MolNFT v1 · #63879 · protein
Crystal structure of tartrate dehydrogenase from pseudomonas putida complexed with NADH
3FMX · Tartrate DEHYDROGENASE/DECARBOXYLASE: “Crystal structure of tartrate dehydrogenase from pseudomonas putida complexed with NADH”. X-ray diffraction, 2 ligands (NAI, NH4), 3 pockets (best druggability 0.53). MolNFT v1 #63879 on…
- PDB
- 3FMX
- Type
- protein
- Length
- 359 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tartrate DEHYDROGENASE/DECARBOXYLASE
- EC
- 1.1.1.93, 4.1.1.73, 1.1.1.83
- UniProt
- Q51945
- Ligands
- NAI, NH4
- Pockets
- 3 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Tartrate DEHYDROGENASE/DECARBOXYLASE (EC 1.1.1.93, 4.1.1.73, 1.1.1.83) | protein | 359 | 38% helix, 19% strand | Q51945 |
Ligands and binding sites
- NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · chains X
- NH4 · Ammonium ion · ion · chains X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 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 | 0.53 | 0.76 | 21 | empty |
| 2 | 130 | 0.45 | 0.77 | 32 | NAI |
| 3 | 63 | 0.33 | 0.76 | 14 | NAI |
Compared structures
- 3FMX · Crystal structure of Tartrate dehydrogenase from Pseudomonas putida complexed with NADH · the same entry in another collection · chain X against X, TM-score 1.00
- Q51945 · AlphaFold monomer V2.0 prediction for tartrate DEHYDROGENASE/DECARBOXYLASE (Q51945) · a predicted model of the same protein · chain X against A, TM-score 0.99
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 Q51945
- Elsewhere: RCSB PDB 3FMX · PDBe 3FMX · UniProt Q51945
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