Macromolecule Content

Total Structure Weight: 36.23 kDa
Atom Count: 2533
Residue Count: 316
Unique protein chains: 1

7CJM

SARS CoV-2 PLpro in complex with GRL0617

DOI: 10.2210/pdb7CJM/pdb

Classification: HYDROLASE
Organism(s): Severe acute respiratory syndrome coronavirus 2
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2020-07-11 Released: 2020-09-02
Deposition Author(s): Fu, Z., Huang, H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.20 Å
R-Value Free: 0.286
R-Value Work: 0.268
R-Value Observed: 0.269

wwPDB Validation 3D Report Full Report

Literature

SARS CoV-2 PLpro in complex with 6-thioguanine

Fu, Z., Huang, H.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural protein 3	B	316	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 1 Gene Names: rep, 1a-1b EC: 3.4.19.12 (PDB Primary Data), 3.4.22 (PDB Primary Data), 3.4.22.69 (UniProt), 2.7.7.48 (UniProt), 3.6.4.12 (UniProt), 3.6.4.13 (UniProt), 3.1.13 (UniProt), 3.1 (UniProt), 2.1.1 (UniProt)
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1 Go to UniProtKB: P0DTD1
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TTT Query on TTT Download Ideal Coordinates CCD File SDF format, chain B [B] MOL2 format, chain B [B]	B	5-amino-2-methyl-N-[(1R)-1-naphthalen-1-ylethyl]benzamide C₂₀ H₂₀ N₂ O UVERBUNNCOKGNZ-CQSZACIVSA-N		Ligand Interaction
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain C [B] SDF format, chain D [B] SDF format, chain E [B] MOL2 format, chain C [B] MOL2 format, chain D [B] MOL2 format, chain E [B]	B	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.20 Å
R-Value Free: 0.286
R-Value Work: 0.268
R-Value Observed: 0.269
Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.294	α = 90
b = 112.294	β = 90
c = 220.379	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Deposited Date: 2020-07-11
Released Date: 2020-09-02

Deposition Author(s):

Revision History

Version 1.0: 2020-09-02
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.