MolNFT v1 · #123004 · protein
Crystal structure of MIS18(17-118) from schizosaccharomyces pombe
5J6P · Kinetochore protein MIS18: “Crystal structure of MIS18(17-118) from schizosaccharomyces pombe”. X-ray diffraction, 1 ligand (ZN), 3 pockets (best druggability 0.51). MolNFT v1 #123004 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5J6P
- Type
- protein
- Length
- 302 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kinetochore protein MIS18
- UniProt
- Q9P802
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.51
Structure
x-ray diffraction · 3 distinct chains · 14% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Kinetochore protein MIS18 | protein | 102 | 16% helix, 47% strand | Q9P802 |
| A | Kinetochore protein MIS18 | protein | 100 | 18% helix, 51% strand | Q9P802 |
| C | Kinetochore protein MIS18 | protein | 100 | 9% helix, 53% strand | Q9P802 |
Ligands and binding sites
- ZN · Zinc ion · metal · 3 copies · chains B, A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 136 | 0.51 | 0.80 | 26 | empty |
| 2 | 117 | 0.50 | 0.80 | 21 | empty |
| 3 | 106 | 0.45 | 0.79 | 22 | empty |
Interfaces
2 interfaces between chains.
- B–A · 694 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 568 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 5J6P · Crystal Structure of Mis18(17-118) from Schizosaccharomyces pombe · the same entry in another collection · chain B against B, TM-score 1.00
- Q9P802 · AlphaFold monomer V2.0 prediction for kinetochore protein MIS18 (Q9P802) · 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 Q9P802
- Elsewhere: RCSB PDB 5J6P · PDBe 5J6P · UniProt Q9P802
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