Download MendeleyFragment screen against SARS-CoV-2 NSP macrodomain
Correy, G.J., Fraser, J.S.To be published.
5RVD
Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with ZINC000263980802
- DOI: 10.2210/pdb5RVD/pdb
- Deposition Group: G_1002171 ()
- Classification: VIRAL PROTEIN, HYDROLASE
- Organism(s): Severe acute respiratory syndrome coronavirus 2
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2020-09-28 Released: 2020-12-16
- Funding Organization(s): National Science Foundation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.00 Å
- R-Value Free: 0.198
- R-Value Work: 0.184
- R-Value Observed: 0.185
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Non-structural protein 3 | A, B | 169 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 0 Gene Names: rep, 1a-1b EC: 3.4.22 (PDB Primary Data), 3.4.19.12 (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 ViewExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| W7Y Query on W7Y | A | 4-[(2R)-2-cyclobutylpyrrolidin-1-yl]-7H-pyrrolo[2,3-d]pyrimidine C14 H18 N4 BDDRHCCHCFMOJZ-GFCCVEGCSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.00 Å
- R-Value Free: 0.198
- R-Value Work: 0.184
- R-Value Observed: 0.185
- Space Group: P 43
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 88.629 | α = 90 |
| b = 88.629 | β = 90 |
| c = 39.243 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Deposited Date: 2020-09-28
- Released Date: 2020-12-16 Deposition Author(s): Correy, G.J., Young, I.D., Thompson, M.C., Fraser, J.S.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Science Foundation | United States | 2031205 |
