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
GCNT2



General Information
Gene Symbol:   
GCNT2
Protein name:   
N-acetyllactosaminide beta-1,6-N-acetylglucosaminyl-transferase
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT14
E.C. No:   
2.4.1.150
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• This is the β1,6-N-acetylglucosaminyltransferase or IGnT enzyme, forming the GlcNAcβ1-3(GlcNAcβ1-6)Galβ1-3GalNAcα1-R branch from the linear GlcNAcβ1-3Galβ1-3GalNAcα1-R lactosamine structure.
• In humans, GCNT2 is expressed as three spliced variants IGnTA, IGnTB and IGnTC.
• GCNT2 is overexpressed in highly metastatic breast cancer cell lines and basal-like breast tumor samples. Thus, GCNT2 expression correlates with metastatic phenotype of tumors.
• GCNT2 also enhances cell detachment, adhesion to endothelial cells, cell migration and invasion in vitro, and lung metastasis of breast cancer cells in vivo.

Related Pathway
KEGG ORTHOLOGY:   
K00742
KEGG Pathway:   
ko00601  ko01100 
Reactome:   
No Record
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q8N0V5 
NCBI GeneID:   
2651
GlyMap GeneID:   
2651
DNA aRefSeq:   
NM_001491.2 
Protein RefSeq:   
NP_001482.1 
BRENDA:   
Kinetic info.
OMIM number:   
600429
GeneCards database:   
GCNT2
Enzyme Specificity
Glycan Type:  
     N-linked, O-linked (mucin type), GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Gal(b1-4)GlcNAc(b1-3)Gal(b1-4)GlcNAc(b1-?)
Product:  
     Gal(b1-4)GlcNAc(b1-3)[GlcNAc(b1-6)]Gal(b1-4)GlcNAc(b1-?)
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 8 6 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 60 50 40 30 20 10 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
ENST00000265012 ENST00000316170 ENST00000379597 ENST00000397423 ENST00000410107 ENST00000474983 ENST00000489225 ENST00000489819 OTX2 TAF1 SMAD4 NANOG OTX2 YY1 SOX2 TAL1 FOXA1 TBP SP1 TEAD4 NANOG ZNF449
miRNA-GlycoEnzyme Interactome {ref. 9}
GCNT2/hsa-miR-4727-3p
miRNA Target Site Type Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
5'...GCACAGAGGCCAGU CCCACUAA ...
3'   CUUAGACGGUCGAA GGGUGAU A
 8mer 1926-1933 -0.283 91.0 -0.283 94.0 noncon