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
 
Glycogene class
A4GNT
ABO
B3GALNT2
B3GALT1
B3GALT2
B3GALT5
B3GAT1
B3GAT2
B3GLCT
B3GNT2
B3GNT3
B3GNT4
B3GNT6
B3GNT7
B4GALNT2
B4GALNT3
B4GALNT4
B4GALT1
B4GALT2
B4GALT3
B4GALT4
B4GALT5
C1GALT1
C1GALT1C1
CHST1
CHST10
CHST2
CHST3
CHST4
CHST5
CHST8
CHST9
CMAS
EOGT
FKRP
FKTN
FPGT
FUCA1
FUT1
FUT2
FUT3
FUT4
FUT5
FUT6
FUT7
FUT9
GAL3ST2
GAL3ST3
GAL3ST4
GALNT1
GALNT10
GALNT11
GALNT12
GALNT13
GALNT14
GALNT15
GALNT16
GALNT17
GALNT18
GALNT2
GALNT3
GALNT4
GALNT5
GALNT6
GALNT7
GALNT8
GALNT9
GALNTL6
GCNT1
GCNT2
GCNT3
GCNT4
GXYLT1
GXYLT2
LFNG
MFNG
MGAT5B
NEU1
NEU2
NEU3
NEU4
OGT
POFUT1
POFUT2
POGLUT1
POGLUT2
POGLUT3
POMGNT1
POMGNT2
POMT1
POMT2
RFNG
RXYLT1
ST3GAL1
ST3GAL2
ST3GAL3
ST3GAL4
ST3GAL6
ST6GAL1
ST6GAL2
ST6GALNAC1
ST6GALNAC2
ST6GALNAC3
ST6GALNAC4
ST8SIA2
ST8SIA3
ST8SIA4
ST8SIA6
TMTC1
TMTC2
TMTC3
TMTC4
XXYLT1
Pathway Map
B3GNT6



General Information
Gene Symbol:   
B3GNT6
Protein name:   
Acetylgalactosaminyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.147
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• This is the core 3 Synthase, C3GNT, that produces GlcNAc(β1-3)GalNAc(a)-Ser/Thr type O-glycans.
• This can be further extended to form polyLacNac (Gal(β1-4)GlcNAc) on extended Core-3, and also Core-4 structures.
• The enzyme is normally expressed in colon, small intestine and stomach; and it a major modification on normal cells.
• The expression of B3GNT6 gene is downregulated in gastric and colorectal carcinomas, where the O-glycans transition from core-3 to core-1 and core 2 type structures.
• B3gnt6-/- mice are susceptible to experimental triggers of colitis and colorectal adenocarcinoma, suggesting a biological role for the enzyme in the gut.

