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
B3GALT4



General Information
Gene Symbol:   
B3GALT4
Protein name:   
Beta-1,3-galactosyltransferase 4
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.62
Organs:   
Reaction (SNFG):   
+
→
+ UDP
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• Catalyzes the transfer of galactose from UDP-galactose to ganglioside GM2 to form GM1. Also forms GD1b and GA1 (asialo-GM1) from GD2, and asialo-GM2, respectively.
• B3GALT4 is expressed at high levels in the nervous tissues, while it was widely expressed in various organs and cells.
• This enzyme can also catalyze the side arm of GPI-anchored proteins

Related Pathway
KEGG ORTHOLOGY:   
K00715
KEGG Pathway:   
ko00604  ko01100 
Reactome:   
R-HSA-9037629
Related Database
Organism:   
Homo sapiens
Uniprot:   
O96024 
NCBI GeneID:   
8705
GlyMap GeneID:   
8705
DNA aRefSeq:   
NM_003782.3 
Protein RefSeq:   
NP_003773.1 
BRENDA:   
Kinetic info.
OMIM number:   
603095
GeneCards database:   
B3GALT4
Enzyme Specificity
Glycan Type:  
     GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     ...GalNAc(b1-4)Gal(b1-4)Glc(b1-?)Cer or GalNAc(b1-4)...Man(a1-4)
Product:  
     ...[Gal(b1-3)]GalNAc(b1-4)Gal(b1-4)Glc(b1-?)Cer or Gal(b1-3)GalNAc(b1-4)...Man(a1-4)
Constraints:  
     nNeuAc(a2-?)<=3
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 10 8 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-107 198-205 -0.623 99.0 -0.623 99.0 noncon
hsa-miR-103a-3p 198-205 -0.615 99.0 -0.615 99.0 noncon
hsa-miR-18a-3p 222-229 -0.59 99.0 -0.59 99.0 noncon
hsa-miR-4774-5p 96-103 -0.539 99.0 -0.539 99.0 noncon
hsa-miR-2116-3p 130-137 -0.527 99.0 -0.527 99.0 noncon
hsa-miR-921 112-119 -0.504 99.0 -0.504 99.0 noncon
hsa-miR-8085 42-49 -0.491 99.0 -0.491 99.0 noncon
hsa-miR-6747-3p 22-29 -0.49 99.0 -0.49 99.0 noncon
hsa-miR-6731-5p 42-49 -0.483 99.0 -0.483 99.0 noncon
hsa-miR-1236-3p 179-186 -0.471 99.0 -0.471 99.0 noncon
hsa-miR-4689 244-251 -0.461 99.0 -0.461 99.0 noncon
hsa-miR-4795-5p 263-269 -0.448 99.0 -0.152 88.0 noncon
hsa-miR-5001-5p 157-164 -0.421 97.0 -0.421 97.0 noncon
hsa-miR-1266-3p 28-35 -0.416 98.0 -0.416 99.0 noncon
hsa-miR-4498 157-164 -0.411 97.0 -0.411 97.0 noncon
hsa-miR-6858-5p 244-251 -0.409 99.0 -0.409 99.0 noncon
hsa-miR-1587 158-165 -0.403 98.0 -0.403 98.0 noncon
hsa-miR-2861 48-55 -0.397 97.0 -0.397 98.0 noncon
hsa-miR-1184 200-206 -0.393 99.0 -0.393 99.0 noncon
hsa-miR-873-3p 108-115 -0.378 99.0 -0.378 99.0 noncon
hsa-miR-3620-5p 158-165 -0.359 98.0 -0.359 99.0 noncon
hsa-miR-296-5p 61-67 -0.356 93.0 -0.356 95.0 noncon
hsa-miR-762 157-164 -0.351 97.0 -0.351 98.0 noncon
hsa-miR-4492 157-164 -0.343 97.0 -0.343 98.0 noncon
hsa-miR-139-3p 259-265 -0.333 98.0 -0.333 98.0 noncon
hsa-miR-509-3-5p 201-207 -0.308 98.0 -0.308 99.0 noncon
hsa-miR-509-5p 201-207 -0.308 98.0 -0.308 99.0 noncon
hsa-miR-626 120-126 -0.308 93.0 -0.308 95.0 noncon
hsa-miR-7156-3p 73-79 -0.307 96.0 -0.307 97.0 noncon
hsa-miR-493-3p 34-40 -0.304 96.0 -0.304 97.0 noncon
hsa-miR-6878-5p 43-49 -0.302 96.0 -0.302 97.0 noncon
hsa-miR-4418 201-207 -0.294 98.0 -0.294 98.0 noncon
hsa-miR-6876-3p 120-126 -0.286 92.0 -0.286 95.0 noncon
hsa-miR-6809-3p 181-188 -0.276 98.0 -0.276 98.0 noncon
hsa-miR-4727-5p 224-230 -0.262 94.0 -0.262 96.0 noncon
hsa-miR-185-5p 41-47 -0.26 94.0 -0.26 96.0 noncon
hsa-miR-3157-3p 221-227 -0.258 96.0 -0.258 97.0 noncon
hsa-miR-7157-5p 197-203 -0.258 96.0 -0.258 97.0 noncon
hsa-miR-7152-5p 15-22 -0.255 97.0 -0.255 97.0 noncon
hsa-miR-7160-3p 62-68 -0.255 92.0 -0.255 94.0 noncon
hsa-miR-4722-3p 23-29 -0.252 95.0 -0.252 96.0 noncon
hsa-miR-1185-5p 103-109 -0.25 92.0 -0.25 95.0 noncon