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Structure of PDB 2apc Chain A Binding Site BS01

Receptor Information
>2apc Chain A (length=342) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AVIPILVIACDRSTVRRCLDKLLHYRPSAELFPIIVSQDCGHEETAQVIA
SYGSAVTHIRQPDLSNIAVQPDHRKFQGYYKIARHYRWALGQIFHNFNYP
AAVVVEDDLEVAPDFFEYFQATYPLLKADPSLWCVSAWNDNGKEQMVDSS
KPELLYRTDFFPGLGWLLLAELWAELEPKWPKAFWDDWMRRPEQRKGRAC
VRPEISRTMTFGRKGVSHGQFFDQHLKFIKLNQQFVPFTQLDLSYLQQEA
YDRDFLARVYGAPQLQVEKVRTNDRKELGEVRVQYTGRDSFKAFAKALGV
MDDLKSGVPRAGYRGIVTFLFRGRRVHLAPPQTWDGYDPSWT
Ligand information
Ligand IDUDM
InChIInChI=1S/C18H29N3O16P2/c1-7(23)19-12-10(35-8(4-22)13(25)15(12)27)6-38(30,31)37-39(32,33)34-5-9-14(26)16(28)17(36-9)21-3-2-11(24)20-18(21)29/h2-3,8-10,12-17,22,25-28H,4-6H2,1H3,(H,19,23)(H,30,31)(H,32,33)(H,20,24,29)/t8-,9-,10-,12+,13-,14-,15-,16-,17-/m1/s1
InChIKeyKUFKOJZYUNOEES-DLLWPQOWSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CC(=O)N[C@H]1[C@H](O[C@@H]([C@H]([C@@H]1O)O)CO)C[P@](=O)(O)O[P@](=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O
CACTVS 3.341CC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)O[CH]1C[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O
OpenEye OEToolkits 1.5.0CC(=O)NC1C(OC(C(C1O)O)CO)CP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O
CACTVS 3.341CC(=O)N[C@@H]1[C@@H](O)[C@H](O)[C@@H](CO)O[C@@H]1C[P@@](O)(=O)O[P@@](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O
FormulaC18 H29 N3 O16 P2
NameURIDINE-DIPHOSPHATE-METHYLENE-N-ACETYL-GLUCOSAMINE;
((2S,3R,4R,5S,6R)-3-ACETAMIDO-4,5-DIHYDROXY-6-(HYDROXYMETHYL)-TETRAHYDRO-2H-PYRAN-2-YL)METHYLPHOSPHONIC (((2R,3S,4R,5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)-3,4-DIHYDROXY-TETRAHYDROFURAN-2-YL)METHYL PHOSPHORIC) ANHYDRIDE
ChEMBLCHEMBL596137
DrugBank
ZINCZINC000016051788
PDB chain2apc Chain A Residue 449 [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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PDB2apc X-ray Crystal Structures of Rabbit N-acetylglucosaminyltransferase I (GnT I) in Complex with Donor Substrate Analogues.
Resolution1.5 Å
Binding residue
(original residue number in PDB)
I113 A114 C115 R117 D144 C145 I187 H190 E211 D212 L269 W290 D291 G320 V321
Binding residue
(residue number reindexed from 1)
I8 A9 C10 R12 D39 C40 I82 H85 E106 D107 L164 W185 D186 G215 V216
Annotation score2
Binding affinityMOAD: Ki=28uM
Enzymatic activity
Catalytic site (original residue number in PDB) D213 D291
Catalytic site (residue number reindexed from 1) D108 D186
Enzyme Commision number 2.4.1.101: alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase.
Gene Ontology
Molecular Function
GO:0008375 acetylglucosaminyltransferase activity
Biological Process
GO:0006486 protein glycosylation

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:2apc, PDBe:2apc, PDBj:2apc
PDBsum2apc
PubMed16769084
UniProtP27115|MGAT1_RABIT Alpha-1,3-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase (Gene Name=MGAT1)

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