Research workbench
Pandda analysis group deposition -- crystal structure of human STAG1 in complex with Z57261895
Analyse Pandda analysis group deposition -- crystal structure of human STAG1 in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5QSM
- Type
- protein
- Length
- 860 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cohesin subunit sa-1
- UniProt
- Q8WVM7
- Ligands
- O2D
- Pockets
- 11 · best druggability 0.42
Structure
x-ray diffraction · 2 distinct chains · 75% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cohesin subunit sa-1 | protein | 435 | 76% helix, 0% strand | Q8WVM7 |
| B | Cohesin subunit sa-1 | protein | 425 | 73% helix, 0% strand | Q8WVM7 |
Ligands and binding sites
- O2D · 2-cyclohexyl-N-(4H-1,2,4-triazol-4-yl)acetamide · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 159 | 0.42 | 0.74 | 17 | empty |
| 2 | 144 | 0.39 | 0.73 | 25 | empty |
| 3 | 103 | 0.39 | 0.76 | 19 | empty |
| 4 | 91 | 0.35 | 0.74 | 19 | empty |
| 5 | 69 | 0.35 | 0.77 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 300 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5QSM · PanDDA analysis group deposition -- Crystal Structure of human STAG1 in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8WVM7 · AlphaFold monomer V2.0 prediction for cohesin subunit sa-1 (Q8WVM7) · a predicted model of the same protein · chain B against A, TM-score 0.94
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 Q8WVM7
- Elsewhere: RCSB PDB 5QSM · PDBe 5QSM · UniProt Q8WVM7
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