Structure of PDB 8k06 Chain C Binding Site BS01

Receptor Information
>8k06 Chain C (length=303) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SLVKISPQVSEALSNGRAVVALESTIISHGMPYPQNLQTAKEVESIVREN
GAIPATIAILNGVPCIGLSEEELERLASLGKSVQKTAGRDIANVVATRGN
GATTVSATLFFASMVGIQVFVTGGIGGVHRHANHSMDISSDLTALGRTPI
AVISAGVASILDIPKTLEYLETQEVYVAAYKSDEFPAFFTEKSGCKAPSR
VNSPEDCARVIDANMKLNRQAGILFAIPIPKHHSAAGNLIESATQRALTE
AREQNVTGNAETPFLLARVNELTGGTSLAANIALVKNNALIGSQIAVALS
QLM
Ligand information
Ligand IDPSU
InChIInChI=1S/C9H13N2O9P/c12-5-4(2-19-21(16,17)18)20-7(6(5)13)3-1-10-9(15)11-8(3)14/h1,4-7,12-13H,2H2,(H2,16,17,18)(H2,10,11,14,15)/t4-,5-,6-,7+/m1/s1
InChIKeyMOBMOJGXNHLLIR-GBNDHIKLSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=P(OCC2OC(C1=CNC(=O)NC1=O)C(O)C2O)(O)O
CACTVS 3.341O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)C2=CNC(=O)NC2=O
OpenEye OEToolkits 1.5.0C1=C(C(=O)NC(=O)N1)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O
CACTVS 3.341O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)C2=CNC(=O)NC2=O
OpenEye OEToolkits 1.5.0C1=C(C(=O)NC(=O)N1)C2C(C(C(O2)COP(=O)(O)O)O)O
FormulaC9 H13 N2 O9 P
NamePSEUDOURIDINE-5'-MONOPHOSPHATE
ChEMBL
DrugBankDB03829
ZINCZINC000004095566
PDB chain8k06 Chain C Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8k06 Structure and function of the pseudouridine 5'-monophosphate glycosylase PUMY from Arabidopsis thaliana.
Resolution1.845 Å
Binding residue
(original residue number in PDB)		E50 T52 K112 T131 V132 S166 D168 L293
Binding residue
(residue number reindexed from 1)		E23 T25 K85 T104 V105 S139 D141 L266
Annotation score3
Enzymatic activity
Enzyme Commision number 4.2.1.70: pseudouridylate synthase.
Gene Ontology
Molecular Function
GO:0004730 pseudouridylate synthase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
GO:0016829 lyase activity
GO:0030597 RNA glycosylase activity
GO:0046872 metal ion binding
Biological Process
GO:0001522 pseudouridine synthesis
Cellular Component
GO:0005777 peroxisome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8k06, PDBe:8k06, PDBj:8k06
PDBsum8k06
PubMed38117089
UniProtQ84K35|PUMY_ARATH Pseudouridine-5'-phosphate glycosidase (Gene Name=PUMY)

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