Research workbench
A structural basis for substrate and stereo selectivity in octopine dehydrogenase (odh-NADH-L-arginine)
Analyse A structural basis for substrate and stereo selectivity in octopine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3C7C
- Type
- protein
- Length
- 403 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Octopine dehydrogenase
- EC
- 1.5.1.11
- UniProt
- Q9BHM6
- Ligands
- NAD, ARG
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Octopine dehydrogenase (EC 1.5.1.11) | protein | 403 | 39% helix, 20% strand | Q9BHM6 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 676 | 0.69 | 0.77 | 61 | NAD, ARG |
| 2 | 77 | 0.36 | 0.76 | 18 | empty |
| 3 | 63 | 0.32 | 0.75 | 20 | empty |
| 4 | 52 | 0.31 | 0.77 | 18 | empty |
Compared structures
- 3C7C · A structural basis for substrate and stereo selectivity in octopine dehydrogenase… · the same entry in another collection · chain B against B, TM-score 1.00
- Q9BHM6 · AlphaFold monomer V2.0 prediction for octopine dehydrogenase (Q9BHM6) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 Q9BHM6
- Elsewhere: RCSB PDB 3C7C · PDBe 3C7C · UniProt Q9BHM6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.