GlyClass

GlycoEnzDB
Comprehensive glycoEnzyme database and dynamic pathway generation

Description: The GlycoEnzDB is a manually curated glycoEnzyme database, primarily focused on humans. It covers 390 enzymes across 28 pathway maps. Facilities are also available to create custom glycosylation reaction pathways using experimental data in SBML format and for pathway simulation
Contacts: Sriram Neelamegham (neel@buffalo.edu), Yusen Zhou (yusenzho@buffalo.edu) or Ted Groth (tgroth@buffalo.edu).

GlycoEnzDB
Create glycosylation pathway
Custom database generation
Instructions/Reference
 
Pathway Map
B3GALT2



General Information
Gene Symbol:   
B3GALT2
Protein name:   
Beta-1,3-galactosyltransferase 2
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.86
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• Forms type 1 LacNAc chains (Galβ1-3GlcNAc) primarily in cell types derived from the endoderm (lung, thyroid, pancreas etc.).
• Helps form Lewisa and Lewisb antigens, and also sialyl-Lea (CA19-9) and disialyl-Lea (FH7).
• Three enzymes may form the type I LacNAc chain (B3GalT-1, -2 and -5). The expression pattern of these three enzymes vary with B3Gal-T1 being restricted to brain as well as intestine and colon; B3Gal-T2 in heart, brain, and bone marrow; and B3Gal-T5 in the gastrointestinal tract.
• B3Gal-T1 showed activity toward simple βGlcNAc saccharides and lactoseries glycosphingolipids, but not N-glycans on ovalbumin and asialo-agalacto-fetuin.
• B3Gal-T2 shows activity with both simple βGlcNAc saccharides, βGlcNAc terminating lactoseries glycosphingolipids, and ovalbumin and asialoagalacto-fetuin N-glycoprotein acceptors.
• B3Gal-T5 produces type 1 chain linkage in glycolipids and core-3 O-glycans, but not N-linked glycoproteins.
• Thus, multiple enzymes act on GSLs, but only B3GalT2 is the primary enzyme modifying N-glycans.

Related Pathway
KEGG ORTHOLOGY:   
K07820
KEGG Pathway:   
ko00601  ko01100 
Reactome:   
R-HSA-9037629
Related Database
Organism:   
Homo sapiens
Uniprot:   
O43825 
NCBI GeneID:   
8707
GlyMap GeneID:   
8707
DNA aRefSeq:   
NM_003783.3 
Protein RefSeq:   
NP_003774.1 
BRENDA:   
Kinetic info.
OMIM number:   
603018
GeneCards database:   
B3GALT2
Enzyme Specificity
Glycan Type:  
     N-linked, O-linked (mucin type), GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GlcNAc(b1-?)
Product:  
     Gal(b1-3)GlcNAc(b1-?)
Constraints:  
     !Gal(b1-4)GlcNAc(b1-?)&!@GlcNAc(b1-4)...Man(b1-4)
Simulation Parameters
Mechaelis-Menten parameters (suggested)
VM:       (pmol/cell • hr)       KM:       (pM)
Relative conc of enzymes in compartment.(sum will be normalized to 1)
ER Cis- Medial- Trans- TGN










Expression Data in Tissue {ref. 5} Source from NCBI gene database
adrenal appendix bone marrow brain colon duodenum endometrium esophagus fat gall bladder heart kidney liver lung lymph node ovary pancreas placenta prostate salivary gland skin small intestine spleen stomach testis thyroid urinary bladder 20 10 0 RPKM
Expression Data in Cells {ref. 13} Source from Cancer Cell Line Encyclopedia database
Kidney Lung Breast Prostate Large intestine Ovary HL60 haematopoietic and lymphoid tissue Skin Central nervous system 786O A498 ACHN CAKI1 UO31 A549 EKVX HOP62 HOP92 NCIH226 NCIH23 NCIH322 NCIH460 NCIH522 SHP77 BT549 HS578T MCF7 MDAMB231 MDAMB468 T47D DU145 PC3 HCT116 HCT15 HT29 KM12 SW620 OVCAR4 OVCAR8 IGROV1 SKOV3 HL60 K562 RPMI8226 LOXIMVI MALME3M RPMI7951 SKMEL28 SKMEL5 UACC257 UACC62 SF268 SF295 SF539 SNB75 8 6 4 2 0 Transcripts per million (TPM)
Transcription factor {ref. 10}
Transcriptional start site (TSS) 0 200 -2000 -1800 -1600 -1400 -1200 -1000 -800 -600 -400 -200
ENST00000367434 EBF3 GATA1 GATA3 HOXC9 ELF3 ASCL1 STAT5A TEAD4 ATF2 ZNF629 HOXA2 PRDM10 ZNF652 FOXA1 RUNX1 USF2 ZBTB42 BATF TAL1 PKNOX1 KLF9 KMT2A TFAP4 TCF4 ASCL1 MYF5
miRNA-GlycoEnzyme Interactome {ref. 9}
B3GALT2/hsa-miR-519c-3p
miRNA Target Site Type Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
5'...AACAAUGUAUACAA UGCACUU U...
3'   UAGGAGAUUUUUCU ACGUGAA A
 7mer-m8 1203-1209 -0.292 97.0 -0.292 98.0 noncon