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
POMT2



General Information
Gene Symbol:   
POMT2
Protein name:   
Protein O-mannosyl-transferase 2
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT39
E.C. No:   
2.4.1.109
Organs:   
Reaction (SNFG):   
+ Ser →
+ UDP
+ Thr →
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• POMT1/POMT2 enzymes initiate O-Man biosynthesis at unfolded regions (mucin-like domain) of alpha-dystroglycan. Protein context appears to be important for directing coreM1-3 biosynthesis.
• These are unusual ER localized enzymes with 7 & 9 transmembrane helices.
• Defects in O-mannosyl glycans on α-DG are reported to cause several a-dystroglycanopathies.

Related Pathway
KEGG ORTHOLOGY:   
K00728
KEGG Pathway:   
ko00514  ko00515  ko01100 
Reactome:   
R-HSA-5083629
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9UKY4 
NCBI GeneID:   
29954
GlyMap GeneID:   
29954
DNA aRefSeq:   
NM_013382.5 
Protein RefSeq:   
NP_037514.2 
BRENDA:   
Kinetic info.
OMIM number:   
607439
GeneCards database:   
POMT2
Enzyme Specificity
Glycan Type:  
     O-linked (other)
Compartment:  
     ER
Substrate:  
     Ser or Thr
Product:  
     Man(a1-?)Ser or Man(a1-?)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 12 10 8 6 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 40 30 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-3944-3p 99-106 -0.674 98.0 -0.674 98.0 noncon
hsa-miR-4743-5p 73-80 -0.624 99.0 -0.624 99.0 noncon
hsa-miR-3605-3p 207-214 -0.547 98.0 -0.547 98.0 noncon
hsa-miR-140-3p.1 323-330 -0.53 99.0 -0.53 99.0 con
hsa-miR-770-5p 62-69 -0.492 99.0 -0.492 99.0 noncon
hsa-miR-4712-5p 62-69 -0.492 99.0 -0.492 99.0 noncon
hsa-miR-184 193-200 -0.492 97.0 -0.492 98.0 noncon
hsa-miR-23b-5p 154-161 -0.443 98.0 -0.443 98.0 noncon
hsa-miR-425-5p 358-365 -0.426 99.0 -0.425 99.0 con
hsa-miR-4792 117-124 -0.42 98.0 -0.42 98.0 noncon
hsa-miR-4749-3p 1958-1965 -0.413 97.0 -0.013 45.0 noncon
hsa-miR-4750-5p 100-106 -0.394 94.0 -0.394 95.0 noncon
hsa-miR-23a-5p 154-161 -0.367 97.0 -0.367 98.0 noncon
hsa-miR-6801-3p 251-258 -0.359 96.0 -0.359 97.0 noncon
hsa-miR-6825-5p 1188-1195 -0.358 94.0 -0.011 27.0 noncon
hsa-miR-1233-5p 560-567 -0.348 96.0 -0.011 31.0 noncon
hsa-miR-132-5p 1418-1425 -0.348 92.0 -0.011 27.0 noncon
hsa-miR-4730 1332-1338 -0.344 93.0 -0.011 20.0 noncon
hsa-miR-3690 26-33 -0.34 98.0 -0.34 98.0 noncon
hsa-miR-6810-3p 251-258 -0.333 95.0 -0.333 97.0 noncon
hsa-miR-5693 2385-2392 -0.331 99.0 -0.01 67.0 noncon
hsa-miR-6779-5p 2022-2029 -0.329 96.0 -0.01 45.0 noncon
hsa-miR-6778-5p 560-567 -0.324 95.0 -0.01 31.0 noncon
hsa-miR-30b-3p 2022-2029 -0.321 96.0 -0.01 46.0 noncon
hsa-miR-1539 249-255 -0.315 92.0 -0.315 94.0 noncon
hsa-miR-6726-5p 1361-1368 -0.309 94.0 -0.01 30.0 noncon
hsa-miR-711 23-30 -0.307 96.0 -0.307 97.0 noncon
hsa-miR-5589-5p 157-164 -0.307 99.0 -0.307 99.0 noncon
hsa-miR-3689b-3p 2022-2029 -0.305 95.0 -0.01 46.0 noncon
hsa-miR-3689a-3p 2022-2029 -0.305 95.0 -0.01 46.0 noncon
hsa-miR-1273h-5p 2022-2029 -0.305 95.0 -0.01 43.0 noncon
hsa-miR-3689c 2022-2029 -0.305 95.0 -0.01 46.0 noncon
hsa-miR-7977 51-58 -0.303 98.0 -0.303 98.0 noncon
hsa-miR-4648 2278-2285 -0.302 96.0 -0.009 42.0 noncon
hsa-miR-122-5p 1338-1345 -0.299 97.0 -0.009 45.0 con
hsa-miR-6815-3p 2381-2388 -0.296 95.0 -0.009 37.0 noncon
hsa-miR-5591-5p 1361-1368 -0.296 93.0 -0.009 30.0 noncon
hsa-miR-512-5p 353-359 -0.295 97.0 -0.294 98.0 noncon
hsa-miR-3690 378-384 -0.293 97.0 -0.245 97.0 noncon
hsa-miR-296-5p 1581-1587 -0.291 90.0 -0.009 30.0 noncon
hsa-miR-4485-5p 1779-1786 -0.286 93.0 -0.009 36.0 noncon
hsa-miR-4300 1361-1368 -0.28 93.0 -0.009 30.0 noncon
hsa-miR-7107-3p 333-339 -0.269 93.0 -0.269 95.0 noncon
hsa-miR-3116 379-385 -0.268 97.0 -0.225 96.0 noncon
hsa-miR-6780a-5p 2022-2029 -0.268 93.0 -0.009 42.0 noncon
hsa-miR-3909 212-219 -0.264 92.0 -0.264 94.0 noncon
hsa-miR-3197 220-226 -0.263 94.0 -0.263 95.0 noncon
hsa-miR-6721-5p 2097-2104 -0.26 92.0 -0.008 35.0 noncon
hsa-miR-1254 379-385 -0.258 96.0 -0.217 95.0 noncon
hsa-miR-6513-3p 2407-2413 -0.257 97.0 -0.008 51.0 noncon
hsa-miR-4505 1997-2004 -0.255 92.0 -0.008 36.0 noncon