MolNFT v1 · #165105 · protein
Structure of hdra-like subunit from hyphomicrobium denitrificans
6TJR · Fumarate REDUCTASE/SUCCINATE dehydrogenase flavoprotein…: “Structure of hdra-like subunit from hyphomicrobium denitrificans”. X-ray diffraction, 2 ligands (SF4, FAD), 8 pockets (best druggability 0.83). MolNFT v1 #165105 on…
- PDB
- 6TJR
- Type
- protein
- Length
- 680 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fumarate REDUCTASE/SUCCINATE dehydrogenase flavoprotein domain protein
- UniProt
- D8JT26
- Ligands
- SF4, FAD
- Pockets
- 8 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Fumarate REDUCTASE/SUCCINATE dehydrogenase flavoprotein domain protein | protein | 340 | 30% helix, 29% strand | D8JT26 |
Ligands and binding sites
- SF4 · Iron/sulfur cluster · ligand · 2 copies · chains A, B
- FAD · Flavin-adenine dinucleotide · ligand · 2 copies · chains A, B
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 356 | 0.83 | 0.92 | 62 | FAD |
| 2 | 402 | 0.81 | 0.90 | 67 | FAD |
| 3 | 229 | 0.71 | 0.87 | 28 | empty |
| 4 | 223 | 0.70 | 0.87 | 29 | empty |
| 5 | 221 | 0.55 | 0.78 | 34 | empty |
Interfaces
1 interface between chains.
- A–B · 2623 Ų buried · 50 hydrogen bonds · protein-protein
Compared structures
- 6TJR · Structure of HdrA-like subunit from Hyphomicrobium denitrificans · the same entry in another collection · 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 D8JT26
- Elsewhere: RCSB PDB 6TJR · PDBe 6TJR · UniProt D8JT26
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.