Structure of PDB 3wdl Chain C Binding Site BS02

Receptor Information
>3wdl Chain C (length=254) Species: 69014 (Thermococcus kodakarensis KOD1) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SHPRYWSLYYREKIIEGMEKGMTAKAGLIAHGRGEAFDYLIGERTIEPAE
RAMRAAVAKFLLAEHPVISVNGNVAALVPKETIELAKALNAKLEINLFYR
TEERVRTIAEELRKYDPEIEILGINPTKRIPGLEHERGKVDENGIWKADV
VLVPLEDGDRTEALVRMGKFVVTVDLNPLSRSARMADITIVDNIVRAYPR
MVELAREMKDYSREELLKIVGEYDNGKTLSDVLLHIRDRLTRLAEEGIWR
RKEL
Ligand information
Ligand IDATP
InChIInChI=1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyZKHQWZAMYRWXGA-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)O[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@](O)(=O)O[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
FormulaC10 H16 N5 O13 P3
NameADENOSINE-5'-TRIPHOSPHATE
ChEMBLCHEMBL14249
DrugBankDB00171
ZINCZINC000004261765
PDB chain3wdl Chain D Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB3wdl Crystal structure of phosphopantothenate synthetase from Thermococcus kodakarensis
Resolution2.4 Å
Binding residue
(original residue number in PDB)		R17 Y45
Binding residue
(residue number reindexed from 1)		R11 Y39
Annotation score5
Enzymatic activity
Enzyme Commision number 6.3.2.36: 4-phosphopantoate--beta-alanine ligase.
Gene Ontology
Molecular Function
GO:0005524 ATP binding
GO:0016874 ligase activity
GO:0016881 acid-amino acid ligase activity
Biological Process
GO:0015937 coenzyme A biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:3wdl, PDBe:3wdl, PDBj:3wdl
PDBsum3wdl
PubMed24638914
UniProtQ5JIZ8|PPS_THEKO 4-phosphopantoate--beta-alanine ligase (Gene Name=TK1686)

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