MolNFT v1 · #63724 · protein
Crystal structure of malate dehydrogenase from porphyromonas gingivalis
3FI9: “Crystal structure of malate dehydrogenase from porphyromonas gingivalis”. X-ray diffraction, 5 pockets (best druggability 0.67). MolNFT v1 #63724 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3FI9
- Type
- protein
- Length
- 641 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Malate dehydrogenase
- UniProt
- B2RM04
- Pockets
- 5 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Malate dehydrogenase | protein | 321 | 49% helix, 20% strand | B2RM04 |
| B | Malate dehydrogenase | protein | 320 | 49% helix, 20% strand | B2RM04 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 548 | 0.67 | 0.78 | 57 | empty |
| 2 | 268 | 0.64 | 0.81 | 38 | empty |
| 3 | 222 | 0.62 | 0.82 | 35 | empty |
| 4 | 56 | 0.45 | 0.84 | 14 | empty |
| 5 | 63 | 0.42 | 0.81 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 2059 Ų buried · 41 hydrogen bonds · protein-protein
Compared structures
- 3FI9 · Crystal structure of malate dehydrogenase from Porphyromonas gingivalis · 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 B2RM04
- Elsewhere: RCSB PDB 3FI9 · PDBe 3FI9 · UniProt B2RM04
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.