MolNFT v1 · #163157 · protein
Wolinella succinogenes L-asparaginase P1
6RUD: “Wolinella succinogenes L-asparaginase P1”. X-ray diffraction, 12 pockets (best druggability 0.83). MolNFT v1 #163157 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6RUD
- Type
- protein
- Length
- 1,275 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-asparaginase
- EC
- 3.5.1.1
- UniProt
- P50286
- Pockets
- 12 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 33% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-asparaginase (EC 3.5.1.1) | protein | 318 | 33% helix, 22% strand | P50286 |
| B | L-asparaginase (EC 3.5.1.1) | protein | 321 | 33% helix, 22% strand | P50286 |
| C | L-asparaginase (EC 3.5.1.1) | protein | 317 | 32% helix, 22% strand | P50286 |
| D | L-asparaginase (EC 3.5.1.1) | protein | 319 | 33% helix, 22% strand | P50286 |
Pockets
12 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 719 | 0.83 | 0.87 | 97 | empty |
| 2 | 65 | 0.71 | 0.97 | 35 | empty |
| 3 | 109 | 0.68 | 0.91 | 23 | empty |
| 4 | 89 | 0.66 | 0.92 | 21 | empty |
| 5 | 50 | 0.65 | 0.96 | 24 | empty |
Interfaces
6 interfaces between chains.
- C–D · 2064 Ų buried · 43 hydrogen bonds · protein-protein
- A–B · 2063 Ų buried · 43 hydrogen bonds · protein-protein
- A–C · 942 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 930 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 860 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
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 P50286
- Elsewhere: RCSB PDB 6RUD · PDBe 6RUD · UniProt P50286
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