Structure of PDB 5l0u Chain A Binding Site BS01

Receptor Information
>5l0u Chain A (length=356) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SKWKVFIDQINRSLENYEPCSSQNCSCYHGVIEEDLTPFRGGISRKMMAE
VVRRKLGTHYQITKNRLYRENDCMFPSRCSGVEHFILEVIGRLPDMEMVI
NVRDYPQVPKWMEPAIPVFSFSKTSEYHDIMYPAWTFWEGGPAVWPIYPT
GLGRWDLFREDLVRSAAQWPWKKKNSTAYFRGSRTSPERDPLILLSRKNP
KLVDAEYTKNQAWKSMKDTLGKPAAKDVHLVDHCKYKYLFNFRGVAASFR
FKHLFLCGSLVFHVGDEWLEFFYPQLKPWVHYIPVKTDLSNVQELLQFVK
ANDDVAQEIAERGSQFIRNHLQMDDITCYWENLLSEYSKFLSYNVTRRKG
YDQIIP
Ligand information
Ligand ID660
InChIInChI=1S/C16H26N2O16P2/c19-3-6-10(21)13(24)12(23)8(32-6)5-35(27,28)34-36(29,30)31-4-7-11(22)14(25)15(33-7)18-2-1-9(20)17-16(18)26/h1-2,6-8,10-15,19,21-25H,3-5H2,(H,27,28)(H,29,30)(H,17,20,26)/t6-,7-,8-,10-,11-,12+,13+,14-,15-/m1/s1
InChIKeyWUPLBUVQIJIOHV-RIDHHKDKSA-N
SMILES
SoftwareSMILES
CACTVS 3.385OC[CH]1O[CH](C[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](O)[CH](O)[CH]1O
CACTVS 3.385OC[C@H]1O[C@H](C[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@H](O)[C@@H](O)[C@@H]1O
OpenEye OEToolkits 2.0.4C1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)OP(=O)(CC3C(C(C(C(O3)CO)O)O)O)O)O)O
OpenEye OEToolkits 2.0.4C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)OP(=O)(C[C@@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O)O)O)O)O)O
FormulaC16 H26 N2 O16 P2
Name[[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-[[(2~{S},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]methyl]phosphinic acid;
UDP-glucose phosphonate
ChEMBL
DrugBank
ZINCZINC000584905326
PDB chain5l0u Chain A Residue 404 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5l0u Structural basis of Notch O-glucosylation and O-xylosylation by mammalian protein-O-glucosyltransferase 1 (POGLUT1).
Resolution1.8 Å
Binding residue
(original residue number in PDB)
D133 I176 Y177 R210 G211 S212 R218 T237 D256 V257 G273 V274 A275 A276 S277 F278 R279
Binding residue
(residue number reindexed from 1)
D104 I147 Y148 R181 G182 S183 R189 T208 D227 V228 G244 V245 A246 A247 S248 F249 R250
Annotation score3
Enzymatic activity
Enzyme Commision number 2.4.1.376: EGF-domain serine glucosyltransferase.
2.4.2.63: EGF-domain serine xylosyltransferase.
Gene Ontology
Molecular Function
GO:0016757 glycosyltransferase activity
GO:0035251 UDP-glucosyltransferase activity
GO:0035252 UDP-xylosyltransferase activity
GO:0046527 glucosyltransferase activity
GO:0140561 EGF-domain serine glucosyltransferase activity
GO:0140562 EGF-domain serine xylosyltransferase activity
Biological Process
GO:0001756 somitogenesis
GO:0006486 protein glycosylation
GO:0006493 protein O-linked glycosylation
GO:0007369 gastrulation
GO:0008593 regulation of Notch signaling pathway
GO:0010470 regulation of gastrulation
GO:0018242 protein O-linked glycosylation via serine
GO:0045747 positive regulation of Notch signaling pathway
GO:0048318 axial mesoderm development
GO:0048339 paraxial mesoderm development
GO:0060537 muscle tissue development
GO:0072359 circulatory system development
Cellular Component
GO:0005783 endoplasmic reticulum
GO:0005788 endoplasmic reticulum lumen
GO:0012505 endomembrane system

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:5l0u, PDBe:5l0u, PDBj:5l0u
PDBsum5l0u
PubMed28775322
UniProtQ8NBL1|PGLT1_HUMAN Protein O-glucosyltransferase 1 (Gene Name=POGLUT1)

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