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
B3GAT3



General Information
Gene Symbol:   
B3GAT3
Protein name:   
Galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 3
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT43
E.C. No:   
2.4.1.135
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• GlcA-transferase activity that catalyzes formation of core tetrasaccharide unit that is part of O-Xyl connection to protein core.
• Critical for HS and CS biosynthesis.
• May play minor role in the biosynthesis of HNK-1 carbohydrate epitope.

Related Pathway
KEGG ORTHOLOGY:   
K10158
KEGG Pathway:   
ko00532  ko00534  ko01100 
Reactome:   
R-HSA-1971475
Related Database
Organism:   
Homo sapiens
Uniprot:   
O94766 
NCBI GeneID:   
26229
GlyMap GeneID:   
26229
DNA aRefSeq:   
NM_001288723.1 
Protein RefSeq:   
NP_001275652.1 
BRENDA:   
Kinetic info.
OMIM number:   
606374
GeneCards database:   
B3GAT3
Enzyme Specificity
Glycan Type:  
     GAG
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Gal(b1-3)Gal(b1-4)Xyl(b1-?)Ser
Product:  
     GlcA(b1-3)Gal(b1-3)Gal(b1-4)Xyl(b1-?)Ser
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 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 120 100 80 60 40 20 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-1273h-5p 60-67 -0.593 99.0 -0.593 99.0 noncon
hsa-miR-6779-5p 60-67 -0.569 99.0 -0.569 99.0 noncon
hsa-miR-3689c 60-67 -0.569 99.0 -0.569 99.0 noncon
hsa-miR-3689b-3p 60-67 -0.569 99.0 -0.569 99.0 noncon
hsa-miR-3689a-3p 60-67 -0.569 99.0 -0.569 99.0 noncon
hsa-miR-6780a-5p 60-67 -0.564 99.0 -0.564 99.0 noncon
hsa-miR-30b-3p 60-67 -0.561 99.0 -0.561 99.0 noncon
hsa-miR-1827 51-58 -0.504 99.0 -0.504 99.0 noncon
hsa-miR-516b-5p 880-887 -0.501 99.0 -0.001 25.0 noncon
hsa-miR-1268b 95-101 -0.501 91.0 -0.501 95.0 noncon
hsa-miR-1268a 95-101 -0.501 91.0 -0.501 95.0 noncon
hsa-miR-4482-5p 788-795 -0.458 99.0 -0.001 30.0 noncon
hsa-miR-3130-5p 788-795 -0.448 99.0 -0.001 30.0 noncon
hsa-miR-25-5p 23-29 -0.438 96.0 -0.438 97.0 noncon
hsa-miR-4786-5p 156-163 -0.438 99.0 -0.001 21.0 noncon
hsa-miR-33b-3p 255-262 -0.436 98.0 -0.001 21.0 noncon
hsa-miR-519e-3p 255-262 -0.425 98.0 -0.001 19.0 noncon
hsa-miR-4290 772-779 -0.423 96.0 -0.001 21.0 noncon
hsa-miR-1237-3p 748-755 -0.423 99.0 -0.001 34.0 noncon
hsa-miR-550a-5p 533-540 -0.422 98.0 -0.001 19.0 noncon
hsa-miR-1271-3p 533-540 -0.422 98.0 -0.001 18.0 noncon
hsa-miR-550a-3-5p 533-540 -0.422 98.0 -0.001 19.0 noncon
hsa-miR-5588-3p 73-80 -0.422 99.0 -0.422 99.0 noncon
hsa-miR-6087 25-31 -0.419 96.0 -0.419 97.0 noncon
hsa-miR-3656 85-91 -0.402 96.0 -0.402 97.0 noncon
hsa-miR-6774-5p 432-439 -0.4 98.0 -0.001 36.0 noncon
hsa-miR-1247-3p 30-36 -0.396 97.0 -0.396 98.0 noncon
hsa-miR-6893-5p 50-56 -0.394 99.0 -0.394 99.0 noncon
hsa-miR-635 432-439 -0.392 98.0 -0.001 37.0 noncon
hsa-miR-128-1-5p 505-512 -0.387 98.0 -0.001 17.0 noncon
hsa-miR-6808-5p 50-56 -0.383 99.0 -0.383 99.0 noncon
hsa-miR-3934-3p 854-861 -0.367 98.0 -0.001 24.0 noncon
hsa-miR-515-3p 255-262 -0.363 98.0 -0.001 29.0 noncon
hsa-miR-615-3p 338-344 -0.363 91.0 -0.001 9.0 noncon
hsa-miR-6732-5p 867-873 -0.361 96.0 -0.001 10.0 noncon
hsa-miR-652-5p 316-323 -0.355 99.0 -0.001 21.0 noncon
hsa-miR-512-5p 780-787 -0.352 98.0 -0.001 39.0 noncon
hsa-miR-6889-3p 535-542 -0.352 97.0 -0.001 33.0 noncon
hsa-miR-6499-5p 230-236 -0.351 90.0 -0.001 10.0 noncon
