Research workbench
Structure of human ALDH9 in P21212 space group
Analyse Structure of human ALDH9 in P21212 space group in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QAK
- Type
- protein
- Length
- 3,768 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 4-trimethylaminobutyraldehyde dehydrogenase
- EC
- 1.2.1.47, 1.2.1.3, 1.2.1.19
- UniProt
- P49189
- Pockets
- 20 · best druggability 0.91
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H | 4-trimethylaminobutyraldehyde dehydrogenase (EC 1.2.1.47, 1.2.1.3, 1.2.1.19) | protein | 471 | 41% helix, 22% strand | P49189 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1078 | 0.91 | 0.94 | 152 | empty |
| 2 | 1180 | 0.90 | 0.92 | 135 | empty |
| 3 | 1125 | 0.76 | 0.78 | 105 | empty |
| 4 | 1190 | 0.75 | 0.78 | 116 | empty |
| 5 | 288 | 0.74 | 0.87 | 40 | empty |
Interfaces
14 interfaces between chains.
- E–F · 2908 Ų buried · 35 hydrogen bonds · protein-protein
- G–H · 2869 Ų buried · 38 hydrogen bonds · protein-protein
- C–D · 2852 Ų buried · 34 hydrogen bonds · protein-protein
- A–B · 2848 Ų buried · 35 hydrogen bonds · protein-protein
- B–C · 1146 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6QAK · Structure of human ALDH9 in P21212 space group · the same entry in another collection · chain H against H, TM-score 1.00
- P49189 · AlphaFold monomer V2.0 prediction for 4-trimethylaminobutyraldehyde dehydrogenase (P49189) · a predicted model of the same protein · chain G against A, TM-score 0.94
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 P49189
- Elsewhere: RCSB PDB 6QAK · PDBe 6QAK · UniProt P49189
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