Research workbench
Malate dehydrogenase open conformation
Analyse Malate dehydrogenase open conformation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3HHP
- Type
- protein
- Length
- 1,234 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Malate dehydrogenase
- EC
- 1.1.1.37
- UniProt
- P61889
- Pockets
- 16 · best druggability 0.73
Structure
x-ray diffraction · 3 distinct chains · 49% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Malate dehydrogenase (EC 1.1.1.37) | protein | 312 | 48% helix, 18% strand | P61889 |
| B | Malate dehydrogenase (EC 1.1.1.37) | protein | 304 | 49% helix, 18% strand | P61889 |
| D | Malate dehydrogenase (EC 1.1.1.37) | protein | 306 | 49% helix, 18% strand | P61889 |
Pockets
16 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 718 | 0.73 | 0.79 | 72 | empty |
| 2 | 522 | 0.66 | 0.77 | 51 | empty |
| 3 | 416 | 0.62 | 0.77 | 45 | empty |
| 4 | 386 | 0.59 | 0.76 | 50 | empty |
| 5 | 198 | 0.46 | 0.75 | 31 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1548 Ų buried · 27 hydrogen bonds · protein-protein
- C–D · 1507 Ų buried · 27 hydrogen bonds · protein-protein
- A–C · 281 Ų buried · 2 hydrogen bonds · protein-protein
- B–D · 260 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 163 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
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 P61889
- Elsewhere: RCSB PDB 3HHP · PDBe 3HHP · UniProt P61889
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