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
 
Glycogene class
A3GALT2
A4GALT
A4GNT
ABO
ALG1
ALG10
ALG10B
ALG11
ALG12
ALG13
ALG14
ALG1L
ALG1L2
ALG2
ALG3
ALG5
ALG6
ALG8
ALG9
B3GALNT1
B3GALNT2
B3GALT1
B3GALT2
B3GALT4
B3GALT5
B3GALT6
B3GAT1
B3GAT2
B3GAT3
B3GNT2
B3GNT3
B3GNT4
B3GNT5
B3GNT6
B3GNT7
B3GNT8
B4GALNT1
B4GALNT2
B4GALNT3
B4GALNT4
B4GALT1
B4GALT2
B4GALT3
B4GALT4
B4GALT5
B4GALT6
B4GALT7
C1GALT1
C1GALT1C1
CHPF
CHPF2
CHST1
CHST10
CHST11
CHST12
CHST13
CHST14
CHST15
CHST2
CHST3
CHST4
CHST5
CHST6
CHST7
CHST8
CHST9
CHSY1
CHSY3
CMAS
CSGALNACT1
CSGALNACT2
CTBS
DAD1
DDOST
DPAGT1
DPM1
DPM2
DPM3
DSE
DSEL
EDEM1
EDEM2
EDEM3
ENGASE
EXT1
EXT2
EXTL1
EXTL2
EXTL3
FAM20B
FPGT
FUCA1
FUT1
FUT10
FUT11
FUT2
FUT3
FUT4
FUT5
FUT6
FUT7
FUT8
FUT9
GAL3ST1
GAL3ST2
GAL3ST3
GAL3ST4
GALNS
GALNT1
GALNT10
GALNT11
GALNT12
GALNT13
GALNT14
GALNT15
GALNT16
GALNT17
GALNT18
GALNT2
GALNT3
GALNT4
GALNT5
GALNT6
GALNT7
GALNT8
GALNT9
GALNTL6
GANAB
GBGT1
GCNT1
GCNT2
GCNT3
GCNT4
GLCE
GNPNAT1
GNPTAB
GNPTG
GUSB
HAS1
HAS2
HAS3
HEXA
HEXB
HPSE
HS2ST1
HS3ST1
HS3ST2
HS3ST3A1
HS3ST3B1
HS3ST4
HS3ST5
HS3ST6
HS6ST1
HS6ST2
HS6ST3
IDUA
MAN1A1
MAN1A2
MAN1B1
MAN1C1
MAN2A1
MAN2A2
MAN2B1
MAN2B2
MAN2C1
MANBA
MANEA
MGAT1
MGAT2
MGAT3
MGAT4A
MGAT4B
MGAT4C
MGAT4D
MGAT5
MOGS
NAGA
NAGK
NAGLU
NAGPA
NDST1
NDST2
NDST3
NDST4
NEU1
NEU2
NEU3
NEU4
PRKCSH
RPN1
RPN2
SGSH
ST3GAL1
ST3GAL2
ST3GAL3
ST3GAL4
ST3GAL5
ST3GAL6
ST6GAL1
ST6GAL2
ST6GALNAC1
ST6GALNAC2
ST6GALNAC3
ST6GALNAC4
ST6GALNAC5
ST6GALNAC6
ST8SIA1
ST8SIA2
ST8SIA3
ST8SIA4
ST8SIA5
ST8SIA6
STT3A
STT3B
UGCG
UGDH
UGGT1
UGGT2
UGT8
UST
UXS1
XYLT1
XYLT2
ARSK
ARSB
Pathway Map
B4GALT4



General Information
Gene Symbol:   
B4GALT4
Protein name:   
Beta-1,4-galactosyltransferase 4
Enzyme Class:   
Glycosyltransferase
CAZy Family:   
GT7
E.C. No:   
2.4.1.*
Organs:   
Reaction (SNFG):   
+
→
+ UDP
Reaction (IUBMB):   
No specified reaction.
About

• β4GalT4 mainly produces mono-galactosylated product. Prefers to transfer Gal to β1,2GlcNAc arm at α1,3-mannose.

