MolNFT v1 · #142704 · protein
Poly-cis-prenyltransferase
6ACS · DITRANS,POLYCIS-undecaprenyl-diphosphate synthase ((2E,6E)…: “Poly-cis-prenyltransferase”. X-ray diffraction, 6 pockets (best druggability 0.67). MolNFT v1 #142704 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6ACS
- Type
- protein
- Length
- 451 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DITRANS,POLYCIS-undecaprenyl-diphosphate synthase ((2E,6E)- farnesyl-diphosphate specific)
- EC
- 2.5.1.31
- UniProt
- A0A0D5YHU7
- Pockets
- 6 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DITRANS,POLYCIS-undecaprenyl-diphosphate synthase ((2E,6E)- farnesyl-diphosphate specific) (EC 2.5.1.31) | protein | 225 | 44% helix, 14% strand | A0A0D5YHU7 |
| B | DITRANS,POLYCIS-undecaprenyl-diphosphate synthase ((2E,6E)- farnesyl-diphosphate specific) (EC 2.5.1.31) | protein | 226 | 49% helix, 14% strand | A0A0D5YHU7 |
Ligands and binding sites
- CIT · Citric acid · additive · 2 copies · chains A
- IPA · Isopropyl alcohol · additive · 2 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 311 | 0.67 | 0.81 | 32 | CIT, GOL |
| 2 | 463 | 0.62 | 0.76 | 44 | GOL |
| 3 | 415 | 0.60 | 0.76 | 54 | CIT |
| 4 | 59 | 0.40 | 0.81 | 17 | empty |
| 5 | 58 | 0.38 | 0.80 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1862 Ų buried · 32 hydrogen bonds · protein-protein
Compared structures
- 6ACS · poly-cis-prenyltransferase · 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 A0A0D5YHU7
- Elsewhere: RCSB PDB 6ACS · PDBe 6ACS · UniProt A0A0D5YHU7
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