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
CSGALNACT2



General Information
Gene Symbol:   
CSGALNACT2
Protein name:   
Chondroitin sulfate N-acetylgalactosaminyltransferase 2
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT7
E.C. No:   
2.4.1.174
Organs:   
Reaction (SNFG):   
+
→
+ UDP
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• The GalNAcT-I activity catalyzes GalNAc transfer toward GlcA in the linkage tetrasaccharide (GlcAβ1-3Galβ1-3Galβ1-4Xylβ1-). This is strongly mediated by CSGalNAcT1 (ChGn1) but can also be performed by CSGalNAcT-II (ChGn2).
• GalNAcT-II catalyzes elongation activity to create repeating disaccharide unit (GlcAβ1-3GalNAcβ1-4)n in the CS chain. This is more readily performed by CSGalNAcT2. Mice lacking CSGalNAcT1 exhibit dwarf phenotype with less cartilage development
• Overall, CSGalNAcT1 and CSGalNAcT2 mediate both initiation and elongation of CS via GalNAcT activity
• CHSY1 (Chondroitin synthase-1/chondroitin sulfate synthase-1 (CSS1)) and CHSY3 (chondroitin synthase-3/chondroitin sulfate synthase-3 (CSS3)) exhibit dual glycosyltransferase activities of β1,3 GlcA-T and β1,4 GalNAc-T for CS initiation and elongation
• CHPF (chondroitin sulfate synthase-2 (CSS2)) also exhibits dual glycosyltransferase activities of β1,3 GlcA-T and β1,4 GalNAc-T for CS initiation and elongation. Its activity is similar to that of CSS1 and CSS3.
• CHPF2 (chondroitin polymerizing factor 2/chondroitin sulfate glucuronyltransferase (CSGlcA-T)) transfers glucuronic acid (GlcUA) from UDP-GlcUA to N-acetylgalactosamine in the elongating chondroitin polymer. It does not have GalNAcT activity.
• CS is also present broadly in the tissues and abundantly in the cartilage and brain. Aggrecan contains abundant CS in cartilage.

Related Pathway
KEGG ORTHOLOGY:   
K00746
KEGG Pathway:   
ko00532  ko01100 
Reactome:   
R-HSA-2022870
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q8N6G5 
NCBI GeneID:   
55454
GlyMap GeneID:   
55454
DNA aRefSeq:   
NM_001319654.1 
Protein RefSeq:   
NP_001306583.1 
BRENDA:   
Kinetic info.
OMIM number:   
616616
GeneCards database:   
CSGALNACT2
Enzyme Specificity
Glycan Type:  
     GAG
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GlcA(b1-3)Gal(b1-3)Gal(b1-4)Xyl(b1-?)Ser or GlcA(b1-3)GalNAc(b1-4)
Product:  
     GalNAc(b1-4)GlcA(b1-3)Gal(b1-3)Gal(b1-4)Xyl(b1-?)Ser or GalNAc(b1-4)GlcA(b1-3)GalNAc(b1-4)
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 60 50 40 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}
Transcriptional start site (TSS) 0 200 -2000 -1800 -1600 -1400 -1200 -1000 -800 -600 -400 -200
