Research workbench
Crystal structure of transketolase in complex with ribose-5-phosphate from pichia stipitis
Analyse Crystal structure of transketolase in complex with ribose-5-phosphate from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5XQA
- Type
- protein
- Length
- 675 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transketolase
- EC
- 2.2.1.1
- UniProt
- P34736
- Ligands
- TPP, HSX, CA
- Pockets
- 5 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transketolase (EC 2.2.1.1) | protein | 675 | 45% helix, 13% strand | P34736 |
Ligands and binding sites
- TPP · Thiamine diphosphate · ligand · chains A
- HSX · 5-O-phosphono-alpha-D-ribofuranose · ligand · chains A
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 280 | 0.60 | 0.79 | 45 | empty |
| 2 | 86 | 0.49 | 0.83 | 19 | TPP, CA |
| 3 | 84 | 0.38 | 0.76 | 17 | empty |
| 4 | 60 | 0.31 | 0.76 | 17 | empty |
| 5 | 75 | 0.30 | 0.74 | 17 | empty |
Compared structures
- 5XQA · Crystal Structure of Transketolase in complex with ribose-5-phosphate from Pichia Stipitis · the same entry in another collection · chain A against A, TM-score 1.00
- P34736 · AlphaFold monomer V2.0 prediction for transketolase (P34736) · 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 P34736
- Elsewhere: RCSB PDB 5XQA · PDBe 5XQA · UniProt P34736
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.