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
LFNG



General Information
Gene Symbol:   
LFNG
Protein name:   
Beta-1,3-N-acetylglucosaminyltransferase lunatic fringe
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT31
E.C. No:   
2.4.1.222
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• Fringe catalyzes the addition of a β1,3GlcNAc linkage to O-fucose in certain Epidermal Growth Factor-like (EGF) repeats, for example in the extracellular domain of Notch. This then controls Notch dependent signaling.
• This structure may be further elongated to a tetrasaccharide with the structure NeuAcα2-3/6Galβ1-4GlcNAcβ1-3Fuc in mammals.
• Three vertebrate fringe homologues have been identified: Lunatic fringe (Lfng), Manic fringe (Mfng), and Radical fringe (Rfng).
• Since over 100 proteins contain O-fucose consensus sites in EGF repeats, fringe may modify O-fucose on a wide variety of proteins.

Related Pathway
KEGG ORTHOLOGY:   
K05948
KEGG Pathway:   
ko00514  ko04330  ko05165 
Reactome:   
R-HSA-1912420
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q8NES3 
NCBI GeneID:   
3955
GlyMap GeneID:   
3955
DNA aRefSeq:   
NM_001040167.1 
Protein RefSeq:   
NP_001035257.1 
BRENDA:   
Kinetic info.
OMIM number:   
602576
GeneCards database:   
LFNG
Enzyme Specificity
Glycan Type:  
     O-linked (other)
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     Fuc(a1-?)Ser|Thr
Product:  
     GlcNAc(b1-3)Fuc(a1-?)Ser|Thr
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 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 160 140 120 100 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-125a-5p 1148-1155 -0.63 99.0 -0.613 99.0 con
hsa-miR-3940-3p 337-344 -0.618 99.0 -0.618 99.0 noncon
hsa-miR-125b-5p 1148-1155 -0.614 99.0 -0.597 99.0 con
hsa-miR-4319 1148-1155 -0.606 99.0 -0.59 99.0 con
hsa-miR-4315 1123-1130 -0.592 99.0 -0.576 99.0 noncon
hsa-miR-4790-5p 1124-1131 -0.55 98.0 -0.535 98.0 noncon
hsa-miR-4707-3p 194-201 -0.516 93.0 -0.516 96.0 noncon
hsa-miR-6846-5p 587-594 -0.509 97.0 -0.509 98.0 noncon
hsa-miR-6848-5p 587-594 -0.509 97.0 -0.509 98.0 noncon
hsa-miR-3151-3p 904-911 -0.471 98.0 -0.459 98.0 noncon
hsa-miR-3677-3p 580-587 -0.468 95.0 -0.468 96.0 noncon
hsa-miR-4663 712-719 -0.465 99.0 -0.465 99.0 noncon
hsa-miR-4489 443-450 -0.449 99.0 -0.449 99.0 noncon
hsa-miR-3663-3p 1201-1207 -0.447 97.0 -0.435 98.0 noncon
hsa-miR-6801-3p 478-485 -0.438 98.0 -0.438 98.0 noncon
hsa-miR-4446-5p 1137-1144 -0.409 99.0 -0.399 99.0 noncon
hsa-miR-3127-5p 417-424 -0.406 98.0 -0.406 98.0 noncon
hsa-miR-6810-3p 478-485 -0.404 97.0 -0.404 98.0 noncon
hsa-miR-3667-5p 876-883 -0.398 99.0 -0.388 99.0 noncon
hsa-miR-146b-5p 1144-1151 -0.391 98.0 -0.381 99.0 con
