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
GCNT4



General Information
Gene Symbol:   
GCNT4
Protein name:   
Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase 4
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT14
E.C. No:   
2.4.1.102
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• This is C2GnT-3 or C2GnT-T (Thymus type), It is highly expressed in thymus but not in other tissue.
• C2GnT-3 deficiency altered behavior linked to reduced thyroxine levels in circulation.
• The enzyme mediates core 2 O-glycan branching, and is important for mucin-biosynthesis.
• Does not have core 4 O-glycan or I-branching enzyme activity

Related Pathway
KEGG ORTHOLOGY:   
K09663
KEGG Pathway:   
ko00512  ko01100 
Reactome:   
R-HSA-913709
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9P109 
NCBI GeneID:   
51301
GlyMap GeneID:   
51301
DNA aRefSeq:   
NM_016591.2 
Protein RefSeq:   
NP_057675.1 
BRENDA:   
Kinetic info.
OMIM number:   
-
GeneCards database:   
GCNT4
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type)
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Gal(b1-3)GalNAc(a1-?)Ser|Thr
Product:  
     Gal(b1-3)[GlcNAc(b1-6)]GalNAc(a1-?)Ser|Thr
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
No expression data available.
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 6 4 2 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-3945 69-76 -0.535 99.0 -0.535 99.0 noncon
hsa-miR-1293 412-419 -0.451 99.0 -0.451 99.0 noncon
hsa-miR-4712-5p 4616-4623 -0.427 98.0 -0.092 82.0 noncon
hsa-miR-214-5p 281-288 -0.422 99.0 -0.422 99.0 noncon
hsa-miR-770-5p 4616-4623 -0.419 98.0 -0.09 82.0 noncon
hsa-miR-1293 1201-1208 -0.412 98.0 -0.412 99.0 noncon
hsa-miR-6855-3p 245-252 -0.404 98.0 -0.404 99.0 noncon
hsa-miR-4513 245-252 -0.396 98.0 -0.396 99.0 noncon
hsa-miR-4500 521-528 -0.389 95.0 -0.389 96.0 con
hsa-let-7d-5p 521-528 -0.383 94.0 -0.383 96.0 con
hsa-miR-6715b-5p 28-35 -0.379 99.0 -0.379 99.0 noncon
hsa-miR-4483 412-419 -0.375 99.0 -0.375 99.0 noncon
hsa-miR-125a-5p 4817-4824 -0.372 97.0 -0.081 76.0 noncon
hsa-miR-6874-5p 819-826 -0.368 97.0 -0.368 98.0 noncon
hsa-miR-4458 521-528 -0.367 93.0 -0.367 95.0 con
hsa-let-7e-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-let-7i-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-let-7f-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-miR-98-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-let-7c-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-let-7a-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-miR-6871-5p 96-103 -0.365 98.0 -0.365 99.0 noncon
hsa-let-7b-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-let-7g-5p 521-528 -0.365 94.0 -0.365 95.0 con
hsa-miR-3943 3148-3154 -0.361 97.0 -0.257 94.0 noncon
hsa-miR-875-3p 1949-1956 -0.361 99.0 -0.257 98.0 noncon
hsa-miR-497-5p 2927-2934 -0.36 98.0 -0.256 95.0 con
hsa-miR-4471 3221-3228 -0.349 96.0 -0.248 94.0 noncon
hsa-miR-4483 1201-1208 -0.344 98.0 -0.344 99.0 noncon
hsa-miR-125b-5p 4817-4824 -0.34 96.0 -0.075 75.0 noncon
hsa-miR-15b-5p 2927-2934 -0.339 97.0 -0.242 94.0 con
hsa-miR-15a-5p 2927-2934 -0.339 97.0 -0.242 94.0 con
hsa-miR-424-5p 2927-2934 -0.336 97.0 -0.239 94.0 con
hsa-miR-3907 265-271 -0.336 95.0 -0.336 96.0 noncon
hsa-miR-4633-3p 818-825 -0.333 98.0 -0.333 98.0 noncon
hsa-miR-6500-5p 818-825 -0.333 98.0 -0.333 98.0 noncon
hsa-miR-4323 2316-2323 -0.332 97.0 -0.237 95.0 noncon
hsa-miR-4747-3p 4720-4726 -0.329 98.0 -0.072 75.0 noncon
hsa-miR-3675-5p 1830-1836 -0.327 95.0 -0.233 93.0 noncon
