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
A4GALT



General Information
Gene Symbol:   
A4GALT
Protein name:   
Lactosylceramide 4-alpha-galactosyltransferase
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT32
E.C. No:   
2.4.1.228
Organs:   
Reaction (SNFG):   
+
→
+ UDP
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• Catalyzes transfer of galactose from UDP-galactose to lactosylceramide.
• This results in the formation of Pk (Gb3) antigen, which is a precursor for globo-series glycosphingolipids. This is also called Gb3/CD77 synthase.
• The Pk antigen can be further extended to form Gb4 (P-antigen), Gb5 (SSEA-3), sialylated-Gb5 (SSEA-4) and fucosylated-Gb5 (Globo-H).
• A4GalT also forms the P1 blood group antigen.
• Gb3 is a ligand for Shiga-toxin, which can induce hemolytic uremic syndrome. This antigen is also expressed during advanced stages of colon cancers, and may be involved in metastasis.
• Globosides SSEA3 and SSEA4 are used as markers for embryonal stem cells. Fucosylgalactosylgloboside (Globo-H) is defined as a lung cancer antigen and also as a marker of breast cancer.
• Finally, Gb4 can compete with LPS to bind TLR4-MD-2.

Related Pathway
KEGG ORTHOLOGY:   
K01988
KEGG Pathway:   
ko00601  ko00603  ko01100 
Reactome:   
No Record
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9NPC4 
NCBI GeneID:   
53947
GlyMap GeneID:   
53947
DNA aRefSeq:   
NM_001318038.1 
Protein RefSeq:   
NP_001304967.1 
BRENDA:   
Kinetic info.
OMIM number:   
607922
GeneCards database:   
A4GALT
Enzyme Specificity
Glycan Type:  
     GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Gal(b1-4)Glc(b1-?)Cer or Gal(b1-4)GlcNAc(b1-3)Gal(b1-4)Glc(b1-?)Cer
Product:  
     Gal(a1-4)Gal(b1-4)Glc(b1-?)Cer or Gal(a1-4)Gal(b1-4)GlcNAc(b1-3)Gal(b1-4)Glc(b1-?)Cer
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 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 40 30 20 10 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-4767 714-721 -0.792 99.0 -0.792 99.0 noncon
hsa-miR-6749-5p 91-98 -0.535 98.0 -0.535 98.0 noncon
hsa-miR-608 584-591 -0.519 98.0 -0.519 98.0 noncon
hsa-miR-4651 584-591 -0.514 98.0 -0.514 98.0 noncon
hsa-miR-339-3p 226-233 -0.509 95.0 -0.509 96.0 noncon
hsa-miR-5587-3p 57-64 -0.503 98.0 -0.503 98.0 noncon
hsa-miR-4758-3p 525-532 -0.458 99.0 -0.458 99.0 noncon
hsa-miR-593-5p 206-213 -0.456 98.0 -0.456 98.0 noncon
hsa-miR-6820-5p 710-716 -0.406 91.0 -0.406 93.0 noncon
hsa-miR-324-3p 527-534 -0.403 98.0 -0.403 98.0 noncon
hsa-miR-6825-5p 17-24 -0.4 96.0 -0.4 97.0 noncon
hsa-miR-1913 527-534 -0.385 98.0 -0.385 98.0 noncon
hsa-miR-6836-3p 62-69 -0.365 98.0 -0.365 98.0 noncon
hsa-miR-6747-3p 261-268 -0.352 98.0 -0.352 98.0 noncon
hsa-miR-6763-5p 18-25 -0.346 97.0 -0.346 97.0 noncon
hsa-miR-330-5p 381-388 -0.346 98.0 -0.346 98.0 noncon
hsa-miR-326 381-388 -0.343 98.0 -0.343 98.0 noncon
hsa-miR-6784-5p 240-246 -0.333 93.0 -0.333 94.0 noncon
hsa-miR-486-3p 633-639 -0.332 92.0 -0.332 93.0 noncon
hsa-miR-4646-3p 370-376 -0.328 95.0 -0.328 97.0 noncon
hsa-miR-3150a-3p 18-25 -0.322 96.0 -0.322 97.0 noncon
hsa-miR-3940-3p 106-112 -0.316 90.0 -0.316 93.0 noncon
hsa-miR-541-3p 582-588 -0.307 95.0 -0.307 96.0 noncon
hsa-miR-654-5p 582-588 -0.307 95.0 -0.307 96.0 noncon
hsa-miR-7976 279-286 -0.303 97.0 -0.303 98.0 noncon
hsa-miR-5088-3p 366-373 -0.303 97.0 -0.303 97.0 noncon
hsa-miR-6835-5p 701-707 -0.302 91.0 -0.302 93.0 noncon
hsa-miR-6751-5p 701-707 -0.3 95.0 -0.3 96.0 noncon
hsa-miR-3189-5p 36-43 -0.281 96.0 -0.281 97.0 noncon
hsa-miR-4433b-5p 370-376 -0.279 94.0 -0.279 95.0 noncon
hsa-miR-4472 702-708 -0.276 95.0 -0.276 96.0 noncon
hsa-miR-4447 702-708 -0.276 95.0 -0.276 96.0 noncon
hsa-miR-3914 482-488 -0.274 96.0 -0.274 97.0 noncon
hsa-miR-5193 392-398 -0.274 93.0 -0.274 94.0 noncon
hsa-miR-183-5p.1 208-215 -0.272 94.0 -0.272 96.0 noncon
hsa-miR-4722-3p 262-268 -0.271 96.0 -0.271 97.0 noncon
hsa-miR-6751-3p 676-682 -0.264 95.0 -0.264 96.0 noncon
hsa-miR-6803-5p 701-707 -0.264 93.0 -0.264 94.0 noncon
hsa-miR-1207-5p 708-714 -0.262 93.0 -0.262 94.0 noncon
hsa-miR-6778-3p 61-68 -0.257 94.0 -0.257 96.0 noncon
hsa-miR-518c-5p 604-611 -0.253 96.0 -0.253 97.0 noncon
hsa-miR-6791-3p 393-399 -0.251 96.0 -0.251 97.0 noncon