hsa-miR-940 50-56 -0.343 99.0 -0.343 99.0 noncon
hsa-miR-4259 514-521 -0.339 96.0 -0.001 28.0 noncon
hsa-miR-6721-5p 276-282 -0.335 96.0 -0.001 23.0 noncon
hsa-miR-4651 510-517 -0.335 91.0 -0.001 16.0 noncon
hsa-miR-6876-5p 871-878 -0.328 99.0 -0.001 43.0 noncon
hsa-let-7a-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-let-7b-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-let-7e-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-let-7g-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-miR-98-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-let-7i-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-let-7c-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-let-7f-5p 876-882 -0.324 91.0 -0.001 17.0 con
hsa-miR-4476 871-878 -0.32 98.0 -0.001 43.0 noncon
hsa-miR-6879-5p 277-283 -0.317 97.0 -0.001 26.0 noncon
hsa-miR-149-5p 602-609 -0.317 97.0 -0.001 39.0 noncon
hsa-miR-6819-5p 511-518 -0.316 95.0 -0.001 20.0 noncon
hsa-miR-6742-3p 763-770 -0.315 98.0 -0.001 39.0 noncon
hsa-miR-4722-5p 48-54 -0.314 98.0 -0.314 98.0 noncon
hsa-miR-1225-3p 473-480 -0.314 95.0 -0.001 25.0 noncon
hsa-miR-4500 876-882 -0.313 90.0 -0.001 18.0 con
hsa-miR-766-5p 267-274 -0.308 96.0 -0.001 16.0 noncon
hsa-miR-6737-5p 511-518 -0.308 95.0 -0.001 21.0 noncon
hsa-miR-128-2-5p 505-512 -0.306 97.0 -0.001 25.0 noncon
hsa-miR-6735-5p 277-283 -0.306 97.0 -0.001 25.0 noncon
hsa-miR-6812-5p 511-518 -0.302 94.0 -0.001 21.0 noncon
hsa-miR-6884-5p 57-63 -0.301 96.0 -0.301 97.0 noncon
hsa-miR-6851-5p 878-884 -0.296 94.0 -0.001 20.0 noncon
hsa-miR-6721-5p 565-572 -0.296 94.0 -0.001 23.0 noncon
hsa-miR-4436b-3p 277-283 -0.295 96.0 -0.001 25.0 noncon
hsa-miR-7160-5p 54-60 -0.293 97.0 -0.293 98.0 noncon
hsa-miR-4728-5p 60-66 -0.293 95.0 -0.293 96.0 noncon
hsa-miR-1271-3p 81-87 -0.292 93.0 -0.292 95.0 noncon
hsa-miR-550a-3-5p 81-87 -0.292 93.0 -0.292 95.0 noncon
hsa-miR-550a-5p 81-87 -0.292 93.0 -0.292 95.0 noncon
hsa-miR-4667-3p 767-774 -0.29 96.0 -0.001 24.0 noncon
hsa-miR-1207-5p 275-281 -0.29 95.0 -0.001 29.0 noncon
hsa-miR-485-5p 57-63 -0.29 96.0 -0.29 97.0 noncon
hsa-miR-4649-3p 53-59 -0.288 98.0 -0.288 98.0 noncon
hsa-miR-4768-3p 165-172 -0.286 98.0 -0.001 34.0 noncon
hsa-miR-3650 39-45 -0.284 95.0 -0.284 97.0 noncon
hsa-miR-4536-5p 91-97 -0.28 91.0 -0.28 94.0 noncon
hsa-miR-6134 522-528 -0.279 93.0 -0.001 22.0 noncon
hsa-miR-3202 870-876 -0.27 95.0 -0.001 30.0 noncon
hsa-miR-660-3p 445-452 -0.269 96.0 -0.001 26.0 noncon
hsa-miR-4763-3p 275-281 -0.269 94.0 -0.001 28.0 noncon
hsa-miR-5699-5p 801-807 -0.268 96.0 -0.001 14.0 noncon
hsa-miR-1273h-5p 195-202 -0.268 92.0 -0.001 27.0 noncon
hsa-miR-423-5p 622-628 -0.263 90.0 -0.001 22.0 noncon
hsa-miR-4790-3p 42-48 -0.263 96.0 -0.263 97.0 noncon
hsa-miR-4728-5p 659-665 -0.263 94.0 -0.001 26.0 noncon
hsa-miR-7847-3p 269-275 -0.262 91.0 -0.001 23.0 noncon
hsa-miR-454-5p 314-320 -0.261 92.0 -0.001 23.0 noncon
hsa-miR-939-3p 568-575 -0.261 95.0 -0.001 40.0 noncon
hsa-miR-4999-3p 124-130 -0.26 92.0 -0.26 95.0 noncon
hsa-miR-6880-5p 270-276 -0.259 90.0 -0.001 20.0 noncon
hsa-miR-149-3p 60-66 -0.258 94.0 -0.258 95.0 noncon
hsa-miR-4632-5p 277-283 -0.258 97.0 -0.001 35.0 noncon
hsa-miR-144-3p 300-307 -0.253 96.0 -0.001 31.0 noncon
hsa-miR-6779-5p 195-202 -0.252 91.0 -0.001 28.0 noncon
hsa-miR-1254 334-340 -0.251 96.0 -0.001 18.0 noncon