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
C1GALT1



General Information
Gene Symbol:   
C1GALT1
Protein name:   
Glycoprotein-N-acetylgalactosamine 3-beta-galactosyltransferase 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.122
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• Forms T-antigen. In the absence of this, we are left with the Tn-antigen.
• Core-2 O-glycans are not formed in the absence of this enzyme, and in leukocytes this results in reduced cell adhesion.
• Absence of T-antigen promotes metastasis in a number of models including pancreatic cancer.
• Tn-syndrome is a rare hematological disorder characterized by the expression of the Tn-antigen on a subpopulation of blood cells in all lineages.
• Active T-synthase in vertebrates, including humans, requires a specific molecular chaperone Cosmc (Core-1 β3galactosyltransferase Specific Molecular Chaperone) or C1GALT1C1 (Core-1 β3Galactosyltransferase Chaperone-1) for its folding in vivo.
• T-synthase is localized in Golgi apparatus, Cosmc mainly resides in the endoplasmic reticulum (ER).
• Knocking out C1GalT1 activity in mice results in severe hematological disorders.

Related Pathway
KEGG ORTHOLOGY:   
K00731
KEGG Pathway:   
ko00512  ko01100 
Reactome:   
R-HSA-5083632
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9NS00 
NCBI GeneID:   
56913
GlyMap GeneID:   
56913
DNA aRefSeq:   
NM_020156.4 
Protein RefSeq:   
NP_064541.1 
BRENDA:   
Kinetic info.
OMIM number:   
610555
GeneCards database:   
C1GALT1
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type)
Compartment:  
     
