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
B3GNT5



General Information
Gene Symbol:   
B3GNT5
Protein name:   
Lactosylceramide 1,3-N-acetyl-beta-D-glucosaminyltransferase
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.206
Organs:   
Reaction (SNFG):   
+
→
+ UDP
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• B3GnT5 is a lactotriaosylceramide (Lc3Cer) synthase and is considered to be important for synthesizing lacto-/neolactoseries glycolipids.
• B3GnT5 prefers shorter LacNAc substrates (2LN and 3LN), but no longer ones.
• Disruption of the B3gnt5 gene in mice leads to pre-implantation lethality. Defects in B-cell function and lipid raft formation are also reported.

Related Pathway
KEGG ORTHOLOGY:   
K03766
KEGG Pathway:   
ko00601  ko01100 
Reactome:   
R-HSA-913709
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9BYG0 
NCBI GeneID:   
84002
GlyMap GeneID:   
84002
DNA aRefSeq:   
NM_032047.4 
Protein RefSeq:   
NP_114436.1 
BRENDA:   
Kinetic info.
OMIM number:   
615333
GeneCards database:   
B3GNT5
Enzyme Specificity
Glycan Type:  
     GSL
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Gal(b1-4)Glc(b1-?)Cer or Gal(b1-4)
Product:  
     GlcNAc(b1-3)Gal(b1-4)Glc(b1-?)Cer or GlcNAc(b1-3)Gal(b1-4)
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 50 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
ENST00000326505 ENST00000462559 ENST00000465010 CREB3 ZNF584 SMARCC1 ZNF589 ZNF175 NR2C2 MITF MAX ZNF143 USF2 NFE2 TFAP2C JUN E2F6 MYC CREM TAL1 E2F4 E2F4
miRNA-GlycoEnzyme Interactome {ref. 9}
miRNA Name Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
hsa-miR-4465 2368-2375 -0.438 99.0 -0.438 99.0 noncon
hsa-miR-30e-3p 2439-2446 -0.434 99.0 -0.427 99.0 noncon
hsa-miR-30a-3p 2439-2446 -0.426 99.0 -0.419 99.0 noncon
hsa-miR-30d-3p 2439-2446 -0.426 99.0 -0.419 99.0 noncon
hsa-miR-26a-5p 2368-2375 -0.425 99.0 -0.425 99.0 noncon
hsa-miR-26b-5p 2368-2375 -0.425 99.0 -0.425 99.0 noncon
hsa-miR-1297 2368-2375 -0.417 99.0 -0.417 99.0 noncon
hsa-miR-449b-3p 1298-1305 -0.401 99.0 -0.401 99.0 noncon
hsa-miR-200a-3p 2276-2283 -0.379 99.0 -0.379 99.0 con
hsa-miR-141-3p 2276-2283 -0.371 99.0 -0.371 99.0 con
hsa-miR-5190 29-36 -0.369 99.0 -0.369 99.0 noncon
hsa-miR-598-3p 799-805 -0.358 94.0 -0.358 97.0 noncon
hsa-miR-6825-5p 1002-1009 -0.357 94.0 -0.357 95.0 noncon
hsa-miR-3613-5p 360-367 -0.354 97.0 -0.354 98.0 noncon
hsa-miR-6503-3p 119-126 -0.332 97.0 -0.332 98.0 noncon
hsa-miR-6867-3p 761-768 -0.331 97.0 -0.331 98.0 noncon
hsa-miR-30a-5p 1570-1577 -0.326 96.0 -0.326 97.0 con
hsa-miR-30e-5p 1570-1577 -0.326 96.0 -0.326 97.0 con
hsa-miR-30c-5p 1570-1577 -0.326 96.0 -0.326 97.0 con
hsa-miR-30d-5p 1570-1577 -0.326 96.0 -0.326 97.0 con
