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Crystal structure of beta-mannanase from a symbiotic protist of the termite Reticulitermes speratus
Analyse Crystal structure of beta-mannanase from a symbiotic protist of the termite… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3WDQ
- Type
- protein
- Length
- 330 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.3
- Source
- Symbiotic protist of Reticulitermes speratus
- Molecule
- Beta-mannanase
- EC
- 3.2.1.78
- UniProt
- H7CGE2
- Ligands
- NAG, NA, MG
- Pockets
- 1 · best druggability 0.31
Structure
x-ray diffraction · resolution 1.3 · 1 distinct chain · 37% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-mannanase (EC 3.2.1.78) | protein | 330 | 37% helix, 15% strand | H7CGE2 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- NA · Sodium ion · metal · 2 copies · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 72 | 0.31 | 0.74 | 20 | empty |
Modifications
Observed in the structure: 1 glycan, 1 modified (N-glycosylation, nonstandard).
Compared structures
- 3WDQ · Crystal structure of beta-mannanase from a symbiotic protist of the termite… · 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 H7CGE2
- Elsewhere: RCSB PDB 3WDQ · PDBe 3WDQ · UniProt H7CGE2
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