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Crystal structure of an exo-alpha-1,6-mannosidase (BACOVA_03347) from bacteroides ovatus at 1.60 a resolution
Analyse Crystal structure of an exo-alpha-1,6-mannosidase (BACOVA_03347) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3P2C
- Type
- protein
- Length
- 890 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative glycosyl hydrolase
- UniProt
- A7LZS1
- Pockets
- 9 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Putative glycosyl hydrolase | protein | 445 | 46% helix, 13% strand | A7LZS1 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 13 copies · chains A, B
- PGE · Triethylene glycol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 211 | 0.83 | 0.96 | 46 | empty |
| 2 | 172 | 0.54 | 0.79 | 28 | EDO |
| 3 | 129 | 0.51 | 0.80 | 24 | EDO |
| 4 | 132 | 0.49 | 0.79 | 19 | EDO |
| 5 | 121 | 0.44 | 0.77 | 20 | EDO |
Interfaces
1 interface between chains.
- A–B · 1566 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 28 modified (engineered).
Compared structures
- 3P2C · Crystal structure of an exo-alpha-1,6-mannosidase (bacova_03347) from bacteroides ovatus… · 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 A7LZS1
- Elsewhere: RCSB PDB 3P2C · PDBe 3P2C · UniProt A7LZS1
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