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
PIGM



General Information
Gene Symbol:   
PIGM
Protein name:   
GPI mannosyltransferase 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT50
E.C. No:   
2.4.1.*
Organs:   
Reaction (SNFG):   

GlcN(a1-6)(ancyl)PI → Man(a1-4)GlcN(a1-6)(ancyl)PI
Reaction (IUBMB):   
No specified reaction.
About

• PIGM together with PIGX mediated transfer of the first Man from Dol-P (donor) during GPI-protein synthesis.
• Here, PIGM has catalytic activity while PIGX has regulatory function.

Related Pathway
KEGG ORTHOLOGY:   
K05284
KEGG Pathway:   
ko00563  ko01100 
Reactome:   
R-HSA-162710
Related Database
Organism:   
Homo sapiens
Uniprot:   
Q9H3S5 
NCBI GeneID:   
93183
GlyMap GeneID:   
93183
DNA aRefSeq:   
NM_145167.2 
Protein RefSeq:   
NP_660150.1 
BRENDA:   
Kinetic info.
OMIM number:   
610273
GeneCards database:   
PIGM
Enzyme Specificity
Glycan Type:  
     GPI
Compartment:  
     ER
Substrate:  
     GlcN(a1-6)(ancyl)PI
Product:  
     Man(a1-4)GlcN(a1-6)(ancyl)PI
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
No expression data available.
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 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-3657 159-166 -0.562 99.0 -0.562 99.0 noncon
hsa-miR-6861-3p 173-180 -0.495 98.0 -0.487 98.0 noncon
hsa-miR-4707-3p 824-831 -0.459 90.0 -0.375 91.0 noncon
hsa-miR-1915-5p 5403-5410 -0.452 97.0 -0.218 91.0 noncon
hsa-miR-892b 323-330 -0.449 98.0 -0.382 98.0 noncon
hsa-miR-219b-5p 2353-2360 -0.445 98.0 -0.297 95.0 noncon
hsa-miR-6823-3p 4629-4636 -0.444 98.0 -0.228 93.0 noncon
hsa-miR-2114-3p 4629-4636 -0.441 98.0 -0.227 92.0 noncon
hsa-miR-4471 107-114 -0.431 98.0 -0.431 98.0 noncon
hsa-miR-563 1361-1368 -0.414 97.0 -0.29 96.0 noncon
hsa-miR-609 380-387 -0.41 97.0 -0.35 97.0 noncon
hsa-miR-1260b 219-226 -0.404 98.0 -0.382 98.0 noncon
hsa-miR-1260a 219-226 -0.404 98.0 -0.382 98.0 noncon
hsa-miR-7152-3p 51-58 -0.397 98.0 -0.397 98.0 noncon
hsa-miR-380-5p 1361-1368 -0.388 97.0 -0.272 95.0 noncon
hsa-miR-324-5p 2593-2600 -0.365 95.0 -0.223 91.0 noncon
hsa-miR-6828-5p 2414-2421 -0.358 97.0 -0.219 93.0 noncon
hsa-miR-8059 107-114 -0.355 98.0 -0.355 98.0 noncon
hsa-miR-361-3p 1622-1629 -0.351 97.0 -0.247 95.0 noncon
hsa-miR-6834-3p 69-75 -0.336 96.0 -0.336 97.0 noncon
hsa-miR-16-1-3p 5497-5504 -0.334 98.0 -0.055 79.0 noncon
hsa-miR-4730 4548-4554 -0.328 92.0 -0.172 84.0 noncon
hsa-miR-4460 4052-4059 -0.326 94.0 -0.171 86.0 noncon
hsa-miR-4318 1829-1836 -0.318 98.0 -0.225 96.0 noncon
hsa-miR-3937 3905-3912 -0.314 95.0 -0.165 87.0 noncon
hsa-miR-450a-2-3p 5382-5389 -0.31 94.0 -0.154 81.0 noncon
hsa-miR-5580-5p 2184-2191 -0.307 94.0 -0.217 91.0 noncon
hsa-miR-3679-3p 1624-1631 -0.304 93.0 -0.215 92.0 noncon
hsa-miR-502-5p 5404-5411 -0.303 96.0 -0.15 91.0 noncon
hsa-miR-4274 1159-1166 -0.3 97.0 -0.248 96.0 noncon
hsa-miR-4800-5p 175-181 -0.294 93.0 -0.284 95.0 noncon
hsa-miR-5006-5p 3063-3070 -0.285 95.0 -0.15 87.0 noncon
hsa-miR-2110 5381-5388 -0.279 96.0 -0.139 86.0 noncon
hsa-miR-6759-3p 228-235 -0.279 95.0 -0.264 96.0 noncon
hsa-miR-6808-3p 231-237 -0.277 97.0 -0.262 98.0 noncon
hsa-miR-6822-3p 2181-2188 -0.277 95.0 -0.197 92.0 noncon
hsa-miR-6874-5p 3612-3619 -0.277 94.0 -0.146 86.0 noncon
hsa-miR-6803-5p 4451-4458 -0.273 93.0 -0.144 83.0 noncon
hsa-miR-6503-5p 1482-1488 -0.271 93.0 -0.192 91.0 noncon
hsa-miR-4527 1482-1488 -0.27 93.0 -0.192 91.0 noncon
hsa-miR-200c-5p 1430-1437 -0.268 95.0 -0.19 93.0 noncon
hsa-miR-514a-5p 4707-4714 -0.264 97.0 -0.14 91.0 noncon
hsa-miR-588 5043-5049 -0.264 96.0 -0.132 91.0 noncon
hsa-miR-4701-5p 5043-5049 -0.264 96.0 -0.132 91.0 noncon
hsa-miR-6751-5p 4451-4458 -0.26 93.0 -0.138 83.0 noncon
hsa-miR-4469 1560-1567 -0.259 97.0 -0.184 95.0 noncon
hsa-miR-5004-3p 1076-1083 -0.258 94.0 -0.214 94.0 noncon
hsa-miR-4433b-5p 68-74 -0.256 92.0 -0.256 94.0 noncon
hsa-miR-3171 2381-2388 -0.255 92.0 -0.174 89.0 noncon
hsa-miR-4501 232-239 -0.253 96.0 -0.24 97.0 noncon
hsa-miR-3914 2983-2990 -0.253 95.0 -0.134 89.0 noncon
hsa-miR-4475 2241-2247 -0.253 96.0 -0.18 94.0 noncon
hsa-miR-6832-3p 155-162 -0.251 95.0 -0.251 97.0 noncon
hsa-miR-4470 140-146 -0.25 96.0 -0.25 97.0 noncon