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
GNPDA1



General Information
Gene Symbol:   
GNPDA1
Protein name:   
Glucosamine-6-phosphate isomerase 1
Enzyme Class:   
CAZy Family:   
E.C. No:   
3.5.99.6
Tissues:   
all, Muscular, Epithelial, Connective, Nervous
Organs:   
Reaction (SNFG):   

GlcN(6P) → Fruc(6P)
Reaction (IUBMB):   
No specified reaction.
About

• Glucosamine 6 phosphate deaminase removes the amine from glucosamine and produces fructose 6 phosphate in the hexosamine biosynthesis pathway.
• Allosterically activated by the accumulation of GlcNAc-6-phosphate created by GNPNAT1(GNA1).

Related Pathway
KEGG ORTHOLOGY:   
KEGG Pathway:   
No Record 
Reactome:   
R-HSA-70171
Related Database
Organism:   
Homo sapiens
Uniprot:   
P46926 
NCBI GeneID:   
10007
GlyMap GeneID:   
10007
DNA aRefSeq:   
NM_005471.4 
Protein RefSeq:   
NP_005462.1 
BRENDA:   
Kinetic info.
OMIM number:   
601798
GeneCards database:   
GNPDA1
Enzyme Specificity
Glycan Type:  
     
Compartment:  
     
