MolNFT v1 · #121776 · protein
Crystal structure of transketolase mutants-H66/261C complex with xylulose-5-phoaphate from pichia stipitis
5I5E: “Crystal structure of transketolase mutants-H66/261C complex with xylulose-5-phoaphate from pichia stipitis”. X-ray diffraction, 3 ligands (TPP, 5SP, CA), 5 pockets (best druggability 0.61). MolNFT v1 #121776 on GenesisL1: 3D…
- PDB
- 5I5E
- Type
- protein
- Length
- 676 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, 5SP, CA
- Pockets
- 5 · best druggability 0.61
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 | 676 | 45% helix, 13% strand | P34736 |
Ligands and binding sites
- TPP · Thiamine diphosphate · ligand · chains A
- 5SP · 5-O-phosphono-D-xylulose · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 133 | 0.61 | 0.85 | 23 | TPP, CA |
| 2 | 257 | 0.54 | 0.77 | 38 | empty |
| 3 | 93 | 0.35 | 0.74 | 17 | empty |
| 4 | 67 | 0.31 | 0.75 | 15 | empty |
| 5 | 50 | 0.27 | 0.74 | 12 | empty |
Compared structures
- 5I5E · Crystal Structure of Transketolase mutants-H66/261C complex with xylulose-5-phoaphate… · 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 5I5E · PDBe 5I5E · UniProt P34736
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