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
B3GALT1



General Information
Gene Symbol:   
B3GALT1
Protein name:   
Beta-1,3-galactosyltransferase 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.86
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• Forms type 1 LacNAc chains (Galβ1-3GlcNAc) primarily in cell types derived from the endoderm (lung, thyroid, pancreas etc.).
• Helps form Lewisa and Lewisb antigens, and also sialyl-Lea (N19-9) and disialyl-Lea (FH7).
• Three enzymes may form the type I LacNAc chain (B3GalT-1, -2 and -5). The expression pattern of these three enzymes vary with B3Gal-T1 being restricted to brain as well as intestine and colon; B3Gal-T2 in heart, brain, and bone marrow; and B3Gal-T5 in the gastrointestinal tract.
• B3Gal-T1 showed activity toward simple βGlcNAc saccharides and lacto-series glycosphingolipids, but not N-glycans on ovalbumin and asialo-agalacto-fetuin.
• B3Gal-T2 shows activity with both simple βGlcNAc saccharides, βGlcNAc terminating lacto-series glycosphingolipids, and ovalbumin and asialoagalacto-fetuin N-glycoprotein acceptors.
• B3Gal-T5 produces type 1 chain linkage in glycolipids and core-3 O-glycans, but not N-linked glycoproteins.
• Thus, multiple enzymes act on GSLs, but only B3GalT2 acts on N-glycans.

Related Pathway
KEGG ORTHOLOGY:   
K07819
KEGG Pathway:   
ko00601  ko01100 
Reactome:   
R-HSA-9037629
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9Y5Z6 
NCBI GeneID:   
8708
GlyMap GeneID:   
8708
DNA aRefSeq:   
NM_020981.3 
Protein RefSeq:   
NP_066191.1 
BRENDA:   
Kinetic info.
OMIM number:   
603093
GeneCards database:   
B3GALT1
Enzyme Specificity
Glycan Type:  
     O-linked (mucin type), O-linked (other), GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GlcNAc(b1-?)
Product:  
     Gal(b1-3)GlcNAc(b1-?)
Constraints:  
     !Gal(b1-4)GlcNAc(b1-?)&!@GlcNAc(b1-4)...Man(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 4 2 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-4757-3p 3670-3677 -0.538 98.0 -0.136 76.0 noncon
hsa-miR-1237-3p 4011-4018 -0.473 99.0 -0.121 89.0 noncon
hsa-miR-6851-3p 197-204 -0.466 98.0 -0.466 99.0 noncon
hsa-miR-6165 120-127 -0.465 99.0 -0.465 99.0 noncon
hsa-miR-4433b-5p 3998-4005 -0.461 99.0 -0.119 81.0 noncon
hsa-miR-4646-3p 3999-4006 -0.459 98.0 -0.118 81.0 noncon
hsa-miR-4790-5p 3340-3347 -0.441 96.0 -0.114 79.0 noncon
hsa-miR-642a-3p 4025-4032 -0.428 99.0 0.0 21.0 noncon
hsa-miR-642b-3p 4025-4032 -0.428 99.0 0.0 21.0 noncon
hsa-miR-3679-3p 78-85 -0.418 97.0 -0.418 98.0 noncon
hsa-miR-7156-5p 4017-4024 -0.382 99.0 0.0 39.0 noncon
hsa-miR-4524b-5p 3806-3813 -0.376 96.0 -0.099 79.0 noncon
hsa-miR-4524a-5p 3806-3813 -0.376 96.0 -0.099 79.0 noncon
hsa-miR-4763-5p 830-837 -0.374 93.0 -0.098 71.0 noncon
