Research workbench
Crystal structure of lanthanide-dependent alcohol dehydrogenase pedh from pseudomonas putida KT2440
Analyse Crystal structure of lanthanide-dependent alcohol dehydrogenase pedh from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ZCV
- Type
- protein
- Length
- 562 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Quinoprotein ethanol dehydrogenase
- EC
- 1.1.2.8
- UniProt
- Q88JH0
- Ligands
- PQQ, CA, PR
- Pockets
- 3 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Quinoprotein ethanol dehydrogenase (EC 1.1.2.8) | protein | 562 | 7% helix, 41% strand | Q88JH0 |
Ligands and binding sites
- PQQ · Pyrroloquinoline quinone · ligand · chains A
- CA · Calcium ion · metal · chains A
- PR · Praseodymium ion · metal · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 214 | 0.71 | 0.87 | 41 | PQQ, GOL |
| 2 | 103 | 0.40 | 0.77 | 23 | empty |
| 3 | 72 | 0.30 | 0.73 | 12 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6ZCV · Crystal structure of lanthanide-dependent alcohol dehydrogenase PedH from Pseudomonas… · 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 Q88JH0
- Elsewhere: RCSB PDB 6ZCV · PDBe 6ZCV · UniProt Q88JH0
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