Research workbench
Structure of putative short-chain dehydrogenase (Saro_0793) from Novosphingobium aromaticivorans
Analyse Structure of putative short-chain dehydrogenase (Saro_0793) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IOY
- Type
- protein
- Length
- 547 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.9
- Source
- Novosphingobium aromaticivorans DSM 12444
- Molecule
- Short-chain dehydrogenase/reductase SDR
- UniProt
- Q2GA85
- Pockets
- 5 · best druggability 0.63
Structure
x-ray diffraction · resolution 1.9 · 2 distinct chains · 56% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Short-chain dehydrogenase/reductase SDR | protein | 277 | 56% helix, 13% strand | Q2GA85 |
| B | Short-chain dehydrogenase/reductase SDR | protein | 270 | 56% helix, 14% strand | Q2GA85 |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 494 | 0.63 | 0.76 | 49 | empty |
| 2 | 482 | 0.63 | 0.76 | 54 | empty |
| 3 | 86 | 0.61 | 0.89 | 22 | empty |
| 4 | 98 | 0.60 | 0.87 | 27 | empty |
| 5 | 58 | 0.31 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 4212 Ų buried · 43 hydrogen bonds · protein-protein
Compared structures
- 3IOY · Structure of putative short-chain dehydrogenase (SARO_0793) from novosphingobium… · 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 Q2GA85
- Elsewhere: RCSB PDB 3IOY · PDBe 3IOY · UniProt Q2GA85
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