MolNFT v1 · #108852 · protein
Crystal structure of human adamts-4 in complex with inhibitor (compound 1, 2-(4-chlorophenoxy)-N-{[(4R)-4-methyl-2,5- dioxoimidazolidin-4-YL]METHYL} acetamide)
4WK7 · A disintegrin and metalloproteinase with thrombospondin…: “Crystal structure of human adamts-4 in complex with inhibitor (compound 1…”. X-ray diffraction, 3 ligands (3PQ, CA, ZN), 2 pockets (best druggability 0.45). MolNFT v1…
- PDB
- 4WK7
- Type
- protein
- Length
- 209 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- A disintegrin and metalloproteinase with thrombospondin motifs 4
- EC
- 3.4.24.82
- UniProt
- O75173
- Ligands
- 3PQ, CA, ZN
- Pockets
- 2 · best druggability 0.45
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | A disintegrin and metalloproteinase with thrombospondin motifs 4 (EC 3.4.24.82) | protein | 209 | 35% helix, 16% strand | O75173 |
Ligands and binding sites
- 3PQ · 2-(4-chlorophenoxy)-N-{[(4R)-4-methyl-2,5-dioxoimidazolidin-4-yl]methyl}acetamide · ligand · chains A
- CA · Calcium ion · metal · 3 copies · chains A
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 92 | 0.45 | 0.80 | 20 | ZN, 3PQ |
| 2 | 62 | 0.33 | 0.76 | 13 | empty |
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4WK7 · Crystal structure of human ADAMTS-4 in complex with inhibitor (compound 1… · the same entry in another collection · chain A against A, TM-score 1.00
- O75173 · AlphaFold monomer V2.0 prediction for a disintegrin and metalloproteinase with… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 O75173
- Elsewhere: RCSB PDB 4WK7 · PDBe 4WK7 · UniProt O75173
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