MolNFT v1 · #101445 · protein
Copn-SCC3 complex
4NRH: “Copn-SCC3 complex”. X-ray diffraction, 1 ligand (NA), 10 pockets (best druggability 0.76). MolNFT v1 #101445 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4NRH
- Type
- protein
- Length
- 916 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Copn; Chaperone sycd
- UniProt
- Q9Z8L4, Q9Z6N8
- Ligands
- NA
- Pockets
- 10 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 74% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Copn | protein | 289 | 75% helix, 0% strand | Q9Z8L4 |
| B, D | Chaperone sycd | protein | 170 | 69% helix, 0% strand | Q9Z6N8 |
| C | Copn | protein | 287 | 76% helix, 0% strand | Q9Z8L4 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1123 | 0.76 | 0.79 | 83 | NA |
| 2 | 52 | 0.70 | 0.98 | 17 | empty |
| 3 | 51 | 0.66 | 0.96 | 17 | empty |
| 4 | 467 | 0.66 | 0.78 | 58 | empty |
| 5 | 90 | 0.61 | 0.88 | 18 | empty |
Interfaces
4 interfaces between chains.
- B–C · 1029 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 1022 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 631 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 127 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4NRH · CopN-Scc3 complex · 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 Q9Z8L4
- Every structure of UniProt Q9Z6N8
- Elsewhere: RCSB PDB 4NRH · PDBe 4NRH · UniProt Q9Z8L4 · UniProt Q9Z6N8
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