MolNFT v1 · #63235 · protein
The structure of uncharacterized protein YKR043C from saccharomyces cerevisiae.
3F3K: “The structure of uncharacterized protein YKR043C from saccharomyces cerevisiae.”. X-ray diffraction, 8 pockets (best druggability 0.69). MolNFT v1 #63235 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3F3K
- Type
- protein
- Length
- 522 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein YKR043C
- UniProt
- P36136
- Pockets
- 8 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uncharacterized protein YKR043C | protein | 260 | 37% helix, 16% strand | P36136 |
| B | Uncharacterized protein YKR043C | protein | 262 | 38% helix, 16% strand | P36136 |
Ligands and binding sites
- GOL · Glycerol · additive · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 706 | 0.69 | 0.77 | 68 | empty |
| 2 | 723 | 0.69 | 0.77 | 71 | empty |
| 3 | 167 | 0.45 | 0.75 | 20 | GOL |
| 4 | 159 | 0.43 | 0.75 | 22 | empty |
| 5 | 70 | 0.31 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1503 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 3F3K · The structure of uncharacterized protein YKR043C from Saccharomyces cerevisiae. · the same entry in another collection · chain A against A, TM-score 1.00
- P36136 · AlphaFold monomer V2.0 prediction for sedoheptulose 1,7-bisphosphatase (P36136) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P36136
- Elsewhere: RCSB PDB 3F3K · PDBe 3F3K · UniProt P36136
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