Research workbench
Glycoside hydrolase BT_1012
Analyse Glycoside hydrolase BT_1012 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MSY
- Type
- protein
- Length
- 1,355 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycoside hydrolase
- UniProt
- Q8A905
- Ligands
- NH3, PO4
- Pockets
- 10 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 28% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycoside hydrolase | protein | 457 | 27% helix, 21% strand | Q8A905 |
| B | Glycoside hydrolase | protein | 445 | 28% helix, 21% strand | Q8A905 |
| C | Glycoside hydrolase | protein | 453 | 28% helix, 23% strand | Q8A905 |
Ligands and binding sites
- NH3 · Ammonia · ion · 21 copies · chains A, B, C
- PO4 · Phosphate ion · ion · 5 copies · chains A, B, 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, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 513 | 0.70 | 0.80 | 66 | empty |
| 2 | 509 | 0.70 | 0.80 | 55 | empty |
| 3 | 105 | 0.53 | 0.83 | 23 | empty |
| 4 | 196 | 0.52 | 0.78 | 30 | PO4 |
| 5 | 206 | 0.51 | 0.77 | 31 | empty |
Interfaces
2 interfaces between chains.
- A–C · 335 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 311 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 5MSY · Glycoside hydrolase BT_1012 · 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 Q8A905
- Elsewhere: RCSB PDB 5MSY · PDBe 5MSY · UniProt Q8A905
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