Research workbench
Crystal structure of wild type ogpa from akkermansia muciniphila in P 21 21 21
Analyse Crystal structure of wild type ogpa from akkermansia muciniphila in P 21 21 21 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6Z2O
- Type
- protein
- Length
- 354 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- O-glycan protease
- UniProt
- B2UR60
- Ligands
- ZN
- Pockets
- 3 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 26% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | O-glycan protease | protein | 354 | 26% helix, 31% strand | B2UR60 |
Ligands and binding sites
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 | 158 | 0.46 | 0.76 | 27 | EDO |
| 2 | 71 | 0.32 | 0.75 | 15 | empty |
| 3 | 57 | 0.30 | 0.75 | 14 | EDO |
Compared structures
- 6Z2O · Crystal structure of wild type OgpA from Akkermansia muciniphila in P 21 21 21 · 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 B2UR60
- Elsewhere: RCSB PDB 6Z2O · PDBe 6Z2O · UniProt B2UR60
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