Research workbench
Crystal structure of a putative oxidoreductase (YP_511008.1) from jannaschia sp. CCS1 at 1.62 a resolution
Analyse Crystal structure of a putative oxidoreductase (YP_511008.1) from jannaschia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3C24
- Type
- protein
- Length
- 551 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative oxidoreductase
- UniProt
- Q28MS9
- Ligands
- SO4
- Pockets
- 7 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative oxidoreductase | protein | 277 | 50% helix, 15% strand | Q28MS9 |
| B | Putative oxidoreductase | protein | 274 | 50% helix, 15% strand | Q28MS9 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 618 | 0.71 | 0.79 | 48 | SO4 |
| 2 | 488 | 0.70 | 0.80 | 40 | empty |
| 3 | 110 | 0.62 | 0.88 | 24 | empty |
| 4 | 75 | 0.38 | 0.78 | 20 | empty |
| 5 | 81 | 0.34 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 4736 Ų buried · 46 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 22 modified (engineered).
Compared structures
- 3C24 · Crystal structure of a putative oxidoreductase (YP_511008.1) from Jannaschia sp. CCS1 at… · 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 Q28MS9
- Elsewhere: RCSB PDB 3C24 · PDBe 3C24 · UniProt Q28MS9
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