Related Pathway
KEGG ORTHOLOGY:   
K00739
KEGG Pathway:   
ko00512  ko01100 
Reactome:   
R-HSA-913709
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q6ZMB0 
NCBI GeneID:   
192134
GlyMap GeneID:   
192134
DNA aRefSeq:   
NM_138706.4 
Protein RefSeq:   
NP_619651.3 
BRENDA:   
Kinetic info.
OMIM number:   
615315
GeneCards database:   
B3GNT6
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type)
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GalNAc(a1-?)Ser|Thr
Product:  
     GlcNAc(b1-3)GalNAc(a1-?)Ser|Thr
Simulation Parameters
Mechaelis-Menten parameters (suggested)
VM:    3.70e-06    (pmol/cell • hr)       KM:    7.00e+08    (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 2 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-6869-3p 3423-3430 -0.771 98.0 -0.001 8.0 noncon
hsa-miR-6763-3p 3026-3033 -0.721 99.0 -0.001 12.0 noncon
hsa-miR-4737 296-303 -0.695 98.0 -0.695 99.0 noncon
hsa-miR-6771-5p 172-179 -0.583 98.0 -0.583 98.0 noncon
hsa-miR-668-5p 547-554 -0.543 98.0 -0.543 98.0 noncon
hsa-miR-6746-5p 171-178 -0.505 99.0 -0.505 99.0 noncon
hsa-miR-4708-5p 1244-1251 -0.495 99.0 -0.495 99.0 noncon
hsa-miR-4707-3p 2769-2776 -0.492 92.0 -0.001 9.0 noncon
hsa-miR-1295a 1381-1388 -0.435 99.0 -0.001 11.0 noncon
hsa-miR-6774-3p 1434-1441 -0.434 94.0 -0.001 9.0 noncon
hsa-miR-6842-5p 753-760 -0.424 93.0 -0.424 94.0 noncon
hsa-miR-1247-5p 1866-1873 -0.417 95.0 -0.001 15.0 noncon
hsa-miR-6806-5p 428-435 -0.417 95.0 -0.417 96.0 noncon
hsa-miR-7110-5p 753-760 -0.416 92.0 -0.416 94.0 noncon
hsa-miR-1260b 1286-1293 -0.41 98.0 -0.41 98.0 noncon
hsa-miR-1260a 1286-1293 -0.41 98.0 -0.41 98.0 noncon
hsa-miR-766-5p 233-240 -0.406 98.0 -0.406 99.0 noncon
hsa-miR-4655-3p 1438-1445 -0.394 96.0 -0.001 9.0 noncon
hsa-miR-6766-5p 3272-3279 -0.39 96.0 -0.001 21.0 noncon
hsa-miR-6756-5p 3272-3279 -0.387 96.0 -0.001 17.0 noncon
hsa-miR-6812-5p 705-712 -0.379 97.0 -0.379 97.0 noncon
hsa-miR-6752-5p 753-760 -0.372 93.0 -0.372 95.0 noncon
hsa-miR-15a-3p 722-729 -0.358 98.0 -0.358 99.0 noncon
hsa-miR-4745-3p 335-341 -0.357 90.0 -0.357 92.0 noncon
hsa-miR-6806-5p 152-159 -0.355 91.0 -0.355 94.0 noncon
hsa-miR-92a-1-5p 708-715 -0.347 94.0 -0.347 96.0 noncon
hsa-miR-6749-3p 1456-1463 -0.346 96.0 -0.001 29.0 noncon
hsa-miR-1260a 862-869 -0.343 96.0 -0.343 97.0 noncon
hsa-miR-1260b 862-869 -0.343 96.0 -0.343 97.0 noncon
hsa-miR-4763-5p 1390-1397 -0.343 92.0 -0.001 21.0 noncon
hsa-miR-4638-5p 1196-1203 -0.338 90.0 -0.338 94.0 noncon
hsa-miR-505-5p 163-170 -0.336 97.0 -0.336 98.0 noncon
hsa-miR-3158-5p 3549-3556 -0.334 98.0 -0.001 35.0 noncon
hsa-miR-4743-5p 1106-1112 -0.334 94.0 -0.334 96.0 noncon
hsa-miR-6819-5p 705-712 -0.329 96.0 -0.329 96.0 noncon
hsa-miR-6737-5p 705-712 -0.329 96.0 -0.329 97.0 noncon
hsa-miR-6721-5p 83-90 -0.328 96.0 -0.328 96.0 noncon
hsa-miR-6090 345-352 -0.318 98.0 -0.318 98.0 noncon
hsa-miR-4763-5p 2867-2874 -0.317 90.0 -0.001 21.0 noncon
hsa-miR-626 673-680 -0.306 93.0 -0.306 95.0 noncon
hsa-miR-4726-3p 1172-1179 -0.303 98.0 -0.303 98.0 noncon
hsa-miR-7154-3p 1686-1693 -0.299 97.0 -0.001 32.0 noncon
hsa-miR-6069 3527-3534 -0.296 94.0 -0.001 22.0 noncon
hsa-miR-4454 1026-1033 -0.293 96.0 -0.293 97.0 noncon
hsa-miR-7154-3p 2093-2100 -0.293 97.0 -0.001 32.0 noncon
hsa-miR-4665-5p 518-525 -0.292 92.0 -0.292 94.0 noncon
hsa-miR-1587 2121-2128 -0.289 95.0 -0.001 25.0 noncon
hsa-miR-3649 2521-2528 -0.286 93.0 -0.001 15.0 noncon
hsa-miR-4796-5p 2352-2359 -0.277 94.0 -0.001 12.0 noncon
hsa-miR-3135b 1335-1342 -0.277 97.0 -0.277 98.0 noncon
hsa-miR-764 98-105 -0.276 98.0 -0.276 98.0 noncon
hsa-miR-6876-3p 673-680 -0.274 91.0 -0.274 94.0 noncon
hsa-miR-7847-3p 2095-2101 -0.271 92.0 -0.001 23.0 noncon
hsa-miR-766-5p 2094-2100 -0.27 95.0 -0.001 15.0 noncon
hsa-miR-4695-5p 3523-3530 -0.266 95.0 -0.001 39.0 noncon
hsa-miR-4758-3p 967-973 -0.265 94.0 -0.265 95.0 noncon
hsa-miR-6793-3p 883-890 -0.262 97.0 -0.262 97.0 noncon
hsa-miR-6856-3p 3150-3156 -0.26 94.0 -0.001 29.0 noncon
hsa-miR-371a-3p 3426-3432 -0.259 95.0 -0.001 15.0 noncon
hsa-miR-3186-5p 1730-1736 -0.253 92.0 -0.001 19.0 noncon