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Crystal structure of lacto-N-biosidase bsax from bifidobacterium saguini, lacto-N-biose complex
Analyse Crystal structure of lacto-N-biosidase bsax from bifidobacterium saguini… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7V6I
- Type
- protein
- Length
- 597 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lacto-N-biosidase
- UniProt
- A0A087D8U9
- Ligands
- NAG, GAL
- Pockets
- 2 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 8% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lacto-N-biosidase | protein | 597 | 8% helix, 35% strand | A0A087D8U9 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- GAL · beta-D-galactopyranose · sugar · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 222 | 0.57 | 0.79 | 38 | NAG, GAL |
| 2 | 56 | 0.26 | 0.73 | 15 | empty |
Compared structures
- 7V6I · Crystal structure of lacto-N-biosidase BsaX from Bifidobacterium saguini, lacto-N-biose… · 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 A0A087D8U9
- Elsewhere: RCSB PDB 7V6I · PDBe 7V6I · UniProt A0A087D8U9
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