hsa-miR-6838-5p 2927-2934 -0.325 96.0 -0.232 93.0 con
hsa-miR-3115 4193-4200 -0.325 94.0 -0.072 68.0 noncon
hsa-miR-5699-5p 4281-4288 -0.324 97.0 -0.071 71.0 noncon
hsa-miR-6504-5p 4802-4809 -0.322 97.0 -0.071 77.0 noncon
hsa-miR-325 3275-3282 -0.321 96.0 -0.229 94.0 noncon
hsa-miR-3179 1788-1795 -0.318 96.0 -0.227 93.0 noncon
hsa-miR-1224-5p 855-862 -0.317 98.0 -0.317 99.0 noncon
hsa-miR-4319 4817-4824 -0.316 96.0 -0.07 73.0 noncon
hsa-miR-3064-3p 4573-4580 -0.316 94.0 -0.07 73.0 noncon
hsa-miR-6888-5p 3185-3192 -0.316 99.0 -0.226 98.0 noncon
hsa-miR-148b-3p 3122-3129 -0.314 95.0 -0.224 91.0 noncon
hsa-miR-152-3p 3122-3129 -0.314 95.0 -0.224 91.0 noncon
hsa-miR-148a-3p 3122-3129 -0.314 95.0 -0.224 91.0 noncon
hsa-miR-1277-5p 1387-1394 -0.309 99.0 -0.221 99.0 noncon
hsa-miR-6793-5p 1184-1191 -0.308 95.0 -0.308 96.0 noncon
hsa-miR-3064-5p 4802-4809 -0.306 97.0 -0.068 76.0 noncon
hsa-miR-6732-5p 1786-1792 -0.305 94.0 -0.218 90.0 noncon
hsa-miR-30b-3p 95-101 -0.304 95.0 -0.304 97.0 noncon
hsa-miR-1277-5p 1318-1325 -0.3 99.0 -0.214 99.0 noncon
hsa-miR-195-5p 2927-2934 -0.299 95.0 -0.214 92.0 con
hsa-miR-16-5p 2927-2934 -0.299 95.0 -0.214 92.0 con
hsa-miR-8059 3221-3228 -0.297 96.0 -0.213 95.0 noncon
hsa-miR-4445-3p 2518-2524 -0.295 90.0 -0.211 88.0 noncon
hsa-miR-1286 2728-2735 -0.292 97.0 -0.209 95.0 noncon
hsa-miR-6835-5p 1785-1791 -0.291 90.0 -0.208 81.0 noncon
hsa-miR-4714-5p 422-429 -0.289 97.0 -0.289 98.0 noncon
hsa-miR-548al 2518-2524 -0.287 90.0 -0.206 88.0 noncon
hsa-miR-7154-3p 93-99 -0.286 96.0 -0.286 97.0 noncon
hsa-miR-6780b-3p 131-138 -0.285 96.0 -0.285 97.0 noncon
hsa-miR-6796-5p 3374-3381 -0.284 92.0 -0.063 67.0 noncon
hsa-miR-550a-3-5p 283-289 -0.284 93.0 -0.284 95.0 noncon
hsa-miR-550a-5p 283-289 -0.284 93.0 -0.284 95.0 noncon
hsa-miR-6865-3p 24-30 -0.283 95.0 -0.283 96.0 noncon
hsa-miR-6779-5p 95-101 -0.282 93.0 -0.282 95.0 noncon
hsa-miR-383-5p.1 399-406 -0.282 93.0 -0.282 95.0 noncon
hsa-miR-4652-5p 2193-2200 -0.28 92.0 -0.201 88.0 noncon
hsa-miR-4269 28-35 -0.277 98.0 -0.277 99.0 noncon
hsa-miR-7106-5p 94-101 -0.275 97.0 -0.275 97.0 noncon
hsa-miR-6780a-5p 95-101 -0.274 94.0 -0.274 95.0 noncon
hsa-miR-3975 1578-1585 -0.272 98.0 -0.195 96.0 noncon
hsa-miR-1277-5p 1412-1419 -0.271 99.0 -0.194 98.0 noncon
hsa-miR-875-3p 1117-1123 -0.27 97.0 -0.27 98.0 noncon
hsa-miR-4520-2-3p 114-121 -0.266 90.0 -0.266 93.0 noncon
hsa-miR-6811-5p 165-171 -0.266 94.0 -0.266 96.0 noncon
hsa-miR-6822-3p 1861-1868 -0.266 95.0 -0.191 91.0 noncon
hsa-miR-491-5p 3373-3380 -0.263 92.0 -0.059 56.0 con
hsa-miR-6759-5p 1185-1191 -0.263 95.0 -0.263 96.0 noncon
hsa-miR-4433b-5p 4528-4535 -0.262 93.0 -0.059 62.0 noncon
hsa-miR-3689a-3p 95-101 -0.26 93.0 -0.26 95.0 noncon
hsa-miR-3689b-3p 95-101 -0.26 93.0 -0.26 95.0 noncon
hsa-miR-3689c 95-101 -0.26 93.0 -0.26 95.0 noncon
hsa-miR-4524b-5p 2928-2934 -0.26 90.0 -0.187 89.0 noncon
hsa-miR-4524a-5p 2928-2934 -0.26 90.0 -0.187 89.0 noncon
hsa-miR-676-3p 1624-1631 -0.258 96.0 -0.185 93.0 noncon
hsa-miR-4649-3p 1580-1587 -0.258 97.0 -0.185 95.0 noncon
hsa-miR-6828-5p 1988-1995 -0.255 93.0 -0.183 90.0 noncon
hsa-miR-519e-3p 284-290 -0.255 93.0 -0.255 95.0 noncon
hsa-miR-548au-3p 1719-1726 -0.254 93.0 -0.183 91.0 noncon
hsa-miR-24-3p 215-222 -0.254 95.0 -0.254 96.0 noncon
hsa-miR-1277-5p 1350-1357 -0.253 98.0 -0.182 98.0 noncon
hsa-miR-1271-3p 283-289 -0.251 90.0 -0.251 93.0 noncon
hsa-miR-134-3p 4740-4747 -0.25 94.0 -0.056 73.0 noncon
hsa-miR-6817-3p 1120-1127 -0.25 97.0 -0.25 97.0 noncon
hsa-miR-363-5p 413-419 -0.25 92.0 -0.25 94.0 noncon