7YC2

Crystal structure of auxiliary protein in complex with human protein

• PDB DOI: https://doi.org/10.2210/pdb7YC2/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Homo sapiens, Severe acute respiratory syndrome coronavirus 2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-06-30 Released: 2023-12-06 
• Deposition Author(s): Gao, X., Cui, S.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.262 
• R-Value Work: 0.250 
• R-Value Observed: 0.250 

Literature

SARS-CoV-2 ORF10 hijacking ubiquitination machinery reveals potential unique drug targeting sites

Zhu, K., Song, L., Wang, L., Hua, L., Luo, Z., Wang, T., Qin, B., Yuan, S., Gao, X., Mi, W., Cui, S.

(2024) Acta Pharm Sin B 

• DOI: https://doi.org/10.1016/j.apsb.2024.05.018

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 113.35 kDa 
• Atom Count: 7,885 
• Modelled Residue Count: 979 
• Deposited Residue Count: 988 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein zyg-11 homolog B	A, B, C, D	240	Homo sapiens	Mutation(s): 0  Gene Names: ZYG11B
UniProt & NIH Common Fund Data Resources
Find proteins for Q9C0D3 (Homo sapiens) Explore Q9C0D3  Go to UniProtKB:  Q9C0D3
PHAROS:  Q9C0D3 GTEx:  ENSG00000162378

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ORF	E, F, G, H	7	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0
UniProt
Find proteins for A0A663DJA2 (Severe acute respiratory syndrome coronavirus 2) Explore A0A663DJA2  Go to UniProtKB:  A0A663DJA2

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.262 
• R-Value Work: 0.250 
• R-Value Observed: 0.250 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.3	α = 90
b = 72.8	β = 113.4
c = 127.5	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-12-06 
Deposition Author(s): Gao, X., Cui, S.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-12-06
  Type: Initial release
  
• Version 1.1: 2024-06-19
  Changes: Database references