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
B4GALNT1



General Information
Gene Symbol:   
B4GALNT1
Protein name:   
Beta-1,4 N-acetylgalactosaminyltransferase 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT12
E.C. No:   
2.4.1.92
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• This enzyme is often called GM2/GD2 synthase at it produces GM2, GD2 and also asialo GA2. These complex gangliosides were all deleted in the B4GALNT1 knockout mice.
• Levels of these genes and related structures (e.g. GD2) may be upregulated during malignancy.

Related Pathway
KEGG ORTHOLOGY:   
K00725
KEGG Pathway:   
ko00604  ko01100 
Reactome:   
R-HSA-1660662
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q00973 
NCBI GeneID:   
2583
GlyMap GeneID:   
2583
DNA aRefSeq:   
NM_001276468.1 
Protein RefSeq:   
NP_001263397.1 
BRENDA:   
Kinetic info.
OMIM number:   
601873
GeneCards database:   
B4GALNT1
Enzyme Specificity
Glycan Type:  
     GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     ...Gal(b1-4)Glc(b1-?)Cer
Product:  
     ...[GalNAc(b1-4)]Gal(b1-4)Glc(b1-?)Cer
Constraints:  
     nNeuAc(a2-?)<=3
Simulation Parameters
Mechaelis-Menten parameters (suggested)
VM:    3.70e-06    (pmol/cell • hr)       KM:    7.00e+08    (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-4746-5p 349-356 -0.668 98.0 -0.578 97.0 noncon
hsa-miR-3184-5p 397-404 -0.633 99.0 -0.549 99.0 noncon
hsa-miR-423-5p 397-404 -0.633 99.0 -0.549 99.0 noncon
hsa-miR-1207-5p 48-55 -0.572 99.0 -0.572 99.0 noncon
hsa-miR-4763-3p 48-55 -0.566 99.0 -0.566 99.0 noncon
hsa-miR-183-5p.2 288-295 -0.548 99.0 -0.477 99.0 con
hsa-miR-92a-2-5p 71-78 -0.542 99.0 -0.542 99.0 noncon
hsa-miR-1271-5p 289-296 -0.477 99.0 -0.417 98.0 con
hsa-miR-4751 656-663 -0.429 98.0 -0.084 75.0 noncon
hsa-miR-96-5p 289-296 -0.424 98.0 -0.371 98.0 con
hsa-miR-193b-5p 68-75 -0.419 97.0 -0.419 97.0 noncon
hsa-miR-7110-5p 448-455 -0.417 92.0 -0.365 91.0 noncon
hsa-miR-378a-5p 767-774 -0.407 99.0 -0.081 88.0 noncon
hsa-miR-6842-5p 448-455 -0.401 92.0 -0.351 91.0 noncon
hsa-miR-8073 51-58 -0.391 99.0 -0.391 99.0 noncon
hsa-miR-6731-3p 771-778 -0.39 98.0 -0.078 84.0 noncon
hsa-miR-183-5p.2 228-235 -0.384 97.0 -0.337 97.0 con
hsa-miR-6721-5p 244-251 -0.379 97.0 -0.333 97.0 noncon
hsa-miR-221-5p 51-58 -0.375 98.0 -0.375 99.0 noncon
hsa-miR-1233-5p 217-224 -0.372 97.0 -0.326 96.0 noncon
hsa-miR-3678-3p 525-532 -0.371 98.0 -0.326 98.0 noncon
hsa-miR-185-3p 442-449 -0.359 94.0 -0.315 93.0 noncon
hsa-miR-6778-5p 217-224 -0.356 96.0 -0.313 95.0 noncon
