MolNFT v1 · #111002 · protein
Crystal structure of candida albicans protein farnesyltransferase in apo form
4YDO · Protein FARNESYLTRANSFERASE/GERANYLGERANYLTRANSFERASE type…: “Crystal structure of candida albicans protein farnesyltransferase in apo form”. X-ray diffraction, 2 ligands (CA, ZN), 10 pockets (best druggability 0.79). MolNFT v1…
- PDB
- 4YDO
- Type
- protein
- Length
- 715 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein FARNESYLTRANSFERASE/GERANYLGERANYLTRANSFERASE type- 1 subunit alpha…
- EC
- 2.5.1.58, 2.5.1.59
- UniProt
- Q9Y765, Q59LE1
- Ligands
- CA, ZN
- Pockets
- 10 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 57% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein FARNESYLTRANSFERASE/GERANYLGERANYLTRANSFERASE type- 1 subunit alpha (EC 2.5.1.58, 2.5.1.59) | protein | 303 | 67% helix, 2% strand | Q9Y765 |
| B | Uncharacterized protein | protein | 412 | 49% helix, 7% strand | Q59LE1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1107 | 0.79 | 0.81 | 104 | empty |
| 2 | 583 | 0.77 | 0.83 | 53 | empty |
| 3 | 226 | 0.54 | 0.77 | 21 | empty |
| 4 | 191 | 0.52 | 0.78 | 25 | empty |
| 5 | 114 | 0.47 | 0.79 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 3473 Ų buried · 47 hydrogen bonds · protein-protein
Compared structures
- 4YDO · Crystal structure of candida albicans protein farnesyltransferase in apo form · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y765 · AlphaFold monomer V2.0 prediction for protein FARNESYLTRANSFERASE/GERANYLGERANYLTRANSFERAS… · 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 Q9Y765
- Every structure of UniProt Q59LE1
- Elsewhere: RCSB PDB 4YDO · PDBe 4YDO · UniProt Q9Y765 · UniProt Q59LE1
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