MolNFT v1 · #28425 · protein
X-ray structure of gene product from arabidopsis thaliana AT4G09670
1YDW · AX110P-like protein: “X-ray structure of gene product from arabidopsis thaliana AT4G09670”. X-ray diffraction, 8 pockets (best druggability 0.74). MolNFT v1 #28425 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1YDW
- Type
- protein
- Length
- 693 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- AX110P-like protein
- UniProt
- Q9SZ83
- Pockets
- 8 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | AX110P-like protein | protein | 343 | 33% helix, 28% strand | Q9SZ83 |
| B | AX110P-like protein | protein | 350 | 34% helix, 27% strand | Q9SZ83 |
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 78 | 0.74 | 0.97 | 23 | empty |
| 2 | 396 | 0.72 | 0.83 | 45 | empty |
| 3 | 413 | 0.71 | 0.82 | 47 | empty |
| 4 | 204 | 0.50 | 0.76 | 32 | empty |
| 5 | 83 | 0.45 | 0.80 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 2482 Ų buried · 31 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 1YDW · X-ray structure of gene product from arabidopsis thaliana AT4G09670 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9SZ83 · AlphaFold monomer V2.0 prediction for uncharacterized oxidoreductase AT4G09670 (Q9SZ83) · a predicted model of the same protein · chain B 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 Q9SZ83
- Elsewhere: RCSB PDB 1YDW · PDBe 1YDW · UniProt Q9SZ83
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.