Structure of PDB 7yjo Chain A Binding Site BS01

Receptor Information
>7yjo Chain A (length=418) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PLTEQEIDELCDEWVPEPLIPPITEDMKHEPPVLESAAGPHTTVNGKDVV
NFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFYGTIDVHLDCETR
ISKFLGTPDSILYSYGLSTMFSTIPCFCKKGDVIVADEGVHWGIQNGLQL
SRSTIVYFKHNDMESLRITLEKIMTKYKRSKNLRRYIVAEAVYQNSGQIA
PLDEIVKLKEKYRFRVILDESNSFGVLGRSGRGLAEHHSVPIEKIDVVTA
AMGHALATEGGFCTGNARIIDYQRLSSSGYVFSASLPPYLASAAITAIDV
IDQNPDMLVKLKQNVALLWKGLSDIKGMSLTSNRESPIVFLKLEKSSGSA
KDDLLLLEKMADRALKEDSLLVVSSKRSFLDKCRLPVGIKLYVSAGHSES
DLLKASESLKRLASELLL
Ligand information
Ligand IDPLS
InChIInChI=1S/C11H17N2O8P/c1-6-10(15)8(3-13-9(4-14)11(16)17)7(2-12-6)5-21-22(18,19)20/h2,9,13-15H,3-5H2,1H3,(H,16,17)(H2,18,19,20)/t9-/m0/s1
InChIKeyODVKKQWXKRZJLG-VIFPVBQESA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0Cc1c(c(c(cn1)COP(=O)(O)O)CNC(CO)C(=O)O)O
OpenEye OEToolkits 1.5.0Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@@H](CO)C(=O)O)O
ACDLabs 10.04O=C(O)C(NCc1c(cnc(c1O)C)COP(=O)(O)O)CO
CACTVS 3.341Cc1ncc(CO[P](O)(O)=O)c(CN[CH](CO)C(O)=O)c1O
CACTVS 3.341Cc1ncc(CO[P](O)(O)=O)c(CN[C@@H](CO)C(O)=O)c1O
FormulaC11 H17 N2 O8 P
Name[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-SERINE;
PYRIDOXYL-SERINE-5-MONOPHOSPHATE
ChEMBL
DrugBank
ZINCZINC000002047254
PDB chain7yjo Chain B Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7yjo Mechanism of sphingolipid homeostasis revealed by structural analysis of Arabidopsis SPT-ORM1 complex.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		F344 S345 A346
Binding residue
(residue number reindexed from 1)		F282 S283 A284
Annotation score1
Enzymatic activity
Enzyme Commision number 2.3.1.50: serine C-palmitoyltransferase.
Gene Ontology
Molecular Function
GO:0030170 pyridoxal phosphate binding
Biological Process
GO:0009058 biosynthetic process

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Molecular Function
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Biological Process
External links
PDB RCSB:7yjo, PDBe:7yjo, PDBj:7yjo
PDBsum7yjo
PubMed36989369
UniProtQ94IB8|SPTC1_ARATH Long chain base biosynthesis protein 1 (Gene Name=LCB1)

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