Research workbench
The X-ray crystal structure of streptococcus pneumoniae fatty acid kinase (fak) B1 protein loaded with palmitic acid (C16:0) to 1.76 ångström resolution
Analyse The X-ray crystal structure of streptococcus pneumoniae fatty acid kinase (fak)… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DKE
- Type
- protein
- Length
- 283 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fatty acid kinase (fak) B1 protein
- UniProt
- Q8DP17
- Ligands
- PLM
- Pockets
- 2 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fatty acid kinase (fak) B1 protein | protein | 283 | 40% helix, 24% strand | Q8DP17 |
Ligands and binding sites
- PLM · Palmitic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 117 | 0.76 | 0.95 | 29 | PLM |
| 2 | 102 | 0.44 | 0.78 | 20 | empty |
Compared structures
- 6DKE · The X-ray crystal structure of Streptococcus pneumoniae Fatty Acid Kinase (Fak) B1… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8DP17 · AlphaFold monomer V2.0 prediction for degv domain-containing protein SPR1415 (Q8DP17) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q8DP17
- Elsewhere: RCSB PDB 6DKE · PDBe 6DKE · UniProt Q8DP17
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