hsa-miR-136-5p 887-894 -0.326 97.0 -0.326 98.0 noncon
hsa-miR-30b-5p 1570-1577 -0.326 96.0 -0.326 97.0 con
hsa-miR-3664-5p 1161-1168 -0.324 98.0 -0.324 99.0 noncon
hsa-miR-6801-5p 1737-1744 -0.324 97.0 -0.324 98.0 noncon
hsa-miR-2117 1758-1765 -0.319 96.0 -0.319 97.0 noncon
hsa-miR-6752-3p 446-453 -0.315 95.0 -0.315 96.0 noncon
hsa-miR-2909 666-672 -0.313 97.0 -0.313 98.0 noncon
hsa-miR-1197 1990-1996 -0.312 98.0 -0.312 98.0 noncon
hsa-miR-4446-5p 2222-2229 -0.306 97.0 -0.306 98.0 noncon
hsa-miR-4776-3p 2388-2395 -0.304 96.0 -0.304 97.0 noncon
hsa-miR-3660 1117-1124 -0.304 97.0 -0.304 98.0 noncon
hsa-miR-6739-3p 1760-1767 -0.303 96.0 -0.303 97.0 noncon
hsa-miR-433-3p 2450-2456 -0.302 97.0 -0.024 67.0 noncon
hsa-miR-100-3p 1787-1794 -0.292 98.0 -0.292 98.0 noncon
hsa-miR-3651 2194-2200 -0.291 93.0 -0.291 95.0 noncon
hsa-miR-5590-5p 2387-2394 -0.291 97.0 -0.291 98.0 noncon
hsa-miR-6845-3p 465-472 -0.289 96.0 -0.289 97.0 noncon
hsa-miR-1537-5p 1933-1940 -0.282 92.0 -0.282 94.0 noncon
hsa-miR-6763-5p 1003-1010 -0.281 94.0 -0.281 96.0 noncon
hsa-miR-335-5p 2380-2386 -0.281 97.0 -0.281 98.0 noncon
hsa-miR-1248 2161-2168 -0.277 96.0 -0.277 97.0 noncon
hsa-miR-7156-5p 1759-1766 -0.277 97.0 -0.277 98.0 noncon
hsa-miR-3143 2350-2357 -0.275 98.0 -0.275 98.0 noncon
hsa-miR-3688-3p 2324-2331 -0.274 98.0 -0.274 98.0 noncon
hsa-miR-29a-3p 2179-2185 -0.274 90.0 -0.274 93.0 con
hsa-miR-29b-3p 2179-2185 -0.274 90.0 -0.274 93.0 con
hsa-miR-29c-3p 2179-2185 -0.274 90.0 -0.274 93.0 con
hsa-miR-4678 603-609 -0.273 95.0 -0.273 97.0 noncon
hsa-miR-4764-5p 568-575 -0.271 92.0 -0.271 94.0 noncon
hsa-miR-30a-5p 1615-1622 -0.264 93.0 -0.264 95.0 con
hsa-miR-3689f 160-166 -0.261 94.0 -0.261 96.0 noncon
hsa-miR-3686 1573-1580 -0.259 96.0 -0.259 97.0 noncon
hsa-miR-1321 1318-1324 -0.259 94.0 -0.259 95.0 noncon
hsa-miR-4755-5p 2221-2228 -0.258 96.0 -0.258 97.0 noncon
hsa-miR-545-3p 1965-1972 -0.258 97.0 -0.258 98.0 noncon
hsa-miR-26a-2-3p 2011-2018 -0.257 95.0 -0.257 97.0 noncon
hsa-miR-26a-1-3p 2011-2018 -0.257 95.0 -0.257 97.0 noncon
hsa-miR-6732-3p 1707-1713 -0.256 95.0 -0.256 97.0 noncon
hsa-miR-30c-5p 1615-1622 -0.256 92.0 -0.256 94.0 con
hsa-miR-30b-5p 1615-1622 -0.256 92.0 -0.256 94.0 con
hsa-miR-6888-3p 909-916 -0.255 95.0 -0.255 97.0 noncon
hsa-miR-542-3p 27-33 -0.255 95.0 -0.255 96.0 con
hsa-miR-34b-3p 653-660 -0.255 98.0 -0.255 98.0 noncon
hsa-miR-204-5p 2220-2227 -0.255 95.0 -0.255 96.0 con
hsa-miR-211-5p 2220-2227 -0.255 95.0 -0.255 96.0 con
hsa-miR-302c-5p 2351-2358 -0.255 98.0 -0.255 99.0 noncon
hsa-miR-10b-5p 1706-1712 -0.252 96.0 -0.252 97.0 noncon
hsa-miR-10a-5p 1706-1712 -0.252 96.0 -0.252 97.0 noncon
hsa-miR-4714-5p 1695-1702 -0.251 96.0 -0.251 97.0 noncon
hsa-miR-5006-3p 2221-2228 -0.25 96.0 -0.25 97.0 noncon