hsa-miR-1539 1717-1723 -0.359 94.0 -0.095 69.0 noncon
hsa-miR-646 3805-3812 -0.347 98.0 -0.092 84.0 noncon
hsa-miR-3199 216-223 -0.344 96.0 -0.091 72.0 noncon
hsa-miR-6772-3p 2696-2703 -0.34 97.0 -0.09 79.0 noncon
hsa-miR-4443 745-752 -0.339 97.0 -0.09 81.0 noncon
hsa-miR-8052 216-223 -0.339 96.0 -0.09 72.0 noncon
hsa-miR-6895-5p 1023-1030 -0.335 97.0 -0.089 76.0 noncon
hsa-miR-4708-3p 2561-2568 -0.333 95.0 -0.088 78.0 noncon
hsa-miR-3127-3p 95-101 -0.333 96.0 -0.333 97.0 noncon
hsa-miR-4435 3032-3039 -0.331 97.0 -0.088 80.0 noncon
hsa-miR-215-3p 3855-3862 -0.331 98.0 -0.088 87.0 noncon
hsa-miR-6886-3p 196-202 -0.329 95.0 -0.329 96.0 noncon
hsa-miR-6840-5p 77-83 -0.324 91.0 -0.324 93.0 noncon
hsa-miR-6756-3p 95-101 -0.322 95.0 -0.322 96.0 noncon
hsa-miR-642b-3p 330-337 -0.319 97.0 -0.085 86.0 noncon
hsa-miR-642a-3p 330-337 -0.319 97.0 -0.085 86.0 noncon
hsa-miR-6733-3p 3861-3868 -0.319 97.0 -0.085 85.0 noncon
hsa-miR-212-5p 3433-3440 -0.314 96.0 -0.084 80.0 noncon
hsa-miR-6838-5p 3806-3812 -0.311 96.0 -0.083 76.0 con
hsa-miR-4273 4017-4024 -0.306 99.0 0.0 47.0 noncon
hsa-miR-543 157-164 -0.304 99.0 -0.304 99.0 noncon
hsa-miR-3175 2829-2836 -0.302 95.0 -0.081 65.0 noncon
hsa-miR-6771-3p 98-104 -0.302 98.0 -0.302 98.0 noncon
hsa-miR-562 657-664 -0.301 97.0 -0.081 87.0 noncon
hsa-miR-3144-3p 3663-3670 -0.299 95.0 -0.08 76.0 noncon
hsa-miR-1825 3166-3173 -0.299 97.0 -0.08 83.0 noncon
hsa-miR-3150a-3p 2830-2837 -0.295 95.0 -0.079 73.0 noncon
hsa-miR-5002-3p 1760-1767 -0.29 93.0 -0.078 73.0 noncon
hsa-miR-6763-5p 2830-2837 -0.287 95.0 -0.077 71.0 noncon
hsa-miR-223-5p 357-364 -0.287 95.0 -0.077 76.0 noncon
hsa-miR-497-5p 3806-3812 -0.283 95.0 -0.076 76.0 con
hsa-miR-6828-5p 116-122 -0.283 95.0 -0.283 96.0 noncon
hsa-miR-219b-3p 385-392 -0.272 96.0 -0.073 82.0 noncon
hsa-miR-425-5p 332-339 -0.271 97.0 -0.073 86.0 noncon
hsa-miR-532-3p 3539-3546 -0.271 97.0 -0.073 87.0 noncon
hsa-miR-2861 3940-3947 -0.27 94.0 -0.073 71.0 noncon
hsa-miR-4693-5p 323-330 -0.27 96.0 -0.073 76.0 noncon
hsa-miR-3127-5p 2681-2687 -0.268 93.0 -0.072 72.0 noncon
hsa-miR-7156-5p 875-882 -0.267 97.0 -0.072 86.0 noncon
hsa-miR-3151-5p 1832-1839 -0.266 94.0 -0.072 78.0 noncon
hsa-miR-3065-3p 1567-1574 -0.265 96.0 -0.072 84.0 noncon
hsa-miR-15b-5p 3806-3812 -0.262 93.0 -0.071 73.0 con
hsa-miR-15a-5p 3806-3812 -0.262 93.0 -0.071 73.0 con
hsa-miR-652-5p 3781-3788 -0.261 97.0 -0.071 79.0 noncon
hsa-miR-424-5p 3806-3812 -0.259 93.0 -0.07 74.0 con
hsa-miR-4709-5p 3910-3917 -0.259 97.0 -0.07 85.0 noncon
hsa-miR-3136-3p 1158-1165 -0.256 94.0 -0.069 70.0 noncon
hsa-miR-4291 1400-1407 -0.256 95.0 -0.069 75.0 noncon
hsa-miR-328-3p 198-204 -0.255 93.0 -0.255 95.0 noncon
hsa-miR-191-3p 1716-1722 -0.255 92.0 -0.069 68.0 noncon
hsa-miR-4448 2695-2702 -0.253 97.0 -0.069 83.0 noncon