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Crystal structure and binding epitopes of urokinase-type plasminogen activator (C122A/N145Q/S195A) in complex with inhibitors
Analyse Crystal structure and binding epitopes of urokinase-type plasminogen activator… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2O8U
- Type
- protein
- Length
- 238 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Urokinase plasminogen activator
- EC
- 3.4.21.73
- UniProt
- Q5PY49
- Ligands
- BEN, SO4
- Pockets
- 1 · best druggability 0.41
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Urokinase plasminogen activator (EC 3.4.21.73) | protein | 238 | 11% helix, 40% strand | Q5PY49 |
Ligands and binding sites
- BEN · Benzamidine · ligand · 2 copies · chains A
- SO4 · Sulfate ion · ion · chains A
- PG4 · Tetraethylene glycol · additive · chains A
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 123 | 0.41 | 0.76 | 31 | SO4, BEN |
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 2O8U · Crystal Structure and Binding Epitopes of Urokinase-type Plasminogen Activator… · the same entry in another collection · chain A against A, 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 Q5PY49
- Elsewhere: RCSB PDB 2O8U · PDBe 2O8U · UniProt Q5PY49
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