7VIB | pdb_00007vib

Crystal structure of human ACE2 and GX/P2V RBD

• PDB DOI: https://doi.org/10.2210/pdb7VIB/pdb

• Classification: VIRAL PROTEIN,HYDROLASE
• Organism(s): Homo sapiens, Pangolin coronavirus
• Expression System: unidentified baculovirus
• Mutation(s): Yes 


• Deposited: 2021-09-26 Released: 2022-10-05 
• Deposition Author(s): Guo, Y., Cao, W., Jia, N., Wang, W., Yuan, S., Wang, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.258 (Depositor), 0.257 (DCC) 
• R-Value Work: 
  0.204 (Depositor), 0.209 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of human ACE2 and GX/P2V RBD

Guo, Y., Cao, W., Jia, N., Wang, W., Yuan, S., Wang, Y.

To be published.

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)

Macromolecule Content 

• Total Structure Weight: 181.84 kDa 
• Atom Count: 12,701 
• Modeled Residue Count: 1,566 
• Deposited Residue Count: 1,582 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Angiotensin-converting enzyme 2	A, C	597	Homo sapiens	Mutation(s): 0  Gene Names: ACE2, UNQ868/PRO1885 EC: 3.4.17.23 (PDB Primary Data), 3.4.17 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BYF1 (Homo sapiens) Explore Q9BYF1  Go to UniProtKB:  Q9BYF1
PHAROS:  Q9BYF1 GTEx:  ENSG00000130234

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein	B, D	194	Pangolin coronavirus	Mutation(s): 1
UniProt
Find proteins for A0ACD6BAD3 (Pangolin coronavirus) Explore A0ACD6BAD3  Go to UniProtKB:  A0ACD6BAD3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	E [auth A], F [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.258 (Depositor), 0.257 (DCC) 
• R-Value Work:  0.204 (Depositor), 0.209 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.672	α = 90
b = 120.15	β = 96.61
c = 107.885	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-10-05 
Deposition Author(s): Guo, Y., Cao, W., Jia, N., Wang, W., Yuan, S., Wang, Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31670731
National Natural Science Foundation of China (NSFC)	China	31870733

Revision History  

• Version 1.0: 2022-10-05
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description
• Version 1.2: 2024-10-09
  Changes: Structure summary