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
GALNT4



General Information
Gene Symbol:   
GALNT4
Protein name:   
Polypeptide N-acetylgalactosaminyltransferase 4
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
CBM13
E.C. No:   
2.4.1.41
Organs:   
Reaction (SNFG):   
+ Ser →
+ UDP
+ Thr →
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• ppGalNAc-T1 is localized throughout the Golgi
• Mutations in ppGalNAcT activity can result in various diseases
• ppGalNAc-T2 and ppGalNAc-T3 were more abundant in the trans and medial Golgi
• GALNT4 may act better on substrates that already have a single GalNAc, i.e. it may have 'follow-up' characteristics

Related Pathway
KEGG ORTHOLOGY:   
K00710
KEGG Pathway:   
ko00512  ko01100 
Reactome:   
R-HSA-913709
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q8N4A0 
NCBI GeneID:   
100528030
GlyMap GeneID:   
100528030
DNA aRefSeq:   
NM_001199782.1 
Protein RefSeq:   
NP_001186711.1 
BRENDA:   
Kinetic info.
OMIM number:   
603565
GeneCards database:   
GALNT4
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type)
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Ser or Thr
Product:  
     GalNAc(a1-?)Ser or GalNAc(a1-?)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 30 20 10 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 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-5580-5p 455-462 -0.544 99.0 -0.544 99.0 noncon
hsa-miR-4636 2041-2048 -0.507 96.0 -0.507 97.0 noncon
hsa-miR-6715b-5p 3381-3388 -0.485 99.0 -0.485 99.0 noncon
hsa-miR-1250-5p 1057-1064 -0.419 93.0 -0.419 95.0 noncon
hsa-miR-1263 2817-2824 -0.404 97.0 -0.404 98.0 noncon
hsa-miR-659-5p 321-328 -0.393 97.0 -0.393 98.0 noncon
hsa-miR-4269 3381-3388 -0.383 99.0 -0.383 99.0 noncon
hsa-miR-6865-5p 97-104 -0.38 98.0 -0.38 98.0 noncon
hsa-miR-6815-5p 97-104 -0.38 98.0 -0.38 98.0 noncon
hsa-miR-2467-5p 61-68 -0.376 98.0 -0.376 99.0 noncon
hsa-miR-1243 2662-2669 -0.363 98.0 -0.363 99.0 noncon
hsa-miR-555 3072-3079 -0.343 95.0 -0.343 97.0 noncon
hsa-miR-4259 891-898 -0.333 96.0 -0.333 97.0 noncon
hsa-miR-4535 322-329 -0.327 97.0 -0.327 98.0 noncon
hsa-miR-6756-5p 2344-2351 -0.313 92.0 -0.313 93.0 noncon
hsa-miR-6766-5p 2344-2351 -0.292 91.0 -0.292 93.0 noncon
hsa-miR-8081 3034-3041 -0.281 95.0 -0.281 97.0 noncon
hsa-miR-875-5p 337-343 -0.27 95.0 -0.27 97.0 noncon
hsa-miR-2909 2588-2595 -0.27 95.0 -0.27 97.0 noncon
hsa-miR-4638-3p 2249-2256 -0.27 93.0 -0.27 95.0 noncon
hsa-miR-4506 3075-3082 -0.269 95.0 -0.269 97.0 noncon
hsa-miR-6841-3p 1005-1012 -0.266 92.0 -0.266 94.0 noncon
hsa-miR-6769b-5p 2343-2349 -0.265 95.0 -0.265 96.0 noncon
hsa-miR-6762-3p 2223-2229 -0.264 93.0 -0.264 95.0 noncon
hsa-miR-4742-5p 3382-3388 -0.256 97.0 -0.256 98.0 noncon