Download MendeleyN-Hydroxypyridone-based glyoxalase I inhibitors mimicking binding interactions of the substrate
Koyano, H., Aoki, T., Yamamoto, S., Kobayashi, T., Miura, T., Ohara, K., Fukami, T.A., Irie, M., Sakamoto, H.To be published.
3W0T
Human Glyoxalase I with an N-hydroxypyridone derivative inhibitor
- PDB DOI: https://doi.org/10.2210/pdb3W0T/pdb
- Classification: LYASE/LYASE INHIBITOR
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-11-02 Released: 2013-11-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.35 Å
- R-Value Free: 0.197
- R-Value Work: 0.175
- R-Value Observed: 0.176
Starting Model: experimental
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This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Lactoylglutathione lyase | 187 | Homo sapiens | Mutation(s): 0 Gene Names: GLO1 EC: 4.4.1.5 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q04760 (Homo sapiens) Explore Q04760 Go to UniProtKB: Q04760 | |||||
PHAROS: Q04760 GTEx: ENSG00000124767 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q04760 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HPU Query on HPU | F [auth A], J [auth B], L [auth C], O [auth D] | N-[3-(1-hydroxy-6-oxo-4-phenyl-1,6-dihydropyridin-2-yl)phenyl]methanesulfonamide C18 H16 N2 O4 S MDYXMYBWSBAIMZ-UHFFFAOYSA-N |  | ||
| EPE Query on EPE | H [auth B], I [auth B], N [auth D] | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N |  | ||
| ZN Query on ZN | E [auth A], G [auth B], K [auth C], M [auth D] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.35 Å
- R-Value Free: 0.197
- R-Value Work: 0.175
- R-Value Observed: 0.176
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 66.57 | α = 90 |
| b = 81.03 | β = 90.13 |
| c = 68.62 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SCALA | data scaling |
| PHASER | phasing |
| BUSTER-TNT | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| BUSTER | refinement |
Entry History
Deposition Data
- Released Date: 2013-11-06 Deposition Author(s): Fukami, T.A., Irie, M., Matsuura, T.
Revision History (Full details and data files)
- Version 1.0: 2013-11-06
Type: Initial release - Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, Refinement description
