Deposition Author(s): Zhu, Y., Yang, X., Sun, F.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.67 Å
R-Value Free:
0.291 (Depositor), 0.290 (DCC)
R-Value Work:
0.241 (Depositor), 0.241 (DCC)
R-Value Observed:
0.243 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Fusion mechanism of MjHKUr-CoV spike and its entry inhibitor

Zhu, Y., Sun, F., Lu, L.

To be published.

Macromolecule Content

Total Structure Weight: 40.22 kDa
Atom Count: 2,612
Modeled Residue Count: 329
Deposited Residue Count: 378
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
spike protein S2	A, B, C	126	Coronavirus HKU15	Mutation(s): 0 Gene Names: S
UniProt
Find proteins for A3EX94 (Bat coronavirus HKU4) Explore A3EX94 Go to UniProtKB: A3EX94
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A3EX94
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.67 Å
R-Value Free: 0.291 (Depositor), 0.290 (DCC)
R-Value Work: 0.241 (Depositor), 0.241 (DCC)
R-Value Observed: 0.243 (Depositor)

Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 198.736	α = 90
b = 198.736	β = 90
c = 64.13	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2025-05-21

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-05-21
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.