Research workbench
Crystal structure of ruminococcus albus 4-O-beta-D-mannosyl-D-glucose phosphorylase (RAMP1) in complexes with sulfate and 4-O-beta-D- mannosyl-D-glucose
Analyse Crystal structure of ruminococcus albus 4-O-beta-D-mannosyl-D-glucose… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5AYC
- Type
- protein
- Length
- 386 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 4-O-beta-D-mannosyl-D-glucose phosphorylase
- EC
- 2.4.1.281
- UniProt
- E6UIS7
- Ligands
- BGC, BMA, SO4
- Pockets
- 6 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 14% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 4-O-beta-D-mannosyl-D-glucose phosphorylase (EC 2.4.1.281) | protein | 386 | 14% helix, 42% strand | E6UIS7 |
Ligands and binding sites
- BGC · beta-D-glucopyranose · sugar · chains A
- BMA · beta-D-mannopyranose · sugar · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 225 | 0.59 | 0.80 | 28 | BGC, BMA, SO4 |
| 2 | 154 | 0.52 | 0.79 | 18 | empty |
| 3 | 85 | 0.36 | 0.76 | 20 | empty |
| 4 | 67 | 0.34 | 0.76 | 15 | empty |
| 5 | 59 | 0.31 | 0.76 | 20 | empty |
Compared structures
- 5AYC · Crystal structure of Ruminococcus albus 4-O-beta-D-mannosyl-D-glucose phosphorylase… · the same entry in another collection · chain A against A, TM-score 1.00
- E6UIS7 · AlphaFold monomer V2.0 prediction for 4-O-beta-D-mannosyl-D-glucose phosphorylase (E6UIS7) · a predicted model of the same protein · 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 E6UIS7
- Elsewhere: RCSB PDB 5AYC · PDBe 5AYC · UniProt E6UIS7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.