Research workbench
Structure of L-lactate dehydrogenase from trichoplusia ni
Analyse Structure of L-lactate dehydrogenase from trichoplusia ni in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OR9
- Type
- protein
- Length
- 1,218 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- L-lactate dehydrogenase
- Pockets
- 15 · best druggability 0.73
Structure
x-ray diffraction · 4 distinct chains · 47% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | L-lactate dehydrogenase | protein | 306 | 47% helix, 19% strand | — |
| B | L-lactate dehydrogenase | protein | 308 | 47% helix, 19% strand | — |
| C | L-lactate dehydrogenase | protein | 305 | 47% helix, 19% strand | — |
| D | L-lactate dehydrogenase | protein | 299 | 48% helix, 19% strand | — |
Pockets
15 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 586 | 0.73 | 0.81 | 60 | empty |
| 2 | 817 | 0.71 | 0.77 | 79 | empty |
| 3 | 503 | 0.70 | 0.80 | 62 | empty |
| 4 | 740 | 0.69 | 0.76 | 65 | empty |
| 5 | 372 | 0.63 | 0.78 | 48 | empty |
Interfaces
5 interfaces between chains.
- B–C · 1969 Ų buried · 22 hydrogen bonds · protein-protein
- A–D · 1917 Ų buried · 21 hydrogen bonds · protein-protein
- B–D · 1124 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 1087 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 12 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6OR9 · Structure of L-lactate dehydrogenase from Trichoplusia ni · 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
- Elsewhere: RCSB PDB 6OR9 · PDBe 6OR9
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