Structure of PDB 8yk5 Chain A Binding Site BS02

Receptor Information
>8yk5 Chain A (length=664) Species: 193460 (Streptomyces sanglieri) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DGLGAIKHVVILMQENRSFDHYFGTLRGVRGFGDRNAVELPSGKPVFEQP
AALGTSVLPFPVRDAAETQKKDLQYIGALDHSWSGGGKAWAGGWMNGWVS
AKTAATMAYYDRRDIPLHYELADTFTVCDAYHSSIHTSTSPNRNHLWSGK
TGNEPNGKRAVGNDAYNEGTHPGYDWGTYAERLEKAGRSWRTYTEWENFT
DNQIEFFATFKAVARKALAKTGGHTFMESFYAAVRDADATERERLFGLLE
EGVATLDKTERSLFERALRRVETGTLADEFAKDVAAGTLPEVSYLVPSAV
DSEHPSVSSPIHSATIVYKVLDALGKHPDVWRHTAVFINYDENDGFFDHV
PPPVASPEVTEEQWEGKPTGLGMRVPMLVVSPWTIGGYVCSEVFDHTSVV
RFLERWTGVAEPNISDWRRTVTGDLTSAFDFSHARRRPEVEQPGAIPPFS
GRWSPKPPAVQHMPVQEPGARPARALPYQPDAQATVEDGAVRVDLSNTGR
SSAHFALYPYAGEFPVPQHRDVKGTARWTVPVTGAAYRFTVTGPNGFRRE
FAGPAKDGASAGAEVASRVDARERDLHLTLRNTGRTTLTFTVRPLGYVDE
ADLRDWTRTVKVKPGRSRTVVHSAADAHGWYDLDVTVDGDDAFRRRLMGH
IENGRASVSGHHHH
Ligand information
Ligand IDGOL
InChIInChI=1S/C3H8O3/c4-1-3(6)2-5/h3-6H,1-2H2
InChIKeyPEDCQBHIVMGVHV-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.0C(C(CO)O)O
ACDLabs 12.01
CACTVS 3.370		OCC(O)CO
FormulaC3 H8 O3
NameGLYCEROL;
GLYCERIN;
PROPANE-1,2,3-TRIOL
ChEMBLCHEMBL692
DrugBankDB09462
ZINCZINC000000895048
PDB chain8yk5 Chain A Residue 702 [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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PDB8yk5 Structure of a phosphodiesterase from Streptomyces sanglieri with a novel C-terminal domain.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		E15 N16 H81 T139 N163 H304
Binding residue
(residue number reindexed from 1)		E15 N16 H81 T139 N163 H304
Annotation score1
Enzymatic activity
Enzyme Commision number 3.1.4.3: phospholipase C.
Gene Ontology
Molecular Function
GO:0004629 phospholipase C activity
GO:0016298 lipase activity
GO:0016787 hydrolase activity
GO:0016788 hydrolase activity, acting on ester bonds
GO:0034480 phosphatidylcholine phospholipase C activity
GO:0042578 phosphoric ester hydrolase activity
GO:0046872 metal ion binding
Biological Process
GO:0016042 lipid catabolic process

View graph for
Molecular Function
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Biological Process
External links
PDB RCSB:8yk5, PDBe:8yk5, PDBj:8yk5
PDBsum8yk5
PubMed38503170
UniProtA0A077KPD5

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