Macromolecule Content

Total Structure Weight: 18.82 kDa
Atom Count: 1406
Residue Count: 166
Unique protein chains: 1

7JME

Structure of the SARS-CoV-2 NSP3 Macro X domain in complex with cyclic AMP

DOI: 10.2210/pdb7JME/pdb

Classification: VIRAL PROTEIN/INHIBITOR
Organism(s): Severe acute respiratory syndrome coronavirus 2
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2020-07-31 Released: 2020-09-02
Deposition Author(s): Vuksanovic, N., Melkonian, T.R., Silvaggi, N.R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.182
R-Value Work: 0.157
R-Value Observed: 0.159

wwPDB Validation 3D Report Full Report

Literature

Structure of the SARS-CoV-2 NSP3 Macro X domain in complex with cyclic AMP

Vuksanovic, N., Melkonian, T.R., Silvaggi, N.R.

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	A	172	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0 Gene Names: rep, 1a-1b EC: 3.2.2 (PDB Primary Data), 3.4.19.12 (UniProt), 3.4.22 (UniProt), 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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CMP Query on CMP Download Ideal Coordinates CCD File SDF format, chain B [A] MOL2 format, chain B [A]	A	ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE C₁₀ H₁₂ N₅ O₆ P IVOMOUWHDPKRLL-KQYNXXCUSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.182
R-Value Work: 0.157
R-Value Observed: 0.159
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.21	α = 90
b = 33.036	β = 96.351
c = 60.476	γ = 90

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

Deposited Date: 2020-07-31
Released Date: 2020-09-02

Deposition Author(s):

Melkonian, T.R.

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.