MolNFT v1 · #31826 · protein
Crystal structure of yeast SCO1 with copper bound
2B7J · SCO1 protein: “Crystal structure of yeast SCO1 with copper bound”. X-ray diffraction, 1 ligand (CU), 6 pockets (best druggability 0.80). MolNFT v1 #31826 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2B7J
- Type
- protein
- Length
- 678 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SCO1 protein
- UniProt
- P23833
- Ligands
- CU
- Pockets
- 6 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | SCO1 protein | protein | 158 | 35% helix, 20% strand | P23833 |
| B, D | SCO1 protein | protein | 181 | 33% helix, 18% strand | P23833 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 6 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1054 | 0.80 | 0.81 | 85 | empty |
| 2 | 500 | 0.68 | 0.79 | 57 | empty |
| 3 | 53 | 0.67 | 0.96 | 19 | empty |
| 4 | 305 | 0.66 | 0.82 | 41 | empty |
| 5 | 78 | 0.58 | 0.88 | 20 | empty |
Interfaces
5 interfaces between chains.
- B–C · 916 Ų buried · 11 hydrogen bonds · protein-protein
- A–D · 913 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 691 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 690 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 143 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
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 P23833
- Elsewhere: RCSB PDB 2B7J · PDBe 2B7J · UniProt P23833
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