Substrate:  
     GalNAc(a1-?)Ser|Thr
Product:  
     Gal(b1-3)GalNAc(a1-?)Ser|Thr
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 10 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 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-199b-5p 76-83 -0.503 98.0 -0.503 99.0 con
hsa-miR-199a-5p 76-83 -0.495 98.0 -0.495 98.0 con
hsa-miR-148a-3p 40-47 -0.487 99.0 -0.487 99.0 con
hsa-miR-148b-3p 40-47 -0.487 99.0 -0.487 99.0 con
hsa-miR-152-3p 40-47 -0.487 99.0 -0.487 99.0 con
hsa-miR-6782-3p 19-26 -0.486 99.0 -0.486 99.0 noncon
hsa-miR-4800-5p 3350-3357 -0.461 98.0 -0.097 75.0 noncon
hsa-miR-1287-3p 4473-4480 -0.443 97.0 -0.094 76.0 noncon
hsa-miR-124-3p.2 376-383 -0.437 97.0 -0.437 98.0 con
hsa-miR-6801-5p 290-297 -0.431 99.0 -0.431 99.0 noncon
hsa-miR-6748-5p 488-495 -0.41 97.0 -0.41 97.0 noncon
hsa-miR-506-3p 376-383 -0.409 98.0 -0.409 98.0 con
hsa-miR-659-5p 3348-3355 -0.399 97.0 -0.085 75.0 noncon
hsa-miR-296-5p 2785-2792 -0.396 95.0 -0.085 67.0 noncon
hsa-miR-6499-3p 346-353 -0.396 99.0 -0.396 99.0 noncon
hsa-miR-1245b-3p 4896-4903 -0.385 99.0 -0.039 66.0 noncon
hsa-miR-5190 309-316 -0.385 99.0 -0.385 99.0 noncon
hsa-miR-4455 486-493 -0.385 95.0 -0.385 96.0 noncon
hsa-miR-7106-3p 2259-2266 -0.385 97.0 -0.083 71.0 noncon
hsa-miR-5591-3p 821-828 -0.376 97.0 -0.278 97.0 noncon
hsa-miR-1271-5p 1769-1776 -0.375 97.0 -0.081 78.0 con
hsa-miR-124-3p.1 4825-4831 -0.371 98.0 -0.08 84.0 con
hsa-miR-3922-5p 629-636 -0.367 98.0 -0.272 96.0 noncon
hsa-miR-6730-5p 123-130 -0.355 98.0 -0.355 99.0 noncon
hsa-miR-96-5p 1769-1776 -0.354 97.0 -0.076 78.0 con
hsa-miR-193b-3p 2655-2662 -0.353 96.0 -0.076 73.0 con
hsa-miR-193a-3p 2655-2662 -0.353 96.0 -0.076 73.0 con
hsa-miR-4641 625-631 -0.351 95.0 -0.261 93.0 noncon
hsa-miR-454-5p 2256-2263 -0.348 96.0 -0.075 76.0 noncon
hsa-miR-298 55-62 -0.342 98.0 -0.342 98.0 noncon
hsa-miR-586 4861-4868 -0.34 98.0 -0.074 83.0 noncon
hsa-let-7d-5p 2202-2209 -0.332 91.0 -0.072 61.0 con
hsa-miR-491-3p 4863-4870 -0.331 96.0 -0.072 71.0 noncon
hsa-miR-98-5p 2202-2209 -0.33 91.0 -0.072 63.0 con
hsa-miR-4536-5p 482-489 -0.328 94.0 -0.328 96.0 noncon
hsa-miR-196a-5p 2197-2204 -0.324 96.0 -0.071 75.0 con
hsa-let-7a-5p 2202-2209 -0.322 91.0 -0.07 63.0 con
hsa-let-7c-5p 2202-2209 -0.322 90.0 -0.07 63.0 con
hsa-miR-4661-5p 2371-2378 -0.322 94.0 -0.07 67.0 noncon
hsa-let-7f-5p 2202-2209 -0.322 90.0 -0.07 63.0 con
hsa-miR-887-3p 756-762 -0.322 94.0 -0.24 91.0 noncon
hsa-miR-3607-5p 128-135 -0.322 99.0 -0.322 99.0 noncon
hsa-miR-4505 2676-2683 -0.322 96.0 -0.07 71.0 noncon
hsa-let-7e-5p 2202-2209 -0.322 90.0 -0.07 63.0 con
hsa-miR-1233-3p 3287-3294 -0.32 97.0 -0.07 74.0 noncon
hsa-miR-4661-5p 2524-2531 -0.316 94.0 -0.069 67.0 noncon
hsa-let-7g-5p 2202-2209 -0.314 90.0 -0.069 62.0 con
hsa-miR-4500 2202-2209 -0.314 90.0 -0.069 63.0 con
hsa-let-7b-5p 2202-2209 -0.314 90.0 -0.069 63.0 con
hsa-let-7i-5p 2202-2209 -0.314 90.0 -0.069 62.0 con
hsa-miR-124-3p.1 986-992 -0.313 96.0 -0.068 82.0 con
hsa-miR-4326 223-229 -0.31 96.0 -0.31 97.0 noncon
hsa-miR-526b-5p 435-442 -0.31 97.0 -0.31 98.0 noncon
hsa-miR-196b-5p 2197-2204 -0.308 95.0 -0.067 74.0 con
hsa-miR-3714 375-382 -0.303 99.0 -0.303 99.0 noncon
hsa-miR-4762-5p 4447-4454 -0.294 98.0 -0.065 85.0 noncon
hsa-miR-370-5p 3439-3446 -0.285 96.0 -0.063 82.0 noncon
hsa-miR-3690 3131-3138 -0.28 96.0 -0.062 81.0 noncon
hsa-miR-374c-3p 1490-1497 -0.28 95.0 -0.062 81.0 noncon
hsa-miR-556-3p 23-29 -0.279 97.0 -0.279 98.0 noncon
hsa-miR-4326 257-263 -0.278 94.0 -0.278 96.0 noncon
hsa-miR-642a-5p 4643-4650 -0.276 97.0 -0.061 83.0 noncon
hsa-miR-9-3p 151-158 -0.272 97.0 -0.272 97.0 noncon
hsa-miR-6856-5p 4561-4568 -0.271 97.0 -0.06 79.0 noncon
hsa-miR-1291 3228-3234 -0.271 91.0 -0.06 60.0 noncon
hsa-miR-29c-3p 1186-1193 -0.271 90.0 -0.06 66.0 noncon
hsa-miR-29b-3p 1186-1193 -0.271 90.0 -0.06 66.0 noncon
hsa-miR-29a-3p 1186-1193 -0.271 90.0 -0.06 66.0 noncon
hsa-miR-30e-3p 43-50 -0.27 98.0 -0.27 98.0 noncon
hsa-miR-30d-3p 43-50 -0.27 98.0 -0.27 98.0 noncon
hsa-miR-30a-3p 43-50 -0.27 98.0 -0.27 98.0 noncon
hsa-miR-4323 2592-2599 -0.269 95.0 -0.06 68.0 noncon
hsa-miR-6758-5p 4561-4568 -0.269 97.0 -0.06 79.0 noncon
hsa-miR-1193 3439-3446 -0.264 95.0 -0.058 80.0 noncon
hsa-miR-6773-5p 2786-2793 -0.26 91.0 -0.058 69.0 noncon
hsa-miR-942-3p 4878-4884 -0.26 95.0 -0.058 80.0 noncon
hsa-miR-196a-3p 278-284 -0.259 92.0 -0.259 94.0 noncon
hsa-miR-5582-5p 985-991 -0.258 94.0 -0.057 70.0 noncon
hsa-miR-4305 30-36 -0.253 90.0 -0.253 94.0 noncon