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

POMT1



General Information
Gene Symbol:   
POMT1
Protein name:   
Protein O-mannosyl-transferase 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
E.C. No:   
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:   
KEGG Pathway:   
Reactome:   

Related Database
Organism:   
Homo sapiens
Uniprot:   
NCBI GeneID:   
GlyMap GeneID:   
DNA aRefSeq:   
Protein RefSeq:   
BRENDA:   
OMIM number:   
GeneCards database:   

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 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 60 50 40 30 20 10 0 Transcripts per million (TPM)
Transcription factor {ref. 10}
No high degree of confidence data

miRNA-GlycoEnzyme Interactome {ref. 9}
POMT1/hsa-miR-1291
miRNA Target Site Type Pos. Context Score Frac. Wt. Context Frac. Conserved Quality
5'... AAAAGCCGAGAACC CAGGGCCA ...
3'   UGACGACCAGAAGUCA GUCCCGG U
8mer 300-307 -0.26 90.0 -0.259 93.0 noncon
5'... CGGGCUGGGCUGAG CAGGGCC U...
3'   UGACGACCAGAAGUCA GUCCCGG U
7mer-m8 118-124 -0.204 84.0 -0.204 88.0 noncon
5'... GAGCCUCAGCAGAC CAGGGCC U...
3'   UGACGACCAGAAGUCA GUCCCGG U
7mer-m8 328-334 -0.141 71.0 -0.14 79.0 noncon
5'... CAGCUCAGUGUUGG AGGGCCA C...
3'   UGACGACCAGAAGUCAG UCCCGG U
7mer-A1 472-478 -0.105 61.0 -0.105 72.0 noncon