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
DPM1



General Information
Gene Symbol:   
DPM1
Protein name:   
Dolichol-phosphate mannosyltransferase subunit 1
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT2
E.C. No:   
2.4.1.83
Organs:   
Reaction (SNFG):   
+ Dol-P →
+ GDP
Reaction (IUBMB):   
No specified reaction.
About

• Transfers mannose from GDP-Man to dolichol monophosphate (Dol-P) to Dol-P-Man.
• Dol-P-Man acts as a mannosyl donor in N-glycosylation, GPI, and O-mannosylation pathways.
• This is the catalytic subunit of the dolichol-phosphate mannose (DPM) synthase complex, that also includes DPM2 and DPM3

Related Pathway
KEGG ORTHOLOGY:   
K00721
KEGG Pathway:   
ko00510  ko01100  
Reactome:   
R-HSA-162699
Related Database
Organism:   
Homo sapiens
Uniprot:   
O60762 
NCBI GeneID:   
8813
GlyMap GeneID:   
8813
DNA aRefSeq:   
NM_001317034.1 
Protein RefSeq:   
NP_001303963.1 
BRENDA:   
Kinetic info.
OMIM number:   
603503
GeneCards database:   
DPM1
Enzyme Specificity
Glycan Type:  
     N-linked
Compartment:  
     ER
Substrate:  
     Dol-P
Product:  
     Man(a1-?)Dol-P
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 180 160 140 120 100 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-5704 177-184 -0.715 99.0 -0.477 98.0 noncon
hsa-miR-3120-3p 215-222 -0.609 99.0 -0.41 99.0 noncon
hsa-miR-617 2008-2015 -0.585 99.0 -0.003 32.0 noncon
hsa-miR-491-3p 255-262 -0.577 99.0 -0.052 64.0 noncon
hsa-miR-802 58-65 -0.57 99.0 -0.57 99.0 noncon
hsa-miR-605-3p 270-277 -0.538 99.0 -0.047 55.0 noncon
hsa-miR-6878-3p 2129-2136 -0.516 99.0 -0.003 41.0 noncon
hsa-miR-1911-3p 53-59 -0.497 99.0 -0.497 99.0 noncon
hsa-miR-323a-5p 134-140 -0.486 99.0 -0.482 99.0 noncon
hsa-miR-331-5p 358-365 -0.485 98.0 -0.007 33.0 noncon
hsa-miR-6802-5p 136-142 -0.477 98.0 -0.473 98.0 noncon
hsa-miR-5195-3p 338-345 -0.475 98.0 -0.007 38.0 noncon
hsa-let-7a-3p 67-74 -0.452 99.0 -0.452 99.0 noncon
hsa-miR-98-3p 67-74 -0.452 99.0 -0.452 99.0 noncon
hsa-let-7f-1-3p 67-74 -0.444 99.0 -0.444 99.0 noncon
hsa-let-7b-3p 67-74 -0.444 99.0 -0.444 99.0 noncon
hsa-miR-646 700-707 -0.441 99.0 -0.004 35.0 noncon
hsa-miR-1287-5p 2101-2108 -0.44 99.0 -0.002 33.0 noncon
hsa-miR-874-3p 898-905 -0.425 99.0 -0.004 35.0 noncon
hsa-miR-6757-5p 800-807 -0.416 98.0 -0.004 32.0 noncon
hsa-miR-145-5p 338-345 -0.397 98.0 -0.006 47.0 noncon
hsa-miR-6733-3p 681-688 -0.396 98.0 -0.004 47.0 noncon
hsa-miR-548v 967-974 -0.39 98.0 -0.004 26.0 noncon
hsa-miR-6851-3p 1580-1587 -0.389 97.0 -0.002 25.0 noncon
hsa-miR-6815-3p 49-55 -0.385 97.0 -0.385 98.0 noncon
hsa-miR-1295a 178-184 -0.377 98.0 -0.261 95.0 noncon
hsa-miR-337-5p 626-632 -0.374 95.0 -0.003 14.0 noncon
hsa-miR-6716-3p 515-521 -0.373 91.0 -0.003 11.0 noncon
hsa-miR-4644 838-845 -0.372 98.0 -0.003 26.0 noncon
hsa-miR-6818-5p 1930-1937 -0.371 99.0 -0.002 29.0 noncon
hsa-miR-891b 170-176 -0.368 97.0 -0.365 98.0 noncon
hsa-miR-6828-3p 1824-1831 -0.367 98.0 -0.002 40.0 noncon
hsa-miR-6853-5p 1540-1546 -0.366 93.0 -0.002 19.0 noncon
hsa-miR-200b-5p 378-385 -0.365 99.0 -0.005 58.0 noncon
hsa-miR-200a-5p 378-385 -0.365 99.0 -0.005 58.0 noncon
hsa-miR-185-5p 838-845 -0.364 98.0 -0.003 25.0 noncon
hsa-miR-4306 838-845 -0.364 98.0 -0.003 25.0 noncon
hsa-miR-938 1011-1018 -0.356 98.0 -0.003 23.0 noncon
hsa-miR-6879-5p 447-453 -0.356 98.0 -0.005 36.0 noncon
hsa-miR-378j 2143-2150 -0.353 98.0 -0.002 31.0 noncon
