Structure of PDB 3ldw Chain D Binding Site BS01

Receptor Information
>3ldw Chain D (length=352) Species: 126793 (Plasmodium vivax Sal-1) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
FRNMYDKYRDAFLSHLNEYSLEEEIKEHISKYYKLLFDYNCLGGKNNRGI
LVILIYEYVKNSSEWEKAACLAWCIEILQAAFLVADDIMDKGEMRRNKYC
WYLLKDVETKNAVNDVLLLYNSIYKLIEIYLRNESCYVDVIATFRDATLK
TIIGQHLDTNIFSDKYSHREIDVNNINVPEQPVIDINMINFGVYKNIVIH
KTAYYSFFLPIVCGMLLAGIDNLIYKKIEDISMLMGEYFQIHDDYLDIFG
DSTKTGKVGSDIQNNKLTWPLIKTFELCSEPDKIKIVKNYGKNNLACVKV
IDSLYEQYKIRKHYESYEKAQKAKILSAINELHHEGIEYVLKYLLEILFT
GV
Ligand information
Ligand IDZOL
InChIInChI=1S/C5H10N2O7P2/c8-5(15(9,10)11,16(12,13)14)3-7-2-1-6-4-7/h1-2,4,8H,3H2,(H2,9,10,11)(H2,12,13,14)
InChIKeyXRASPMIURGNCCH-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341OC(Cn1ccnc1)([P](O)(O)=O)[P](O)(O)=O
ACDLabs 10.04O=P(O)(O)C(O)(Cn1ccnc1)P(=O)(O)O
OpenEye OEToolkits 1.5.0c1cn(cn1)CC(O)(P(=O)(O)O)P(=O)(O)O
FormulaC5 H10 N2 O7 P2
NameZOLEDRONIC ACID;
(1-HYDROXY-2-IMIDAZOL-1-YLETHYLIDENE)DIPHOSPHONIC ACID
ChEMBLCHEMBL924
DrugBankDB00399
ZINCZINC000003803652
PDB chain3ldw Chain D Residue 397 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3ldw Molecular characterization of a novel geranylgeranyl pyrophosphate synthase from Plasmodium parasites.
Resolution2.47 Å
Binding residue
(original residue number in PDB)
D126 R135 Q195 K243 T244 D287 K301
Binding residue
(residue number reindexed from 1)
D86 R95 Q155 K201 T202 D243 K257
Annotation score1
Binding affinityMOAD: Ki=10.7nM
Enzymatic activity
Catalytic site (original residue number in PDB) K81 A121 D126 D130 R135 D198 K243 F283 D287 D288
Catalytic site (residue number reindexed from 1) K45 A81 D86 D90 R95 D158 K201 F239 D243 D244
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0004161 dimethylallyltranstransferase activity
GO:0004337 geranyltranstransferase activity
GO:0004659 prenyltransferase activity
GO:0016740 transferase activity
GO:0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups
GO:0046872 metal ion binding
Biological Process
GO:0008299 isoprenoid biosynthetic process
GO:0045337 farnesyl diphosphate biosynthetic process
Cellular Component
GO:0005737 cytoplasm
GO:0016020 membrane

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:3ldw, PDBe:3ldw, PDBj:3ldw
PDBsum3ldw
PubMed21084289
UniProtA5K4U6

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