Structure of PDB 2gam Chain B Binding Site BS01

Receptor Information
>2gam Chain B (length=359) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NVNCTKILQGDPEEIQKVKRPRWTPHDYINMTRDCASFIRTRKYIVEPLT
KEEVGFPIAYSIVVHHKIEMLDRLLRAIYMPQNFYCIHVDRKAEESFLAA
VQGIASCFDNVFVASQLESVVYASWTRVKADLNCMKDLYRMNANWKYLIN
LCGMDFPIKTNLEIVRKLKCSTGENNLETEKMPPNKEERWKKRYAVVDGK
LTNTGIVKAPPPLKTPLFSGSAYFVVTREYVGYVLENENIQKLMEWAQDT
YSPDEFLWATIQRIPEVPGSFPSSNKYDLSDMNAIARFVKWQYFEGDVSN
GAPYPPCSGVHVRSVCVFGAGDLSWMLRQHHLFANKFDMDVDPFAIQCLD
EHLRRKALE
Ligand information
Ligand IDGAL
InChIInChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3+,4+,5-,6-/m1/s1
InChIKeyWQZGKKKJIJFFOK-FPRJBGLDSA-N
SMILES
SoftwareSMILES
CACTVS 3.370OC[C@H]1O[C@@H](O)[C@H](O)[C@@H](O)[C@H]1O
OpenEye OEToolkits 1.7.2C(C1C(C(C(C(O1)O)O)O)O)O
CACTVS 3.370OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
ACDLabs 12.01OC1C(O)C(OC(O)C1O)CO
OpenEye OEToolkits 1.7.2C([C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O)O
FormulaC6 H12 O6
Namebeta-D-galactopyranose;
beta-D-galactose;
D-galactose;
galactose
ChEMBLCHEMBL300520
DrugBank
ZINCZINC000002597049
PDB chain2gam Chain F Residue 2 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB2gam X-ray Crystal Structure of Leukocyte Type Core 2 beta1,6-N-Acetylglucosaminyltransferase: Evidence for a covergence of metal ion independent glycosyltransferase mechanism.
Resolution2.7 Å
Binding residue
(original residue number in PDB)		E243 K251 D346 W356 Y358 F359
Binding residue
(residue number reindexed from 1)		E178 K186 D281 W291 Y293 F294
Annotation score1
Enzymatic activity
Enzyme Commision number 2.4.1.102: beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N- acetylglucosaminyltransferase.
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003829 beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity
GO:0016757 glycosyltransferase activity
Biological Process
GO:0006486 protein glycosylation
GO:0009101 glycoprotein biosynthetic process
GO:0016268 O-glycan processing, core 2
GO:0032868 response to insulin
GO:0048729 tissue morphogenesis
GO:0050901 leukocyte tethering or rolling
GO:0060352 cell adhesion molecule production
GO:0060993 kidney morphogenesis
GO:1903238 positive regulation of leukocyte tethering or rolling
Cellular Component
GO:0000139 Golgi membrane
GO:0005615 extracellular space
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0016020 membrane
GO:0031985 Golgi cisterna

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:2gam, PDBe:2gam, PDBj:2gam
PDBsum2gam
PubMed16829524
UniProtQ09324|GCNT1_MOUSE Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase (Gene Name=Gcnt1)

[Back to BioLiP]