MolNFT v1 · #63011 · protein
Crystal structure of an uncharacterized sugar kinase PH1459 from pyrococcus horikoshii
3EWM: “Crystal structure of an uncharacterized sugar kinase PH1459 from pyrococcus horikoshii”. X-ray diffraction, 5 pockets (best druggability 0.73). MolNFT v1 #63011 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3EWM
- Type
- protein
- Length
- 595 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized sugar kinase PH1459
- EC
- 2.7.1.-
- UniProt
- O59128
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized sugar kinase PH1459 (EC 2.7.1.-) | protein | 304 | 40% helix, 25% strand | O59128 |
| B | Uncharacterized sugar kinase PH1459 (EC 2.7.1.-) | protein | 291 | 41% helix, 25% strand | O59128 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 600 | 0.73 | 0.80 | 52 | empty |
| 2 | 326 | 0.63 | 0.79 | 34 | empty |
| 3 | 143 | 0.47 | 0.77 | 19 | empty |
| 4 | 111 | 0.45 | 0.79 | 19 | empty |
| 5 | 69 | 0.37 | 0.78 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1248 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 3EWM · Crystal structure of an uncharacterized sugar kinase PH1459 from pyrococcus horikoshii · the same entry in another collection · chain A against A, TM-score 1.00
- O59128 · AlphaFold monomer V2.0 prediction for putative sugar kinase PH1459 (O59128) · 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 O59128
- Elsewhere: RCSB PDB 3EWM · PDBe 3EWM · UniProt O59128
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