Research workbench
Structure of the N-terminal domain of C. elegans sas-6
Analyse Structure of the N-terminal domain of C. elegans sas-6 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3PYI
- Type
- protein
- Length
- 285 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spindle assembly abnormal protein 6
- UniProt
- O62479
- Pockets
- 1 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Spindle assembly abnormal protein 6 | protein | 143 | 14% helix, 53% strand | O62479 |
| A | Spindle assembly abnormal protein 6 | protein | 142 | 17% helix, 54% strand | O62479 |
Ligands and binding sites
- PG4 · Tetraethylene glycol · additive · 4 copies · chains B, A
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 151 | 0.51 | 0.79 | 21 | empty |
Interfaces
1 interface between chains.
- B–A · 754 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 3PYI · Structure of the N-terminal domain of C. elegans SAS-6 · the same entry in another collection · chain B against B, 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 B against A, TM-score 0.96
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 3PYI · PDBe 3PYI · UniProt O62479
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