Substrate:  
     GlcN(6P)
Product:  
     Fruc(6P)
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 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-1243 1340-1347 -0.661 99.0 -0.643 99.0 noncon
hsa-miR-28-3p 89-96 -0.57 99.0 -0.569 99.0 noncon
hsa-miR-6867-3p 173-180 -0.567 99.0 -0.566 99.0 noncon
hsa-miR-8082 222-229 -0.557 99.0 -0.556 99.0 noncon
hsa-miR-3920 192-199 -0.489 99.0 -0.488 99.0 noncon
hsa-miR-4762-3p 194-201 -0.479 99.0 -0.478 99.0 noncon
hsa-miR-4534 222-229 -0.473 99.0 -0.472 99.0 noncon
hsa-miR-4493 1117-1124 -0.468 99.0 -0.456 99.0 noncon
hsa-miR-3180-5p 49-56 -0.468 99.0 -0.468 99.0 noncon
hsa-miR-296-5p 653-660 -0.456 97.0 -0.445 97.0 noncon
hsa-miR-27b-5p 1291-1298 -0.447 99.0 -0.436 99.0 noncon
hsa-miR-6883-3p 30-37 -0.445 98.0 -0.445 99.0 noncon
hsa-miR-640 1299-1306 -0.445 99.0 -0.434 99.0 noncon
hsa-miR-5001-3p 704-711 -0.433 99.0 -0.422 99.0 noncon
hsa-miR-3117-5p 15-22 -0.43 99.0 -0.43 99.0 noncon
hsa-miR-30e-5p 1313-1320 -0.429 98.0 -0.419 99.0 con
hsa-miR-550b-2-5p 460-467 -0.423 98.0 -0.413 99.0 noncon
hsa-miR-30b-5p 1313-1320 -0.413 98.0 -0.403 98.0 con
hsa-miR-30c-5p 1313-1320 -0.413 98.0 -0.403 98.0 con
hsa-miR-4744 60-67 -0.411 99.0 -0.411 99.0 noncon
hsa-miR-3605-3p 157-163 -0.405 95.0 -0.404 96.0 noncon
hsa-miR-30a-5p 1313-1320 -0.405 98.0 -0.395 98.0 con
hsa-miR-30d-5p 1313-1320 -0.405 98.0 -0.395 98.0 con
hsa-miR-6841-3p 489-496 -0.387 97.0 -0.378 98.0 noncon
hsa-miR-4713-3p 1072-1079 -0.38 94.0 -0.371 95.0 noncon
hsa-miR-1263 1237-1243 -0.379 96.0 -0.37 97.0 noncon
hsa-miR-6889-5p 1066-1072 -0.378 91.0 -0.369 92.0 noncon
hsa-miR-625-5p 726-733 -0.377 95.0 -0.368 96.0 noncon
hsa-miR-1286 988-994 -0.374 98.0 -0.365 98.0 noncon
hsa-miR-4763-5p 865-872 -0.369 93.0 -0.36 95.0 noncon
hsa-miR-874-5p 609-616 -0.368 96.0 -0.359 97.0 noncon
hsa-miR-637 728-735 -0.365 97.0 -0.356 98.0 noncon
hsa-miR-502-5p 490-497 -0.362 98.0 -0.353 98.0 noncon
hsa-miR-4325 486-493 -0.362 98.0 -0.353 99.0 noncon
hsa-miR-2467-5p 644-651 -0.356 98.0 -0.347 98.0 noncon
hsa-miR-449b-5p 820-827 -0.342 94.0 -0.334 95.0 noncon
hsa-miR-1225-5p 24-30 -0.337 97.0 -0.337 98.0 noncon
hsa-miR-3612 1179-1186 -0.337 97.0 -0.329 98.0 noncon
hsa-miR-650 1179-1186 -0.337 98.0 -0.329 98.0 noncon
hsa-miR-6514-5p 221-227 -0.325 98.0 -0.324 98.0 noncon
hsa-miR-4659b-3p 65-72 -0.324 97.0 -0.324 98.0 noncon
hsa-miR-449a 820-827 -0.324 93.0 -0.316 94.0 noncon
hsa-miR-4659a-3p 65-72 -0.324 97.0 -0.324 98.0 noncon
hsa-miR-4269 1158-1164 -0.323 99.0 -0.315 99.0 noncon
hsa-miR-34c-5p 820-827 -0.318 92.0 -0.31 94.0 noncon
hsa-miR-769-3p 1073-1080 -0.318 98.0 -0.31 98.0 noncon
hsa-miR-638 538-544 -0.313 97.0 -0.306 97.0 noncon
hsa-miR-6839-5p 1339-1345 -0.312 97.0 -0.305 98.0 noncon
hsa-miR-1306-5p 928-935 -0.31 96.0 -0.303 97.0 noncon
hsa-miR-4325 519-526 -0.309 97.0 -0.302 98.0 noncon
hsa-miR-7162-5p 493-500 -0.308 96.0 -0.301 97.0 noncon
hsa-miR-7851-3p 247-253 -0.305 95.0 -0.301 97.0 noncon
hsa-miR-3614-5p 452-459 -0.302 98.0 -0.295 98.0 noncon
hsa-miR-6883-3p 171-177 -0.3 96.0 -0.299 97.0 noncon
hsa-miR-34a-5p 820-827 -0.3 91.0 -0.293 93.0 noncon
hsa-miR-200c-3p 1343-1349 -0.296 98.0 -0.289 98.0 con
hsa-miR-4443 1180-1186 -0.296 95.0 -0.289 96.0 noncon
hsa-miR-200b-3p 1343-1349 -0.296 98.0 -0.289 98.0 con
hsa-miR-6130 677-684 -0.293 95.0 -0.286 95.0 noncon
hsa-miR-629-3p 174-180 -0.293 98.0 -0.293 98.0 noncon
hsa-miR-6133 677-684 -0.293 94.0 -0.286 95.0 noncon
hsa-miR-4713-5p 174-180 -0.292 96.0 -0.292 97.0 noncon
hsa-miR-516b-3p 493-500 -0.292 96.0 -0.285 97.0 noncon
hsa-miR-516a-3p 493-500 -0.292 96.0 -0.285 97.0 noncon
hsa-miR-129-1-3p 1224-1231 -0.291 96.0 -0.284 97.0 noncon
hsa-miR-129-2-3p 1224-1231 -0.291 96.0 -0.284 97.0 noncon
hsa-miR-3188 753-760 -0.289 97.0 -0.282 98.0 noncon
hsa-miR-1296-3p 974-980 -0.288 97.0 -0.281 97.0 noncon
hsa-miR-6715b-5p 1158-1164 -0.287 97.0 -0.28 98.0 noncon
hsa-miR-429 1343-1349 -0.285 98.0 -0.278 98.0 con
hsa-miR-4759 986-992 -0.282 96.0 -0.275 97.0 noncon
hsa-miR-378j 1339-1345 -0.28 96.0 -0.273 97.0 noncon
hsa-miR-4419a 677-684 -0.277 93.0 -0.271 95.0 noncon
hsa-miR-4510 677-684 -0.277 93.0 -0.271 94.0 noncon
hsa-miR-6129 677-684 -0.277 94.0 -0.271 95.0 noncon
hsa-miR-3115 26-32 -0.276 92.0 -0.276 95.0 noncon
hsa-miR-491-5p 973-979 -0.274 93.0 -0.268 95.0 noncon
hsa-miR-516b-5p 103-109 -0.273 95.0 -0.273 96.0 noncon
hsa-miR-597-3p 439-446 -0.272 94.0 -0.266 95.0 noncon
hsa-miR-6861-3p 799-806 -0.272 91.0 -0.266 93.0 noncon
hsa-miR-6769a-3p 363-369 -0.27 98.0 -0.264 98.0 noncon
hsa-miR-3202 542-548 -0.27 95.0 -0.264 96.0 noncon
hsa-miR-671-5p 1097-1103 -0.269 94.0 -0.263 95.0 noncon
hsa-miR-6127 677-684 -0.269 92.0 -0.263 94.0 noncon
hsa-miR-378a-5p 313-320 -0.268 97.0 -0.262 98.0 noncon
hsa-miR-221-5p 937-944 -0.267 96.0 -0.261 97.0 noncon
hsa-miR-6757-3p 1241-1247 -0.264 97.0 -0.258 98.0 noncon
hsa-miR-6792-5p 991-998 -0.262 97.0 -0.256 98.0 noncon
hsa-miR-3166 236-242 -0.261 91.0 -0.26 93.0 noncon
hsa-miR-3913-3p 233-239 -0.258 92.0 -0.257 94.0 noncon
hsa-miR-6134 385-391 -0.255 91.0 -0.249 93.0 noncon
hsa-miR-378j 638-645 -0.254 95.0 -0.248 96.0 noncon
hsa-miR-8073 937-944 -0.251 96.0 -0.245 97.0 noncon
hsa-miR-6165 989-995 -0.25 95.0 -0.244 96.0 noncon