Structure of PDB 5a07 Chain B Binding Site BS01

Receptor Information
>5a07 Chain B (length=394) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HDAEVLDSIMDRLHEPLYEKDTFDPNEVLAENKQLYEEFLLQEISEPKVD
NLVRSGDPLAGKAKGTILSLVRNSDLEDIISSIQQLEEEYNKNFGYPYTF
LNDEEFTDEFKDGIKSILPKDRVVEFGTIGPDNWNMPDSIDRERYDQEMD
KMSKENIQYAEVESYHNMCRFYSKEFYHHPLLSKYKYVWRLEPNVNFYCK
INYDVFQFMNKNDKIYGFVLNLYDSPQTIETLWTSTMDFVEEHPNYLNVN
GAFAWLKDNSQNPKNYDYTQGYSTCHFWTNFEIVDLDFLRSEPYEKYMQY
LEEKGGFYYERWGDAPVRSLALALFADKSSIHWFRDIGYHHTPYTNCPTC
PADSDRCNGNCVPGKFTPWSDLDNQNCQATWIRHSMSEEELEMY
Ligand information
Ligand IDGDP
InChIInChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(25-9)1-24-28(22,23)26-27(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKeyQGWNDRXFNXRZMB-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 12.01O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.7.6c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
FormulaC10 H15 N5 O11 P2
NameGUANOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL384759
DrugBankDB04315
ZINCZINC000008215481
PDB chain5a07 Chain B Residue 500 [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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PDB5a07 Structure of the Glycosyltransferase Ktr4P from Saccharomyces Cerevisiae
Resolution1.9 Å
Binding residue
(original residue number in PDB)		L140 V141 R142 N172 D173 W204 Y229 Y235 M238 E262 P263 H411
Binding residue
(residue number reindexed from 1)		L70 V71 R72 N102 D103 W134 Y159 Y165 M168 E192 P193 H341
Annotation score4
Enzymatic activity
Enzyme Commision number 2.4.1.-
Gene Ontology
Molecular Function
GO:0000026 alpha-1,2-mannosyltransferase activity
GO:0000030 mannosyltransferase activity
GO:0016757 glycosyltransferase activity
Biological Process
GO:0000032 cell wall mannoprotein biosynthetic process
GO:0006486 protein glycosylation
GO:0006487 protein N-linked glycosylation
GO:0006493 protein O-linked glycosylation
GO:0097502 mannosylation
Cellular Component
GO:0000324 fungal-type vacuole
GO:0005794 Golgi apparatus
GO:0016020 membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5a07, PDBe:5a07, PDBj:5a07
PDBsum5a07
PubMed26296208
UniProtP38131|KTR4_YEAST Probable mannosyltransferase KTR4 (Gene Name=KTR4)

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