FuncClass

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}
miRNA Name Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
hsa-miR-4708-3p 159-166 -0.584 99.0 -0.584 99.0 noncon
hsa-miR-4758-3p 27-34 -0.562 99.0 -0.562 99.0 noncon
hsa-miR-6782-5p 200-207 -0.54 99.0 -0.54 99.0 noncon
hsa-miR-4667-3p 276-283 -0.537 99.0 -0.537 99.0 noncon
hsa-miR-454-5p 262-269 -0.522 99.0 -0.522 99.0 noncon
hsa-miR-4799-3p 479-486 -0.449 99.0 -0.036 67.0 noncon
hsa-miR-4720-5p 479-486 -0.444 99.0 -0.036 69.0 noncon
hsa-miR-4473 1080-1087 -0.442 96.0 -0.036 47.0 noncon
hsa-miR-5588-5p 479-486 -0.441 99.0 -0.036 66.0 noncon
hsa-miR-4771 1210-1217 -0.439 98.0 -0.036 53.0 noncon
hsa-miR-921 234-241 -0.435 98.0 -0.435 99.0 noncon
hsa-miR-634 318-325 -0.401 98.0 -0.401 99.0 noncon
hsa-miR-4540 1253-1259 -0.399 97.0 -0.033 56.0 noncon
hsa-miR-3139 439-445 -0.383 98.0 -0.383 99.0 noncon
hsa-miR-3605-5p 972-979 -0.381 97.0 -0.032 54.0 noncon
hsa-miR-512-3p 1079-1086 -0.375 99.0 -0.031 68.0 noncon
hsa-miR-708-5p 439-445 -0.373 98.0 -0.373 98.0 noncon
hsa-miR-3194-5p 562-569 -0.373 97.0 -0.031 61.0 noncon
hsa-miR-6500-5p 438-444 -0.372 98.0 -0.372 99.0 noncon
hsa-miR-4633-3p 438-444 -0.372 98.0 -0.372 99.0 noncon
hsa-miR-28-5p 439-445 -0.362 98.0 -0.362 98.0 noncon
hsa-miR-101-3p.1 416-422 -0.361 98.0 -0.361 98.0 noncon
hsa-miR-3138 1097-1103 -0.36 95.0 -0.03 37.0 noncon
hsa-miR-4639-3p 268-275 -0.358 98.0 -0.358 99.0 noncon
hsa-miR-6794-3p 269-276 -0.353 97.0 -0.353 98.0 noncon
hsa-miR-4303 52-59 -0.351 98.0 -0.351 99.0 noncon
hsa-miR-766-5p 218-225 -0.349 98.0 -0.349 98.0 noncon
hsa-miR-342-3p 514-521 -0.342 98.0 -0.029 76.0 con
hsa-miR-941 800-806 -0.339 90.0 -0.028 44.0 noncon
hsa-miR-532-3p 78-85 -0.339 98.0 -0.339 99.0 con
hsa-miR-6758-3p 246-253 -0.339 98.0 -0.339 99.0 noncon
hsa-miR-597-3p 400-406 -0.336 96.0 -0.336 97.0 noncon
hsa-miR-6125 865-872 -0.334 94.0 -0.028 38.0 noncon
hsa-miR-7847-3p 220-226 -0.331 95.0 -0.331 97.0 noncon
hsa-miR-221-5p 992-998 -0.321 98.0 -0.027 56.0 noncon
hsa-miR-323a-5p 1046-1052 -0.315 96.0 -0.027 55.0 noncon
hsa-miR-3972 563-570 -0.304 96.0 -0.026 64.0 noncon
hsa-miR-4279 380-387 -0.298 97.0 -0.298 98.0 noncon
hsa-miR-4687-5p 122-128 -0.294 97.0 -0.294 98.0 noncon
hsa-miR-7975 1250-1256 -0.292 96.0 -0.025 60.0 noncon
hsa-miR-6779-3p 87-93 -0.29 97.0 -0.29 98.0 noncon
hsa-miR-4747-5p 405-411 -0.288 95.0 -0.288 96.0 noncon
hsa-miR-5591-3p 141-147 -0.287 95.0 -0.287 97.0 noncon
hsa-miR-3128 991-997 -0.284 97.0 -0.024 54.0 noncon
hsa-miR-4436b-5p 1183-1190 -0.278 97.0 -0.024 72.0 noncon
hsa-miR-3166 1211-1217 -0.278 92.0 -0.024 42.0 noncon
hsa-miR-466 1164-1171 -0.278 98.0 -0.024 66.0 noncon
hsa-miR-4796-3p 1100-1107 -0.277 98.0 -0.024 78.0 noncon
hsa-miR-8073 992-998 -0.277 97.0 -0.024 54.0 noncon
hsa-miR-1260a 888-895 -0.273 93.0 -0.023 55.0 noncon
hsa-miR-1260b 888-895 -0.273 93.0 -0.023 55.0 noncon
hsa-miR-339-5p 934-940 -0.273 93.0 -0.023 61.0 noncon
hsa-miR-500b-3p 176-183 -0.27 98.0 -0.27 98.0 noncon
hsa-miR-6838-3p 1253-1259 -0.268 96.0 -0.023 54.0 noncon
hsa-miR-3620-3p 1026-1033 -0.264 96.0 -0.023 59.0 noncon
hsa-miR-7515 408-414 -0.262 95.0 -0.262 96.0 noncon
hsa-miR-619-3p 362-368 -0.26 97.0 -0.26 98.0 noncon
hsa-miR-3119 966-973 -0.259 94.0 -0.022 58.0 noncon
hsa-miR-7851-3p 703-709 -0.258 92.0 -0.022 49.0 noncon
hsa-miR-3128 480-486 -0.256 96.0 -0.022 52.0 noncon
hsa-miR-130b-5p 396-403 -0.253 97.0 -0.253 98.0 noncon
hsa-miR-7977 63-69 -0.251 97.0 -0.251 98.0 noncon