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
ST6GALNAC4



General Information
Gene Symbol:   
ST6GALNAC4
Protein name:   
Alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3-N-acetyl-galactosaminide alpha-2,6-sialyltransferase
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT29
E.C. No:   
2.4.99.7
Organs:   
Reaction (SNFG):   
+
→
+ CMP
+
→
+ CMP
Reaction (IUBMB):   
No specified reaction.
About

• Substrate specificity of ST6GalNAc-III and ST6GalNAc-IV are similar in vitro
• However, ST6GalNAc-IV prefers O-linked glycans of glycoproteins to glycolipid substrates (unlike ST6GalNAc-III).
• ST6GalNAc-IV may be the main candidate synthesizing NeuAcα2-3Galβ1-3(NeuAcα2-6)GalNAc. Its activity toward nonsialylated Galβ1-3GalNAc was low.
• Neither ST6GalNAc-III nor IV act on glycolipid substrates with internal α2-3-linked sialic acid on galactose (GD1a, GT1b), suggesting an inhibitory effect of such modifications.
• ST6GalNAc4 is ubiquitously expressed with high levels in the colon and brain, moderately expressed in the lung, heart, thymus, kidney and spleen.

Related Pathway
KEGG ORTHOLOGY:   
K03374
KEGG Pathway:   
ko00604  ko01100 
Reactome:   
R-HSA-4085001
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9H4F1 
NCBI GeneID:   
27090
GlyMap GeneID:   
27090
DNA aRefSeq:   
NM_175039.3 
Protein RefSeq:   
NP_778204.1 
BRENDA:   
Kinetic info.
OMIM number:   
606378
GeneCards database:   
ST6GALNAC4
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type), GSL
Compartment:  
     
Substrate:  
     NeuAc(a2-3)Gal(b1-3)GalNAc(b1-?)Ser|Thr or NeuAc(a2-3)Gal(b1-3)GalNAc(b1-?)
Product:  
     NeuAc(a2-3)Gal(b1-3)[NeuAc(a2-6)]GalNAc(b1-?)Ser|Thr or NeuAc(a2-3)Gal(b1-3)[NeuAc(a2-6)]GalNAc(b1-?)
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 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 160 140 120 100 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-99a-5p 482-489 -0.835 99.0 -0.816 99.0 con
hsa-miR-99b-5p 482-489 -0.822 99.0 -0.803 99.0 con
hsa-miR-100-5p 482-489 -0.819 99.0 -0.8 99.0 con
hsa-miR-3196 137-144 -0.709 98.0 -0.709 98.0 noncon
hsa-miR-6816-5p 137-144 -0.688 98.0 -0.688 99.0 noncon
hsa-miR-3180 137-144 -0.68 98.0 -0.68 98.0 noncon
hsa-miR-3180-3p 137-144 -0.68 98.0 -0.68 98.0 noncon
hsa-miR-138-5p 312-319 -0.58 99.0 -0.58 99.0 con
hsa-miR-122-5p 66-73 -0.517 99.0 -0.517 99.0 con
hsa-miR-593-5p 374-381 -0.507 99.0 -0.507 99.0 noncon
hsa-miR-1225-3p 248-255 -0.467 98.0 -0.467 99.0 noncon
hsa-miR-891a-3p 376-383 -0.464 99.0 -0.464 99.0 noncon
hsa-miR-3127-3p 184-191 -0.429 98.0 -0.429 98.0 noncon
hsa-miR-4270 223-230 -0.413 99.0 -0.413 99.0 noncon
hsa-miR-6728-5p 52-59 -0.403 99.0 -0.403 99.0 noncon
hsa-miR-4304 23-29 -0.399 92.0 -0.399 95.0 noncon
hsa-miR-6756-3p 184-191 -0.397 97.0 -0.397 98.0 noncon
hsa-miR-510-5p 226-233 -0.396 99.0 -0.396 99.0 noncon
hsa-miR-6754-5p 223-230 -0.394 99.0 -0.394 99.0 noncon
hsa-miR-6825-5p 348-355 -0.39 95.0 -0.39 96.0 noncon
hsa-miR-4441 223-230 -0.383 98.0 -0.383 99.0 noncon
hsa-miR-4638-5p 413-420 -0.355 91.0 -0.355 94.0 noncon
hsa-miR-1273a 18-24 -0.342 92.0 -0.342 94.0 noncon
hsa-miR-6851-5p 259-266 -0.339 96.0 -0.339 97.0 noncon
hsa-miR-4717-5p 277-283 -0.335 98.0 -0.335 98.0 noncon
hsa-miR-574-5p 65-71 -0.326 94.0 -0.326 95.0 noncon
hsa-miR-4661-3p 92-98 -0.318 96.0 -0.318 97.0 noncon
hsa-miR-571 306-313 -0.306 95.0 -0.306 96.0 noncon
hsa-miR-644a 378-384 -0.305 95.0 -0.305 96.0 noncon
hsa-miR-3675-5p 139-145 -0.297 94.0 -0.297 96.0 noncon
hsa-miR-7150 103-109 -0.286 95.0 -0.286 96.0 noncon
hsa-miR-3943 247-253 -0.274 93.0 -0.274 95.0 noncon
hsa-miR-4751 341-347 -0.271 93.0 -0.271 95.0 noncon
hsa-miR-7847-3p 69-75 -0.267 92.0 -0.267 94.0 noncon
hsa-miR-5699-5p 406-413 -0.265 96.0 -0.265 97.0 noncon
hsa-miR-6756-3p 438-444 -0.26 91.0 -0.26 94.0 noncon
hsa-miR-4695-5p 99-105 -0.255 95.0 -0.255 96.0 noncon
hsa-miR-3914 128-134 -0.255 95.0 -0.255 96.0 noncon
hsa-miR-7855-5p 310-316 -0.25 94.0 -0.25 96.0 noncon