MolNFT v1 · #118773 · protein
Structural basis of cohesin cleavage by separase
5FC3 · Pamk peptide: “Structural basis of cohesin cleavage by separase”. X-ray diffraction, 1 ligand (6L3), 3 pockets (best druggability 0.49). MolNFT v1 #118773 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5FC3
- Type
- protein
- Length
- 482 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pamk peptide; Separase
- UniProt
- G0SHM3
- Ligands
- 6L3
- Pockets
- 3 · best druggability 0.49
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pamk peptide | protein | 4 | 0% helix, 25% strand | — |
| B | Separase | protein | 478 | 46% helix, 14% strand | G0SHM3 |
Ligands and binding sites
- 6L3 · Methyl 2,4,6-trimethylbenzoate · ion · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 234 | 0.49 | 0.75 | 34 | empty |
| 2 | 74 | 0.33 | 0.76 | 14 | empty |
| 3 | 80 | 0.30 | 0.72 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 485 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 5FC3 · Structural basis of cohesin cleavage by separase · 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 G0SHM3
- Elsewhere: RCSB PDB 5FC3 · PDBe 5FC3 · UniProt G0SHM3
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