6M1V

Crystal structure of post fusion core of 2019-nCoV S2 subunit

PDB DOI: https://doi.org/10.2210/pdb6M1V/pdb

Classification: VIRAL PROTEIN
Organism(s): Severe acute respiratory syndrome coronavirus 2
Expression System: Escherichia coli K-12
Mutation(s): No

Deposited: 2020-02-26 Released: 2020-06-03
Deposition Author(s): Sun, H., Song, H., Wang, Q.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.212
R-Value Work: 0.203
R-Value Observed: 0.204

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Structural basis of HCoV-19 fusion core and an effective inhibition peptide against virus entry.

Sun, H., Li, Y., Liu, P., Qiao, C., Wang, X., Wu, L., Liu, K., Hu, Y., Su, C., Tan, S., Zou, S., Wu, G., Yan, J., Gao, G.F., Qi, J., Wang, Q.

(2020) Emerg Microbes Infect 9: 1238-1241

PubMed: 32482145 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1080/22221751.2020.1770631
Primary Citation of Related Structures:
6M1V

Organizational Affiliation

CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences (CAS), Beijing, People's Republic of China.

Macromolecule Content

Total Structure Weight: 12.69 kDa
Atom Count: 823
Modelled Residue Count: 91
Deposited Residue Count: 119
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,Spike protein S2	A	119	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0 Gene Names: S, 2
UniProt
Find proteins for P0DTC2 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC2 Go to UniProtKB: P0DTC2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0DTC2
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.212
R-Value Work: 0.203
R-Value Observed: 0.204
Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.666	α = 90
b = 42.666	β = 90
c = 106.648	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2020-06-03

Deposition Author(s):

Sun, H.

Song, H.

Wang, Q.

Revision History (Full details and data files)

Version 1.0: 2020-06-03
Type: Initial release
Version 1.1: 2021-02-03
Changes: Advisory, Database references, Source and taxonomy, Structure summary
Version 1.2: 2023-11-29
Changes: Data collection, Database references, Refinement description