MolNFT v1 · #126223 · protein
Thermolysin in complex with inhibitor (JC96)
5LWD: “Thermolysin in complex with inhibitor (JC96)”. X-ray diffraction, 3 ligands (79E, CA, ZN), 1 pocket (best druggability 0.50). MolNFT v1 #126223 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LWD
- Type
- protein
- Length
- 316 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Thermolysin
- EC
- 3.4.24.27
- UniProt
- P00800
- Ligands
- 79E, CA, ZN
- Pockets
- 1 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Thermolysin (EC 3.4.24.27) | protein | 316 | 41% helix, 18% strand | P00800 |
Ligands and binding sites
- 79E · JC96 · ligand · chains E
- CA · Calcium ion · metal · 4 copies · chains E
- ZN · Zinc ion · metal · chains E
- DMS · Dimethyl sulfoxide · additive · 3 copies · chains E
- GOL · Glycerol · additive · 2 copies · chains E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 140 | 0.50 | 0.79 | 23 | GOL, 79E |
Compared structures
- 5LWD · Thermolysin in complex with inhibitor (JC96) · the same entry in another collection · chain E against E, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P00800
- Elsewhere: RCSB PDB 5LWD · PDBe 5LWD · UniProt P00800
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