Structure of PDB 5jv0 Chain F

Receptor sequence

>5jv0F (length=341) Species: 9606 (Homo sapiens)

DVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYNAIGGK
YNRGLTVVVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMD
SSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPYYLNLI
ELFLQSSYQTEIGQTLDLLTAPNVDLVRFTEKRYKSIVKYKTAFYSFYLP
IAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIG
TDIQDNKCSWLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELD
LPAVFLQYEEDSYSHIMALIEQYAAPLPPAVFLGLARKIYK

3D structure

• PDB: 5jv0 Pharmacophore Mapping of Thienopyrimidine-Based Monophosphonate (ThP-MP) Inhibitors of the Human Farnesyl Pyrophosphate Synthase.
• Chain: F
• Resolution: 2.4 Å

Enzymatic activity

• Enzyme Commision number: 2.5.1.1: dimethylallyltranstransferase.
  2.5.1.10: (2E,6E)-farnesyl diphosphate synthase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	YL5	F	N59 F206 F239 Q242 L246 L344 K347	N52 F197 F230 Q233 L237 L335 K338	MOAD: ic50=1.1uM PDBbind-CN: -logKd/Ki=5.96,IC50=1.1uM BindingDB: IC50=1100nM
BS02	YL5	F	L71 V72 E73 P74 A217 I219 P335	L64 V65 E66 P67 A208 I210 P326	MOAD: ic50=1.1uM PDBbind-CN: -logKd/Ki=5.96,IC50=1.1uM BindingDB: IC50=1100nM
BS03	YL5	F	Y322 Y349 K350	Y313 Y340 K341	MOAD: ic50=1.1uM PDBbind-CN: -logKd/Ki=5.96,IC50=1.1uM BindingDB: IC50=1100nM

Gene Ontology

Molecular Function

• GO:0004659 prenyltransferase activity
• GO:0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups

Biological Process

• GO:0008299 isoprenoid biosynthetic process

External links

• PDB: RCSB:5jv0, PDBe:5jv0, PDBj:5jv0
• PDBsum: 5jv0
• PubMed: 28208018
• UniProt: P14324|FPPS_HUMAN Farnesyl pyrophosphate synthase (Gene Name=FDPS)