MolNFT v1 · #174546 · protein
Crystal structure of exo-beta-1,3-galactanase from phanerochaete chrysosporium PC1,3GAL43A E208Q with beta-1,3-galactotriose
7BYV · Galactan 1,3-beta-galactosidase: “Crystal structure of exo-beta-1,3-galactanase from phanerochaete chrysosporium PC1,3GAL43A E208Q with…”. X-ray diffraction, 4 ligands (NAG, GAL, BMA), 4 pockets (best druggability 0.59). MolNFT v1…
- PDB
- 7BYV
- Type
- protein
- Length
- 428 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Galactan 1,3-beta-galactosidase
- EC
- 3.2.1.145
- UniProt
- Q50KB2
- Ligands
- NAG, GAL, BMA, CA
- Pockets
- 4 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 5% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Galactan 1,3-beta-galactosidase (EC 3.2.1.145) | protein | 428 | 5% helix, 52% strand | Q50KB2 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 4 copies · chains A
- GAL · beta-D-galactopyranose · sugar · 4 copies · chains A
- BMA · beta-D-mannopyranose · sugar
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 233 | 0.59 | 0.79 | 32 | empty |
| 2 | 102 | 0.47 | 0.80 | 14 | GAL |
| 3 | 80 | 0.44 | 0.80 | 19 | empty |
| 4 | 98 | 0.44 | 0.79 | 19 | empty |
Modifications
Observed in the structure: 3 glycan, 1 disulfide (N-glycosylation, disulfide).
Compared structures
- 7BYV · Crystal structure of exo-beta-1,3-galactanase from Phanerochaete chrysosporium… · 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 Q50KB2
- Elsewhere: RCSB PDB 7BYV · PDBe 7BYV · UniProt Q50KB2
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