Download MendeleyCrystal structure of SARS-CoV-2 (Covid-19) NSP3 macrodomain in complex with MES
Ni, X., Schroeder, M., Olieric, V., Sharpe, E.M., Wojdyla, J.A., Wang, M., Knapp, S., Chaikuad, A., Structural Genomics Consortium (SGC)To be published.
6YWM
Crystal structure of SARS-CoV-2 (Covid-19) NSP3 macrodomain in complex with MES
- DOI: 10.2210/pdb6YWM/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Severe acute respiratory syndrome coronavirus 2
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2020-04-29 Released: 2020-05-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.16 Å
- R-Value Free: 0.229
- R-Value Work: 0.175
- R-Value Observed: 0.178
wwPDB Validation 3D Report Full Report
This is version 1.0 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| NSP3 macrodomain | A, B, C | 173 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 0 Gene Names: rep, 1a-1b EC: 3.4.19.12 (PDB Primary Data), 3.4.22 (PDB Primary Data), 3.4.22.69 (PDB Primary Data), 2.7.7.48 (PDB Primary Data), 3.6.4.12 (PDB Primary Data), 3.6.4.13 (PDB Primary Data), 3.1.13 (PDB Primary Data), 3.1 (PDB Primary Data), 2.1.1 (PDB Primary Data) |  |
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1 Go to UniProtKB: P0DTD1 | |||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MES Query on MES | A, C | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N |  | Ligand Interaction | |
| EDO Query on EDO | A, B, C | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| MG Query on MG | B, C | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.16 Å
- R-Value Free: 0.229
- R-Value Work: 0.175
- R-Value Observed: 0.178
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 37.8 | α = 90 |
| b = 109.051 | β = 90 |
| c = 114.358 | γ = 90 |
| Software Name | Purpose |
|---|---|
| Aimless | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| MOLREP | phasing |
Entry History
Deposition Data
- Deposited Date: 2020-04-29
- Released Date: 2020-05-06 Deposition Author(s): Ni, X., Schroeder, M., Olieric, V., Sharpe, E.M., Wojdyla, J.A., Wang, M., Knapp, S., Chaikuad, A., Structural Genomics Consortium (SGC)
Revision History (Full details and data files)
- Version 1.0: 2020-05-06
Type: Initial release
