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

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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:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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

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View more in-depth experimental data

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

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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.