Research workbench
Polysaccharide lyase BACCELL_00875
Analyse Polysaccharide lyase BACCELL_00875 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NO8
- Type
- protein
- Length
- 1,338 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- BACCELL_00875
- UniProt
- E2N9D0
- Pockets
- 13 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | BACCELL_00875 | protein | 669 | 33% helix, 28% strand | E2N9D0 |
Ligands and binding sites
- GOL · Glycerol · additive · 11 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 781 | 0.73 | 0.79 | 100 | empty |
| 2 | 199 | 0.73 | 0.89 | 31 | GOL |
| 3 | 304 | 0.60 | 0.78 | 33 | empty |
| 4 | 283 | 0.59 | 0.78 | 28 | GOL |
| 5 | 76 | 0.58 | 0.88 | 22 | GOL |
Interfaces
1 interface between chains.
- A–B · 1362 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5NO8 · Polysaccharide Lyase BACCELL_00875 · 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 E2N9D0
- Elsewhere: RCSB PDB 5NO8 · PDBe 5NO8 · UniProt E2N9D0
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