MolNFT v1 · #13839 · protein
Three-dimensional structure of lipoamide dehydrogenase from pseudomonas fluorescens at 2.8 ångströms resolution. analysis of redox and thermostability properties
1LPF · Dihydrolipoamide dehydrogenase: “Three-dimensional structure of lipoamide dehydrogenase from pseudomonas fluorescens at 2.8 ångströms…”. X-ray diffraction, 1 ligand (FAD), 9 pockets (best druggability 0.85). MolNFT v1 #13839 on…
- PDB
- 1LPF
- Type
- protein
- Length
- 944 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dihydrolipoamide dehydrogenase
- EC
- 1.8.1.4
- UniProt
- P14218
- Ligands
- FAD
- Pockets
- 9 · best druggability 0.85
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dihydrolipoamide dehydrogenase (EC 1.8.1.4) | protein | 472 | 35% helix, 29% strand | P14218 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 768 | 0.85 | 0.88 | 57 | empty |
| 2 | 747 | 0.78 | 0.82 | 77 | FAD |
| 3 | 803 | 0.78 | 0.81 | 88 | FAD |
| 4 | 283 | 0.76 | 0.88 | 48 | empty |
| 5 | 303 | 0.76 | 0.88 | 52 | empty |
Interfaces
1 interface between chains.
- A–B · 3482 Ų buried · 52 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 1LPF · Three-dimensional structure of lipoamide dehydrogenase from pseudomonas fluorescens at… · the same entry in another collection · chain A against A, TM-score 1.00
- P14218 · AlphaFold monomer V2.0 prediction for dihydrolipoyl dehydrogenase (P14218) · 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 P14218
- Elsewhere: RCSB PDB 1LPF · PDBe 1LPF · UniProt P14218
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.