MolNFT v1 · #12209 · protein
Structure of pyrococcus furiosus carboxypeptidase apo-yb
1K9X · M32 carboxypeptidase: “Structure of pyrococcus furiosus carboxypeptidase apo-yb”. X-ray diffraction, 20 pockets (best druggability 0.77). MolNFT v1 #12209 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1K9X
- Type
- protein
- Length
- 1,988 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- M32 carboxypeptidase
- UniProt
- Q8U3L0
- Pockets
- 20 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 68% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | M32 carboxypeptidase | protein | 497 | 68% helix, 4% strand | Q8U3L0 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 895 | 0.77 | 0.80 | 76 | empty |
| 2 | 906 | 0.77 | 0.80 | 76 | empty |
| 3 | 871 | 0.76 | 0.80 | 82 | empty |
| 4 | 903 | 0.76 | 0.79 | 97 | empty |
| 5 | 646 | 0.74 | 0.81 | 71 | empty |
Interfaces
5 interfaces between chains.
- B–C · 1821 Ų buried · 24 hydrogen bonds · protein-protein
- A–D · 1811 Ų buried · 23 hydrogen bonds · protein-protein
- A–B · 484 Ų buried · 6 hydrogen bonds · protein-protein
- C–D · 460 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 107 Ų buried · 1 hydrogen bond · 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 Q8U3L0
- Elsewhere: RCSB PDB 1K9X · PDBe 1K9X · UniProt Q8U3L0
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