Download MendeleySARS-CoV-2 Mpro in complex with D-5-96
Liu, M., Huang, H.To be published.
8JPQ
SARS-CoV-2 Mpro in complex with D-5-96
- PDB DOI: https://doi.org/10.2210/pdb8JPQ/pdb
- Classification: HYDROLASE
- Organism(s): Severe acute respiratory syndrome coronavirus 2
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2023-06-12 Released: 2023-08-23
- Funding Organization(s): Not funded
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.250
- R-Value Work: 0.199
- R-Value Observed: 0.202
This is version 1.0 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| ORF1a polyprotein | 302 | Severe acute respiratory syndrome coronavirus 2 | Mutation(s): 0 Gene Names: ORF1ab |  | |
UniProt | |||||
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1 Go to UniProtKB: P0DTD1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0DTD1 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| V3E Query on V3E | E [auth A] | methyl (2~{S})-2-azanyl-3-(2-hydroxyphenyl)propanoate C10 H13 N O3 RFUHEJIZWPQATB-QMMMGPOBSA-N |  | ||
| ILE Query on ILE | D [auth A] | ISOLEUCINE C6 H13 N O2 AGPKZVBTJJNPAG-WHFBIAKZSA-N |  | ||
| ALA Query on ALA | C [auth A] | ALANINE C3 H7 N O2 QNAYBMKLOCPYGJ-REOHCLBHSA-N |  | ||
| ACY Query on ACY | B [auth A] | ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.250
- R-Value Work: 0.199
- R-Value Observed: 0.202
- Space Group: I 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 45.508 | α = 90 |
| b = 53.876 | β = 101.3 |
| c = 114.113 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| SCALA | data scaling |
| MOLREP | phasing |
Entry History & Funding Information
Deposition Data
| Funding Organization | Location | Grant Number |
|---|---|---|
| Not funded | -- |
Revision History (Full details and data files)
- Version 1.0: 2023-08-23
Type: Initial release