hsa-miR-146a-5p 1144-1151 -0.391 98.0 -0.381 99.0 con
hsa-miR-6761-3p 362-368 -0.386 92.0 -0.386 95.0 noncon
hsa-miR-214-3p 381-388 -0.382 99.0 -0.382 99.0 noncon
hsa-miR-6852-5p 690-697 -0.375 98.0 -0.375 98.0 noncon
hsa-miR-4755-5p 1136-1143 -0.373 98.0 -0.364 99.0 noncon
hsa-miR-6825-5p 687-694 -0.369 94.0 -0.369 95.0 noncon
hsa-miR-5006-3p 1136-1143 -0.365 98.0 -0.356 99.0 noncon
hsa-miR-6845-5p 576-583 -0.362 95.0 -0.362 96.0 noncon
hsa-miR-6762-5p 576-583 -0.362 95.0 -0.362 96.0 noncon
hsa-miR-7153-5p 1144-1151 -0.359 98.0 -0.35 98.0 con
hsa-miR-4706 1043-1049 -0.356 92.0 -0.347 94.0 noncon
hsa-miR-4749-5p 1043-1049 -0.355 93.0 -0.346 94.0 noncon
hsa-miR-3619-5p 381-388 -0.348 98.0 -0.348 99.0 noncon
hsa-miR-6815-3p 918-925 -0.341 96.0 -0.333 97.0 noncon
hsa-miR-3177-3p 101-107 -0.336 90.0 -0.336 93.0 noncon
hsa-miR-1909-5p 970-976 -0.329 95.0 -0.321 97.0 noncon
hsa-miR-6792-3p 256-263 -0.316 96.0 -0.316 97.0 noncon
hsa-miR-6753-5p 32-39 -0.315 96.0 -0.315 97.0 noncon
hsa-miR-5591-3p 821-828 -0.313 96.0 -0.305 97.0 noncon
hsa-miR-527 1103-1110 -0.312 99.0 -0.304 99.0 noncon
hsa-miR-518a-5p 1103-1110 -0.312 99.0 -0.304 99.0 noncon
hsa-miR-1207-5p 1014-1020 -0.312 96.0 -0.304 96.0 noncon
hsa-miR-761 381-388 -0.304 99.0 -0.304 99.0 noncon
hsa-miR-4697-5p 588-594 -0.293 92.0 -0.293 93.0 noncon
hsa-miR-342-5p 625-631 -0.293 94.0 -0.293 95.0 noncon
hsa-miR-384 1119-1126 -0.292 98.0 -0.285 98.0 con
hsa-miR-24-3p 462-469 -0.291 96.0 -0.291 97.0 noncon
hsa-miR-670-5p 1149-1156 -0.288 98.0 -0.281 98.0 noncon
hsa-miR-6762-3p 554-561 -0.288 94.0 -0.288 96.0 noncon
hsa-miR-6768-5p 1026-1033 -0.288 98.0 -0.281 98.0 noncon
hsa-miR-6729-3p 817-823 -0.288 94.0 -0.281 95.0 noncon
hsa-miR-4433a-5p 958-964 -0.287 95.0 -0.28 96.0 noncon
hsa-miR-4252 620-627 -0.282 97.0 -0.282 98.0 noncon
hsa-miR-4664-5p 625-631 -0.281 94.0 -0.281 95.0 noncon
hsa-miR-4488 588-594 -0.281 91.0 -0.281 92.0 noncon
hsa-miR-6773-3p 780-786 -0.28 95.0 -0.28 96.0 noncon
hsa-miR-6815-5p 1037-1043 -0.268 94.0 -0.262 95.0 noncon
hsa-miR-4260 445-451 -0.266 93.0 -0.266 95.0 noncon
hsa-miR-6859-3p 931-937 -0.265 90.0 -0.259 93.0 noncon
hsa-miR-3192-3p 905-912 -0.263 97.0 -0.257 98.0 noncon
hsa-miR-4792 1063-1069 -0.26 93.0 -0.254 95.0 noncon
hsa-miR-128-1-5p 577-583 -0.258 91.0 -0.258 93.0 noncon
hsa-miR-4265 752-758 -0.257 93.0 -0.257 95.0 noncon
hsa-miR-6865-5p 1037-1043 -0.257 93.0 -0.251 95.0 noncon
hsa-miR-4292 49-56 -0.257 94.0 -0.257 95.0 noncon
hsa-miR-3150b-3p 725-731 -0.255 95.0 -0.255 96.0 noncon
hsa-miR-4784 725-731 -0.255 95.0 -0.255 96.0 noncon
hsa-miR-149-3p 629-636 -0.251 93.0 -0.251 94.0 noncon
hsa-miR-4296 752-758 -0.25 92.0 -0.25 94.0 noncon
hsa-miR-885-3p 65-71 -0.25 95.0 -0.25 96.0 noncon