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
 

Glycogene class
A4GNT
ABO
B3GALNT2
B3GALT1
B3GALT2
B3GALT5
B3GAT1
B3GAT2
B3GLCT
B3GNT2
B3GNT3
B3GNT4
B3GNT6
B3GNT7
B4GALNT2
B4GALNT3
B4GALNT4
B4GALT1
B4GALT2
B4GALT3
B4GALT4
B4GALT5
C1GALT1
C1GALT1C1
CHST1
CHST10
CHST2
CHST3
CHST4
CHST5
CHST8
CHST9
CMAS
EOGT
FKRP
FKTN
FPGT
FUCA1
FUT1
FUT2
FUT3
FUT4
FUT5
FUT6
FUT7
FUT9
GAL3ST2
GAL3ST3
GAL3ST4
GALNT1
GALNT10
GALNT11
GALNT12
GALNT13
GALNT14
GALNT15
GALNT16
GALNT17
GALNT18
GALNT2
GALNT3
GALNT4
GALNT5
GALNT6
GALNT7
GALNT8
GALNT9
GALNTL6
GCNT1
GCNT2
GCNT3
GCNT4
GXYLT1
GXYLT2
LFNG
MFNG
MGAT5B
NEU1
NEU2
NEU3
NEU4
OGT
POFUT1
POFUT2
POGLUT1
POGLUT2
POGLUT3
POMGNT1
POMGNT2
POMT1
POMT2
RFNG
RXYLT1
ST3GAL1
ST3GAL2
ST3GAL3
ST3GAL4
ST3GAL6
ST6GAL1
ST6GAL2
ST6GALNAC1
ST6GALNAC2
ST6GALNAC3
ST6GALNAC4
ST8SIA2
ST8SIA3
ST8SIA4
ST8SIA6
TMTC1
TMTC2
TMTC3
TMTC4
XXYLT1
Pathway Map

B3GALT1



General Information
Gene Symbol:   
B3GALT1
Protein name:   
Beta-1,3-galactosyltransferase 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
E.C. No:   
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 (N19-9) 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 lacto-series glycosphingolipids, but not N-glycans on ovalbumin and asialo-agalacto-fetuin.
• B3Gal-T2 shows activity with both simple βGlcNAc saccharides, βGlcNAc terminating lacto-series 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 acts on N-glycans.


Related Pathway
KEGG ORTHOLOGY:   
KEGG Pathway:   
Reactome:   

Related Database
Organism:   
Homo sapiens
Uniprot:   
NCBI GeneID:   
GlyMap GeneID:   
DNA aRefSeq:   
Protein RefSeq:   
BRENDA:   
OMIM number:   
GeneCards database:   

Enzyme Specificity
Glycan Type:  
     O-linked (mucin type), O-linked (other), 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 4 2 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 20 10 0 Transcripts per million (TPM)
Transcription factor {ref. 10}
No high degree of confidence data

miRNA-GlycoEnzyme Interactome {ref. 9}
B3GALT1/hsa-miR-15b-5p
miRNA Target Site Type Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
5'...GGGUUGCCAAUCAA GCUGCUA A...
3'   ACAUUUGGUACUACA CGACGA U
7mer-A1 3806-3812 -0.262 93.0 -0.071 73.0 con