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

MGAT4A



General Information
Gene Symbol:   
MGAT4A
Protein name:   
Alpha-1,3-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase A
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
E.C. No:   
Organs:   
Reaction (SNFG):   
+
+ UDP
Reaction (IUBMB):   
No specified reaction.

About

• MGAT4 catalyzes β1-4GlcNAc linkage to the GlcNAcβ1-2Manα1,3 arm of N-glycans.
• Two isoenzymes MGAT4A and MGAT4B, both of which have different tissue distributions, contribute to cellular MGAT4/GnT-IV activity. A third enzyme has also been reported but is not characterized.
• MGAT4 and MGAT5 both contribute to N-glycan branching, and they are ubiquitously expressed in various organs.
• N-glycan branching due to GnT-IVa may be aberrantly upregulated in some type of tumors and this can serve as a biomarker.


Related Pathway
KEGG ORTHOLOGY:   
KEGG Pathway:   
Reactome:   

Related Database
Organism:   
Homo sapiens
Uniprot:   
NCBI GeneID:   
GlyMap GeneID:   
DNA aRefSeq:   
Protein RefSeq:   
BRENDA:   
OMIM number:   
GeneCards database:   

Enzyme Specificity
Glycan Type:  
     N-linked
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GlcNAc(b1-2)Man(a1-3)
Product:  
     GlcNAc(b1-2)[GlcNAc(b1-4)]Man(a1-3)
Constraints:  
     !Gal(b1-?)&!GlcNAc(b1-4)...Man(b1-4)

Simulation Parameters
Mechaelis-Menten parameters (suggested)
VM:    1.00e-05    (pmol/cell • hr)       KM:    3.40e+09    (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 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-1469 3064-3071 -0.629 97.0 -0.127 61.0 noncon
hsa-miR-4640-3p 338-345 -0.473 98.0 -0.22 92.0 noncon
hsa-miR-513a-5p 27-34 -0.421 99.0 -0.421 99.0 noncon
hsa-miR-3119 6409-6416 -0.416 98.0 -0.06 75.0 noncon
hsa-miR-6871-5p 149-156 -0.412 99.0 -0.198 92.0 noncon
hsa-miR-449b-5p 601-608 -0.408 96.0 -0.192 83.0 con
hsa-miR-34c-5p 601-608 -0.4 96.0 -0.189 82.0 con
hsa-miR-449a 601-608 -0.39 96.0 -0.184 83.0 con
hsa-miR-4500 89-95 -0.377 94.0 -0.182 81.0 con
hsa-miR-4638-5p 4351-4358 -0.375 92.0 -0.081 71.0 noncon
hsa-miR-34a-5p 601-608 -0.374 95.0 -0.177 81.0 con
hsa-let-7a-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-let-7f-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-let-7e-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-let-7c-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-let-7g-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-let-7b-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-miR-98-5p 89-95 -0.366 94.0 -0.177 80.0 con
hsa-miR-195-5p 6305-6312 -0.364 97.0 -0.056 69.0 con
hsa-miR-16-5p 6305-6312 -0.364 97.0 -0.056 70.0 con
hsa-miR-497-5p 6305-6312 -0.361 98.0 -0.056 70.0 con
hsa-miR-424-5p 6305-6312 -0.361 97.0 -0.056 70.0 con
hsa-miR-6838-5p 6305-6312 -0.358 97.0 -0.055 67.0 con
hsa-miR-4458 89-95 -0.356 93.0 -0.173 78.0 con
hsa-let-7d-5p 89-95 -0.356 93.0 -0.173 78.0 con
hsa-let-7i-5p 89-95 -0.355 93.0 -0.172 80.0 con
hsa-miR-4515 5201-5208 -0.353 96.0 -0.054 62.0 noncon
hsa-miR-15b-5p 6305-6312 -0.34 97.0 -0.052 67.0 con
hsa-miR-15a-5p 6305-6312 -0.34 97.0 -0.052 67.0 con
hsa-miR-6789-3p 3062-3068 -0.33 90.0 -0.072 59.0 noncon
hsa-miR-92a-1-5p 5389-5396 -0.326 93.0 -0.051 53.0 noncon
hsa-miR-8081 202-209 -0.324 97.0 -0.158 92.0 noncon
hsa-miR-4804-3p 52-59 -0.317 98.0 -0.317 98.0 noncon
hsa-miR-6798-3p 339-345 -0.313 90.0 -0.15 80.0 noncon
hsa-miR-6873-3p 5118-5125 -0.299 96.0 -0.047 68.0 noncon
hsa-miR-196b-3p 2724-2730 -0.296 90.0 -0.065 63.0 noncon
hsa-miR-6885-3p 3738-3745 -0.287 98.0 -0.064 85.0 noncon
hsa-miR-5682 5670-5677 -0.285 96.0 -0.045 73.0 noncon
hsa-miR-3157-5p 6227-6234 -0.283 96.0 -0.045 67.0 noncon
hsa-miR-4524a-5p 4426-4433 -0.282 92.0 -0.058 70.0 noncon
hsa-miR-193a-5p 5385-5392 -0.28 95.0 -0.044 62.0 noncon
hsa-miR-4524a-5p 6306-6312 -0.279 92.0 -0.044 64.0 noncon
hsa-miR-4524b-5p 6306-6312 -0.279 92.0 -0.044 65.0 noncon
hsa-miR-6768-3p 3753-3760 -0.276 97.0 -0.061 81.0 noncon
hsa-miR-5586-5p 4527-4534 -0.271 95.0 -0.056 77.0 noncon
hsa-miR-125b-5p 395-401 -0.27 94.0 -0.13 84.0 con
hsa-miR-142-3p.1 86-92 -0.269 90.0 -0.132 81.0 con
hsa-miR-6847-5p 854-861 -0.268 97.0 -0.129 88.0 noncon
hsa-miR-942-3p 6413-6419 -0.266 95.0 -0.03 71.0 noncon
hsa-miR-196b-5p 88-94 -0.266 93.0 -0.131 87.0 con
hsa-miR-4524b-5p 4426-4433 -0.266 91.0 -0.055 69.0 noncon
hsa-miR-1252-5p 6431-6437 -0.266 96.0 -0.03 56.0 noncon
hsa-miR-139-5p 107-114 -0.266 97.0 -0.131 92.0 con
hsa-miR-196a-5p 88-94 -0.266 93.0 -0.131 87.0 con
hsa-miR-937-5p 201-208 -0.265 97.0 -0.131 91.0 noncon
hsa-miR-124-3p.1 6346-6352 -0.264 93.0 -0.042 76.0 con
hsa-miR-892b 3137-3144 -0.26 92.0 -0.058 67.0 noncon
hsa-miR-4255 84-91 -0.26 96.0 -0.128 91.0 noncon
hsa-miR-500a-3p 919-925 -0.259 94.0 -0.125 86.0 noncon
hsa-miR-125a-5p 395-401 -0.258 93.0 -0.125 84.0 con
hsa-miR-193b-3p 1925-1931 -0.258 90.0 -0.058 67.0 noncon
hsa-miR-646 4425-4432 -0.256 96.0 -0.053 74.0 noncon
hsa-miR-1307-3p 4352-4358 -0.256 95.0 -0.057 67.0 noncon
hsa-miR-501-3p 920-926 -0.254 94.0 -0.123 87.0 noncon
hsa-miR-4494 781-788 -0.254 95.0 -0.123 87.0 noncon
hsa-miR-502-3p 920-926 -0.254 94.0 -0.123 87.0 noncon
hsa-miR-5697 78-85 -0.253 97.0 -0.125 92.0 noncon