SubPathClass

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
PMM1



General Information
Gene Symbol:   
PMM1
Protein name:   
Phosphomannomutase 1
Enzyme Class:   
CAZy Family:   
E.C. No:   
5.4.2.8
Organs:   
Reaction (SNFG):   

Man(1P) or Man(6P) → Man(6P) or Man(1P)
Reaction (IUBMB):   
No specified reaction.
About

• Phosphomannomutase 1 transfers a phosphate group from the 1 carbon to the 6 carbon on mannose 1 phosphate.
• PMM1 and 2 share 65% homology.
• PMM2 deficiency is recognized as a congenital disease of glycosylation. The lack of available phosphorylated mannose decreases due to the lack of activity and causes underglycosylation. The disease causes a wide array of deformities and metabolic disorders.
• PMM1 has not been associated yet with any disorder.

Related Pathway
KEGG ORTHOLOGY:   
KEGG Pathway:   
No Record 
Reactome:   
R-HSA-446205
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q92871 
NCBI GeneID:   
5372
GlyMap GeneID:   
5372
DNA aRefSeq:   
NM_002676.2 
Protein RefSeq:   
NP_002667.2 
BRENDA:   
Kinetic info.
OMIM number:   
601786
GeneCards database:   
PMM1
Enzyme Specificity
Glycan Type:  
     
Compartment:  
     
Substrate:  
     Man(1P) or Man(6P)
Product:  
     Man(6P) or Man(1P)
Constraints:  
     None
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 40 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 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-126-3p.1 310-317 -0.892 99.0 -0.877 99.0 noncon
hsa-miR-4471 404-411 -0.703 99.0 -0.692 99.0 noncon
hsa-miR-4646-5p 406-413 -0.69 99.0 -0.679 99.0 noncon
hsa-miR-4314 407-414 -0.654 99.0 -0.644 99.0 noncon
hsa-miR-8059 404-411 -0.651 99.0 -0.641 99.0 noncon
hsa-miR-6785-3p 347-354 -0.631 98.0 -0.621 98.0 noncon
hsa-miR-204-3p 406-413 -0.604 99.0 -0.595 99.0 noncon
hsa-miR-3191-3p 153-160 -0.509 99.0 -0.509 99.0 noncon
hsa-miR-874-5p 128-135 -0.5 98.0 -0.5 99.0 noncon
hsa-miR-4726-5p 94-101 -0.49 98.0 -0.49 98.0 noncon
hsa-miR-6766-5p 118-125 -0.48 98.0 -0.48 98.0 noncon
hsa-miR-4504 389-396 -0.479 99.0 -0.472 99.0 noncon
hsa-miR-6756-5p 118-125 -0.477 98.0 -0.477 98.0 noncon
hsa-miR-4640-5p 94-101 -0.456 98.0 -0.456 98.0 noncon
hsa-miR-520f-5p 378-385 -0.434 99.0 -0.428 99.0 noncon
hsa-miR-660-3p 287-294 -0.413 99.0 -0.41 99.0 noncon
hsa-miR-429 395-402 -0.41 99.0 -0.404 99.0 noncon
hsa-miR-4505 157-164 -0.404 98.0 -0.404 98.0 noncon
hsa-miR-200b-3p 395-402 -0.402 99.0 -0.396 99.0 noncon
hsa-miR-200c-3p 395-402 -0.402 99.0 -0.396 99.0 noncon
hsa-miR-939-3p 97-104 -0.371 98.0 -0.371 98.0 noncon
hsa-miR-6776-5p 120-127 -0.37 98.0 -0.37 99.0 noncon
hsa-miR-1281 292-298 -0.356 93.0 -0.353 95.0 noncon
hsa-miR-6739-3p 411-418 -0.346 97.0 -0.001 26.0 noncon
hsa-miR-654-5p 117-123 -0.346 97.0 -0.346 97.0 noncon
hsa-miR-6730-3p 423-429 -0.346 98.0 0.0 0.0 noncon
hsa-miR-6773-5p 199-205 -0.331 95.0 -0.331 97.0 noncon
hsa-miR-3135a 43-49 -0.331 93.0 -0.331 96.0 noncon
hsa-miR-497-5p 246-252 -0.331 97.0 -0.331 98.0 con
hsa-miR-5704 47-53 -0.326 91.0 -0.326 95.0 noncon
hsa-miR-541-3p 117-123 -0.324 96.0 -0.324 97.0 noncon
hsa-miR-2117 381-387 -0.322 96.0 -0.318 97.0 noncon
hsa-miR-6861-3p 57-63 -0.32 94.0 -0.32 96.0 noncon
hsa-miR-5787 157-164 -0.31 97.0 -0.31 98.0 noncon
hsa-miR-3186-5p 103-109 -0.31 95.0 -0.31 96.0 noncon
hsa-miR-6724-5p 199-205 -0.306 95.0 -0.306 96.0 noncon
hsa-miR-15a-5p 246-252 -0.301 95.0 -0.301 97.0 con
hsa-miR-4693-5p 393-399 -0.301 97.0 -0.297 97.0 noncon
hsa-miR-6132 328-334 -0.301 94.0 -0.297 96.0 noncon
hsa-miR-15b-5p 246-252 -0.301 95.0 -0.301 97.0 con
hsa-miR-1295a 47-53 -0.297 95.0 -0.297 97.0 noncon
hsa-miR-3182 264-271 -0.294 98.0 -0.293 99.0 noncon
hsa-miR-1292-5p 405-411 -0.287 97.0 -0.283 98.0 noncon
hsa-miR-6836-5p 328-334 -0.286 94.0 -0.282 95.0 noncon
hsa-miR-7106-5p 191-198 -0.285 97.0 -0.285 98.0 noncon
hsa-miR-877-3p 267-273 -0.284 95.0 -0.283 96.0 noncon
hsa-miR-4423-3p 370-376 -0.283 94.0 -0.279 96.0 noncon
hsa-miR-6838-5p 246-252 -0.28 94.0 -0.28 96.0 con
hsa-miR-6880-5p 220-226 -0.277 92.0 -0.277 93.0 noncon
hsa-miR-424-5p 246-252 -0.276 94.0 -0.276 96.0 con
hsa-miR-195-5p 246-252 -0.268 93.0 -0.268 95.0 con
hsa-miR-16-5p 246-252 -0.268 93.0 -0.268 95.0 con
hsa-miR-6837-5p 341-347 -0.265 93.0 -0.261 95.0 noncon
hsa-miR-3142 46-52 -0.26 96.0 -0.26 97.0 noncon
hsa-miR-6721-5p 325-331 -0.257 91.0 -0.254 93.0 noncon
hsa-miR-1227-3p 176-182 -0.257 91.0 -0.257 95.0 noncon