Research workbench
Crystal structure of 2-O-alpha-glucosylglycerol phosphorylase in complex with glucose
Analyse Crystal structure of 2-O-alpha-glucosylglycerol phosphorylase in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4KTP
- Type
- protein
- Length
- 1,528 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycoside hydrolase family 65 central catalytic
- EC
- 2.4.1.-
- UniProt
- D6XZ22
- Ligands
- BGC, CA
- Pockets
- 16 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycoside hydrolase family 65 central catalytic (EC 2.4.1.-) | protein | 767 | 33% helix, 26% strand | D6XZ22 |
| B | Glycoside hydrolase family 65 central catalytic (EC 2.4.1.-) | protein | 761 | 32% helix, 26% strand | D6XZ22 |
Ligands and binding sites
- BGC · beta-D-glucopyranose · sugar · 2 copies · chains A, B
- CA · Calcium ion · metal · 2 copies · chains B
- 1PE · Pentaethylene glycol · additive · chains A
- PG4 · Tetraethylene glycol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 116 | 0.79 | 0.97 | 28 | BGC |
| 2 | 104 | 0.77 | 0.97 | 28 | empty |
| 3 | 243 | 0.75 | 0.89 | 47 | BGC |
| 4 | 311 | 0.74 | 0.86 | 45 | empty |
| 5 | 516 | 0.73 | 0.82 | 40 | empty |
Interfaces
1 interface between chains.
- A–B · 1508 Ų buried · 35 hydrogen bonds · protein-protein
Compared structures
- 4KTP · Crystal structure of 2-O-alpha-glucosylglycerol phosphorylase in complex with glucose · the same entry in another collection · chain A against A, TM-score 1.00
- D6XZ22 · AlphaFold monomer V2.0 prediction for 1,2-alpha-glucosylglycerol phosphorylase (D6XZ22) · a predicted model of the same protein · chain B 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 D6XZ22
- Elsewhere: RCSB PDB 4KTP · PDBe 4KTP · UniProt D6XZ22
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.