ENST00000374466 EGR3 ZBTB7A SMAD2 TCF7L1 ZBTB11 GLIS1 NONO NANOG ZBTB14 MXD4 SP2 KAT5 KAT5 SKI NFE2 SP1 KLF12 NKX2-1 NKX2-1 SOX13 SOX13 ELF3 NKX3-1 NKX3-1 KLF9 THAP11 ZBTB16 ZBTB16 MXI1 ELK1 ELK1 E2F4 MAZ SP5 GATA3 GATA3 GATA3 TCF3 RUNX3 SMAD4 POU5F1 FEZF1 ELK4 ELK4 ELK4 KAT8 TFAP4 NRF1 TCF4 MEIS2 MEIS2 MEIS2 MYOD1 KLF16 PBX3 CREM SMAD5 NKX2-1 MAF ZBTB26 ZBTB42 FOSL1 FOSL1 KLF10 MAX MAX NFIC KMT2A ZBTB40 TCF3 ZNF48 E2F1 GATA3 ZFX FOXM1 JUNB ZBTB11 ZSCAN9 RXRB DMAP1 SMAD5 ZNF324 RCOR1 SMAD4 ZBTB26 ELF3 GATA1
miRNA-GlycoEnzyme Interactome {ref. 9}
miRNA Name Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
hsa-miR-1263 1726-1733 -0.637 99.0 -0.637 99.0 noncon
hsa-miR-203a-5p 26-33 -0.511 99.0 -0.511 99.0 noncon
hsa-miR-512-3p 37-44 -0.454 99.0 -0.454 99.0 noncon
hsa-miR-4298 239-246 -0.431 98.0 -0.431 99.0 noncon
hsa-miR-1302 239-246 -0.426 98.0 -0.426 99.0 noncon
hsa-miR-4450 518-525 -0.414 97.0 -0.414 98.0 noncon
hsa-miR-5591-3p 608-615 -0.409 98.0 -0.409 98.0 noncon
hsa-miR-6857-5p 519-526 -0.408 99.0 -0.408 99.0 noncon
hsa-miR-875-5p 1145-1152 -0.406 99.0 -0.406 99.0 noncon
hsa-miR-31-3p 858-865 -0.398 97.0 -0.398 98.0 noncon
hsa-miR-29c-3p 1381-1387 -0.393 97.0 -0.393 97.0 con
hsa-miR-29b-3p 1381-1387 -0.393 97.0 -0.393 97.0 con
hsa-miR-6872-3p 902-909 -0.387 98.0 -0.387 98.0 noncon
hsa-miR-29a-3p 1381-1387 -0.381 96.0 -0.381 97.0 con
hsa-miR-219b-3p 133-140 -0.369 98.0 -0.369 99.0 noncon
hsa-miR-653-3p 1548-1555 -0.366 98.0 -0.366 99.0 noncon
hsa-miR-6887-3p 1062-1069 -0.362 95.0 -0.362 96.0 noncon
hsa-miR-4661-3p 777-784 -0.358 97.0 -0.358 98.0 noncon
hsa-miR-3678-3p 1484-1491 -0.347 98.0 -0.347 98.0 noncon
hsa-miR-31-5p 2934-2941 -0.327 96.0 -0.003 22.0 noncon
hsa-miR-3913-5p 240-247 -0.326 98.0 -0.326 99.0 noncon
hsa-miR-3179 2627-2634 -0.325 96.0 -0.003 33.0 noncon
hsa-miR-660-5p 607-614 -0.32 96.0 -0.32 98.0 noncon
hsa-miR-1911-3p 2032-2038 -0.314 96.0 -0.003 34.0 noncon
hsa-miR-3144-3p 1146-1153 -0.3 95.0 -0.3 97.0 noncon
hsa-miR-6826-3p 1063-1070 -0.298 94.0 -0.298 95.0 noncon
hsa-miR-377-3p 1471-1478 -0.298 96.0 -0.298 97.0 noncon
hsa-miR-491-3p 1252-1259 -0.295 94.0 -0.295 96.0 noncon
hsa-miR-1245b-3p 1349-1356 -0.291 98.0 -0.291 98.0 noncon
hsa-miR-4786-5p 2439-2446 -0.286 96.0 -0.003 28.0 noncon
hsa-miR-3677-5p 1501-1507 -0.285 96.0 -0.285 97.0 noncon
hsa-miR-5581-3p 903-909 -0.283 96.0 -0.283 97.0 noncon
hsa-miR-24-3p 2823-2830 -0.278 96.0 -0.003 42.0 noncon
hsa-miR-6805-3p 750-756 -0.275 96.0 -0.275 97.0 noncon
hsa-miR-3121-5p 1590-1596 -0.266 96.0 -0.266 97.0 noncon
hsa-miR-4276 1307-1314 -0.266 95.0 -0.266 97.0 noncon
hsa-miR-5691 750-756 -0.264 96.0 -0.264 97.0 noncon
hsa-miR-2054 1399-1406 -0.264 98.0 -0.264 98.0 noncon
hsa-miR-3122 240-247 -0.258 98.0 -0.258 99.0 noncon
hsa-miR-5682 1381-1387 -0.255 94.0 -0.255 96.0 noncon
hsa-miR-6782-3p 1591-1598 -0.252 97.0 -0.252 98.0 noncon
hsa-miR-4504 1210-1217 -0.251 95.0 -0.251 97.0 noncon