Research workbench
Structural and thermodynamic dissection of specific mannan recognition by a carbohydrate-binding module, TMCBM27
Analyse Structural and thermodynamic dissection of specific mannan recognition by a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OF3
- Type
- protein
- Length
- 350 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-mannosidase
- UniProt
- Q9RIK9
- Ligands
- CA
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 57% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-mannosidase | protein | 176 | 9% helix, 56% strand | Q9RIK9 |
| B | Beta-mannosidase | protein | 174 | 9% helix, 57% strand | Q9RIK9 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 113 | 0.48 | 0.80 | 18 | empty |
| 2 | 151 | 0.43 | 0.75 | 21 | empty |
| 3 | 72 | 0.31 | 0.74 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 607 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 1OF3 · Structural and thermodynamic dissection of specific mannan recognition by a… · 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 Q9RIK9
- Elsewhere: RCSB PDB 1OF3 · PDBe 1OF3 · UniProt Q9RIK9
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