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
GCNT3



General Information
Gene Symbol:   
GCNT3
Protein name:   
Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase 3
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT14
E.C. No:   
2.4.1.102
Organs:   
Reaction (SNFG):   
+
→
+ UDP
+
→
+ UDP
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• This is C2GnT-2 or C2GnT-M (mucin type) that is the only enzyme acting as core-4 GlcNAcT.
• It acts in concert with B3GNT6 (core-3 synthase) to form core-4 structures on O-linked glycans.
• Additionally, GCNT3 also exhibits core2 and I-branching activity [mainly dIGnT on GlcNAc(β1-3)Gal(β1-4)GlcNAc(β1) substrates].
• Expressed in colon, gall bladder, intestine, stomach and duodenum.
• Physiological outcomes of missing this enzymes in mouse is relatively mild, though its expression is reduced during colorectal cancer cell proliferation and it may play a role during certain microbial infections.

Related Pathway
KEGG ORTHOLOGY:   
K09662
KEGG Pathway:   
ko00512  ko01100 
Reactome:   
R-HSA-913709
Related Database
Organism:   
Homo sapiens
Uniprot:   
O95395 
NCBI GeneID:   
9245
GlyMap GeneID:   
9245
DNA aRefSeq:   
NM_004751.2 
Protein RefSeq:   
NP_004742.1 
BRENDA:   
Kinetic info.
OMIM number:   
606836
GeneCards database:   
GCNT3
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type)
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GlcNAc(b1-3)GalNAc(a1-?)Ser|Thr or Gal(b1-3)GalNAc(a1-?)Ser|Thr or ...GlcNAc(b1-3)Gal(b1-4)GlcNAc(b1-?)
Product:  
     GlcNAc(b1-3)[GlcNAc(b1-6)]GalNAc(a1-?)Ser|Thr or Gal(b1-3)[GlcNAc(b1-6)]GalNAc(a1-?)Ser|Thr or ...GlcNAc(b1-3)[GlcNAc(b1-6)]Gal(b1-4)GlcNAc(b1-?)
Constraints:  
     !NeuAc(a2-3)Gal(b1-3)GalNAc(a1-r)&!Gal(b1-3 [3S])GalNAc(a1-?)
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 100 80 60 40 20 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 200 180 160 140 120 100 80 60 40 20 0 Transcripts per million (TPM)
Transcription factor {ref. 10}
No high degree of confidence data
miRNA-GlycoEnzyme Interactome {ref. 9}
GCNT3/hsa-miR-4708-3p
miRNA Target Site Type Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
5'...UAAGUAGAUCUUUU GCCUUGCA ...
3'   UAGUCUCUCUACGG CGGAACG A
 8mer 159-166 -0.584 99.0 -0.584 99.0 noncon