MolNFT v1 · #92665 · protein
N-terminal coiled-coil dimer of C.ELEGANS sas-6, crystal form B
4GFC · Spindle assembly abnormal protein 6: “N-terminal coiled-coil dimer of C.ELEGANS sas-6, crystal form B”. X-ray diffraction, 5 pockets (best druggability 0.47). MolNFT v1 #92665 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 4GFC
- Type
- protein
- Length
- 316 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spindle assembly abnormal protein 6
- UniProt
- O62479
- Pockets
- 5 · best druggability 0.47
Structure
x-ray diffraction · 2 distinct chains · 32% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Spindle assembly abnormal protein 6 | protein | 165 | 28% helix, 48% strand | O62479 |
| B | Spindle assembly abnormal protein 6 | protein | 151 | 37% helix, 34% strand | O62479 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 8 copies · chains A, B
- IMD · Imidazole · additive · 2 copies · chains A
- PG4 · Tetraethylene glycol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 139 | 0.47 | 0.77 | 15 | empty |
| 2 | 132 | 0.44 | 0.76 | 22 | empty |
| 3 | 91 | 0.38 | 0.76 | 16 | IMD |
| 4 | 59 | 0.36 | 0.78 | 15 | empty |
| 5 | 55 | 0.30 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 858 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 4GFC · N-terminal coiled-coil dimer of C.elegans SAS-6, crystal form B · the same entry in another collection · chain A against A, TM-score 1.00
- O62479 · AlphaFold monomer V2.0 prediction for spindle assembly abnormal protein 6 (O62479) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 O62479
- Elsewhere: RCSB PDB 4GFC · PDBe 4GFC · UniProt O62479
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