hsa-miR-378g 298-305 -0.355 98.0 -0.312 98.0 noncon
hsa-miR-504-3p 690-697 -0.353 98.0 -0.071 82.0 noncon
hsa-miR-4640-3p 638-644 -0.353 96.0 -0.071 69.0 noncon
hsa-miR-6752-5p 448-455 -0.349 92.0 -0.306 91.0 noncon
hsa-miR-3187-5p 188-195 -0.337 98.0 -0.296 98.0 noncon
hsa-miR-6860 188-195 -0.334 98.0 -0.294 98.0 noncon
hsa-miR-342-5p 783-789 -0.331 96.0 -0.067 70.0 noncon
hsa-miR-4664-5p 783-789 -0.33 96.0 -0.067 74.0 noncon
hsa-miR-4447 450-457 -0.327 97.0 -0.287 97.0 noncon
hsa-miR-4472 450-457 -0.327 97.0 -0.287 97.0 noncon
hsa-miR-6867-5p 665-672 -0.326 90.0 -0.066 58.0 noncon
hsa-miR-5189-5p 188-195 -0.324 98.0 -0.285 98.0 noncon
hsa-miR-1288-3p 809-815 -0.322 95.0 -0.065 75.0 noncon
hsa-miR-4723-3p 754-761 -0.319 97.0 -0.065 76.0 noncon
hsa-miR-1285-3p 188-195 -0.316 98.0 -0.278 98.0 noncon
hsa-miR-6769b-3p 754-761 -0.311 97.0 -0.063 77.0 noncon
hsa-miR-5002-3p 808-814 -0.309 94.0 -0.063 69.0 noncon
hsa-miR-3189-5p 257-264 -0.309 97.0 -0.272 97.0 noncon
hsa-miR-6081 436-443 -0.307 94.0 -0.27 94.0 noncon
hsa-miR-2467-5p 107-113 -0.299 97.0 -0.263 97.0 noncon
hsa-miR-6756-3p 549-555 -0.296 94.0 -0.261 94.0 noncon
hsa-miR-6731-5p 215-222 -0.293 95.0 -0.258 94.0 noncon
hsa-miR-7974 221-228 -0.292 93.0 -0.257 93.0 noncon
hsa-miR-3928-3p 116-123 -0.291 99.0 -0.256 98.0 noncon
hsa-miR-1243 418-425 -0.289 96.0 -0.255 97.0 noncon
hsa-miR-8085 215-222 -0.285 94.0 -0.251 93.0 noncon
hsa-miR-1293 75-81 -0.285 96.0 -0.285 97.0 noncon
hsa-miR-6742-5p 70-76 -0.28 94.0 -0.28 96.0 noncon
hsa-miR-665 744-751 -0.279 97.0 -0.057 73.0 con
hsa-miR-4483 75-81 -0.278 97.0 -0.278 98.0 noncon
hsa-miR-548q 555-562 -0.274 97.0 -0.241 97.0 noncon
hsa-miR-4733-3p 162-169 -0.273 96.0 -0.241 96.0 noncon
hsa-miR-96-5p 229-235 -0.272 94.0 -0.24 94.0 con
hsa-miR-7150 49-55 -0.272 94.0 -0.272 96.0 noncon
hsa-miR-6743-5p 396-402 -0.272 93.0 -0.24 93.0 noncon
hsa-miR-4688 396-402 -0.271 92.0 -0.239 92.0 noncon
hsa-miR-1271-5p 229-235 -0.269 93.0 -0.237 94.0 con
hsa-miR-6782-5p 784-790 -0.268 90.0 -0.055 58.0 noncon
hsa-miR-6734-5p 398-404 -0.268 90.0 -0.236 91.0 noncon
hsa-miR-3187-5p 299-305 -0.263 96.0 -0.232 96.0 noncon
hsa-miR-3127-3p 549-555 -0.263 92.0 -0.232 93.0 noncon
hsa-miR-4780 645-651 -0.26 94.0 -0.054 64.0 noncon
hsa-miR-6855-5p 69-75 -0.257 93.0 -0.257 95.0 noncon
hsa-miR-211-3p 101-108 -0.256 97.0 -0.226 97.0 noncon
hsa-miR-8078 578-584 -0.255 93.0 -0.104 80.0 noncon
hsa-miR-1285-3p 145-151 -0.255 96.0 -0.225 96.0 noncon
hsa-miR-3064-3p 805-811 -0.253 91.0 -0.052 66.0 noncon
hsa-miR-1207-5p 243-249 -0.25 92.0 -0.221 91.0 noncon