Research workbench
Structure of the GH99 endo-alpha-mannosidase from bacteroides thetaiotaomicron
Analyse Structure of the GH99 endo-alpha-mannosidase from bacteroides thetaiotaomicron in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ACZ
- Type
- protein
- Length
- 680 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endo-alpha-mannosidase
- EC
- 3.2.1.130
- UniProt
- Q8A109
- Pockets
- 7 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endo-alpha-mannosidase (EC 3.2.1.130) | protein | 341 | 35% helix, 17% strand | Q8A109 |
| B | Endo-alpha-mannosidase (EC 3.2.1.130) | protein | 339 | 36% helix, 18% strand | Q8A109 |
Ligands and binding sites
- GOL · Glycerol · additive · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 782 | 0.69 | 0.75 | 71 | empty |
| 2 | 56 | 0.56 | 0.89 | 16 | empty |
| 3 | 61 | 0.55 | 0.88 | 17 | empty |
| 4 | 108 | 0.42 | 0.77 | 22 | empty |
| 5 | 51 | 0.34 | 0.79 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 780 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 4ACZ · Structure of the GH99 endo-alpha-mannosidase from Bacteroides thetaiotaomicron · 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 Q8A109
- Elsewhere: RCSB PDB 4ACZ · PDBe 4ACZ · UniProt Q8A109
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