hsa-miR-6894-3p 503-509 -0.348 98.0 -0.003 51.0 noncon
hsa-miR-3174 1884-1891 -0.342 99.0 -0.002 42.0 noncon
hsa-miR-7160-5p 785-792 -0.333 98.0 -0.003 38.0 noncon
hsa-miR-6839-5p 2143-2150 -0.327 97.0 -0.002 33.0 noncon
hsa-miR-4436b-3p 447-453 -0.323 97.0 -0.005 34.0 noncon
hsa-miR-6508-3p 1161-1168 -0.319 97.0 -0.002 23.0 noncon
hsa-miR-193a-5p 780-786 -0.319 96.0 -0.003 28.0 noncon
hsa-miR-4632-5p 447-453 -0.319 98.0 -0.005 44.0 noncon
hsa-miR-5684 1889-1896 -0.317 98.0 -0.002 29.0 noncon
hsa-miR-6126 271-277 -0.315 98.0 -0.029 77.0 noncon
hsa-miR-6738-3p 689-696 -0.315 96.0 -0.003 42.0 noncon
hsa-miR-545-3p 214-220 -0.312 98.0 -0.217 97.0 noncon
hsa-miR-5579-3p 1718-1725 -0.309 98.0 -0.002 23.0 noncon
hsa-miR-223-5p 436-443 -0.307 96.0 -0.005 31.0 noncon
hsa-miR-597-3p 1849-1855 -0.305 95.0 -0.002 33.0 noncon
hsa-miR-586 579-586 -0.305 97.0 -0.003 39.0 noncon
hsa-miR-6868-5p 860-866 -0.302 96.0 -0.003 33.0 noncon
hsa-miR-6735-5p 447-453 -0.301 96.0 -0.005 34.0 noncon
hsa-miR-5001-3p 688-695 -0.301 96.0 -0.003 32.0 noncon
hsa-miR-4477b 455-462 -0.297 97.0 -0.003 29.0 noncon
hsa-miR-3682-5p 374-381 -0.295 96.0 -0.005 38.0 noncon
hsa-miR-4638-3p 1608-1615 -0.295 95.0 -0.002 22.0 noncon
hsa-miR-3167 2141-2148 -0.293 97.0 -0.002 37.0 con
hsa-miR-542-3p 1952-1958 -0.288 96.0 -0.002 31.0 noncon
hsa-miR-4650-3p 1473-1480 -0.288 93.0 -0.002 15.0 noncon
hsa-miR-767-3p 1983-1989 -0.285 97.0 -0.002 25.0 noncon
hsa-miR-1236-5p 1954-1960 -0.284 95.0 -0.002 37.0 noncon
hsa-miR-3200-5p 1877-1884 -0.284 98.0 -0.002 36.0 noncon
hsa-miR-876-5p 2141-2148 -0.283 97.0 -0.002 38.0 con
hsa-miR-6883-5p 1536-1543 -0.281 95.0 -0.002 33.0 noncon
hsa-miR-539-3p 418-425 -0.281 93.0 -0.004 24.0 noncon
hsa-miR-548ad-3p 204-210 -0.28 98.0 -0.196 96.0 noncon
hsa-miR-888-5p 1005-1012 -0.276 98.0 -0.003 28.0 noncon
hsa-miR-6882-5p 759-765 -0.273 96.0 -0.003 45.0 noncon
hsa-miR-27b-5p 793-799 -0.273 95.0 -0.003 22.0 noncon
hsa-miR-4524a-5p 701-707 -0.272 92.0 -0.003 31.0 noncon
hsa-miR-4524b-5p 701-707 -0.272 92.0 -0.003 31.0 noncon
hsa-miR-4470 1903-1909 -0.272 97.0 -0.002 40.0 noncon
hsa-miR-103a-2-5p 48-54 -0.271 96.0 -0.271 97.0 noncon
hsa-miR-15a-3p 177-183 -0.27 97.0 -0.268 98.0 noncon
hsa-miR-6516-3p 42-48 -0.268 96.0 -0.268 97.0 noncon
hsa-miR-3714 824-831 -0.266 98.0 -0.002 48.0 noncon
hsa-miR-548p 213-219 -0.265 99.0 -0.185 98.0 noncon
hsa-miR-6797-3p 115-121 -0.264 95.0 -0.262 96.0 noncon
hsa-miR-627-3p 2019-2026 -0.264 97.0 -0.002 34.0 noncon
hsa-miR-1909-5p 1296-1303 -0.263 92.0 -0.002 34.0 noncon
hsa-miR-376a-5p 2184-2191 -0.263 98.0 -0.002 52.0 noncon
hsa-miR-924 1992-1999 -0.262 95.0 -0.002 28.0 noncon
hsa-miR-6728-5p 2107-2113 -0.262 95.0 -0.002 47.0 noncon
hsa-miR-3650 439-445 -0.26 94.0 -0.004 37.0 noncon
hsa-miR-149-3p 1536-1543 -0.257 93.0 -0.002 31.0 noncon
hsa-miR-1183 705-712 -0.256 97.0 -0.002 41.0 noncon
hsa-miR-613 1570-1577 -0.256 94.0 -0.002 31.0 con
hsa-miR-6509-5p 359-365 -0.255 93.0 -0.004 24.0 noncon
hsa-miR-1293 1530-1536 -0.255 95.0 -0.002 22.0 noncon
hsa-miR-3143 385-392 -0.255 97.0 -0.004 42.0 noncon
hsa-miR-4729 236-242 -0.254 98.0 -0.178 97.0 noncon
hsa-miR-548aw 252-258 -0.254 99.0 -0.178 98.0 noncon
hsa-miR-7843-5p 447-453 -0.253 97.0 -0.004 41.0 noncon
hsa-miR-7852-3p 1109-1115 -0.252 94.0 -0.002 25.0 noncon
hsa-miR-2355-5p 308-314 -0.252 95.0 -0.004 34.0 noncon
hsa-miR-3137 704-710 -0.251 94.0 -0.002 47.0 noncon