Related Pathway
KEGG ORTHOLOGY:   
K07969
KEGG Pathway:   
ko00533  ko00601  ko01100 
Reactome:   
R-HSA-2022854
Related Database
Organism:   
Homo sapiens
Uniprot:   
O60513 
NCBI GeneID:   
8702
GlyMap GeneID:   
8702
DNA aRefSeq:   
NM_003778.3 
Protein RefSeq:   
NP_003769.1 
BRENDA:   
Kinetic info.
OMIM number:   
604015
GeneCards database:   
B4GALT4
Enzyme Specificity
Glycan Type:  
     N-linked, O-linked (mucin type), GSL, GAG
Compartment:  
     Cis, Medial, Trans, TGN
Substrate:  
     GlcNAc(b1-?)
Product:  
     Gal(b1-4)GlcNAc(b1-?)
Constraints:  
     !@GlcNAc(b1-6)[GlcNAc(b1-3)]GalNAc(a1-r)&!Gal(b1-3)GlcNAc(b1-?)&!@GlcNAc(b1-4)...Man(b1-4)
Simulation Parameters
Mechaelis-Menten parameters (suggested)
VM:    5.75e-04    (pmol/cell • hr)       KM:    1.50e+08    (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 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-1181 4197-4204 -0.855 97.0 -0.851 97.0 noncon
hsa-miR-4800-5p 441-448 -0.483 98.0 -0.483 98.0 noncon
hsa-miR-4428 357-364 -0.435 99.0 -0.435 99.0 noncon
hsa-miR-5001-3p 1555-1562 -0.435 99.0 -0.435 99.0 noncon
hsa-miR-3131 1722-1729 -0.412 95.0 -0.412 97.0 noncon
hsa-miR-3605-5p 3117-3124 -0.4 98.0 -0.4 98.0 noncon
hsa-miR-654-5p 4342-4349 -0.399 98.0 -0.397 98.0 noncon
hsa-miR-541-3p 4342-4349 -0.399 98.0 -0.397 98.0 noncon
hsa-miR-3176 948-955 -0.393 98.0 -0.393 99.0 noncon
hsa-miR-3922-3p 948-955 -0.383 99.0 -0.383 99.0 noncon
hsa-miR-6863 164-171 -0.377 95.0 -0.377 96.0 noncon
hsa-miR-1911-5p 1657-1664 -0.373 96.0 -0.373 97.0 noncon
hsa-miR-6845-3p 137-144 -0.358 98.0 -0.358 98.0 noncon
hsa-miR-6749-5p 844-851 -0.353 93.0 -0.353 94.0 noncon
hsa-miR-611 1722-1729 -0.352 96.0 -0.352 97.0 noncon
hsa-miR-659-5p 439-446 -0.344 96.0 -0.344 97.0 noncon
hsa-miR-3127-3p 692-699 -0.334 96.0 -0.334 97.0 noncon
hsa-miR-6756-3p 692-699 -0.334 95.0 -0.334 97.0 noncon
hsa-miR-126-3p.1 4100-4106 -0.329 90.0 -0.328 91.0 noncon
hsa-miR-6881-5p 216-223 -0.329 92.0 -0.329 95.0 noncon
hsa-miR-8081 3949-3956 -0.327 97.0 -0.327 98.0 noncon
hsa-miR-548av-3p 4420-4427 -0.323 99.0 -0.322 99.0 noncon
hsa-miR-6754-5p 3067-3074 -0.319 97.0 -0.319 98.0 noncon
hsa-miR-7976 3482-3489 -0.31 98.0 -0.31 98.0 noncon
hsa-miR-874-3p 3483-3490 -0.31 97.0 -0.31 98.0 noncon
hsa-miR-4441 3067-3074 -0.3 97.0 -0.3 98.0 noncon
hsa-miR-149-5p 80-86 -0.298 96.0 -0.298 97.0 noncon
hsa-miR-4270 3067-3074 -0.298 97.0 -0.298 97.0 noncon
hsa-miR-130a-5p 4482-4489 -0.298 95.0 -0.02 61.0 noncon
hsa-miR-4739 29-36 -0.296 96.0 -0.296 97.0 noncon
hsa-miR-3688-5p 3472-3479 -0.294 96.0 -0.294 97.0 noncon
hsa-miR-23c 4482-4489 -0.292 94.0 -0.02 56.0 noncon
hsa-miR-23b-3p 4482-4489 -0.292 95.0 -0.02 57.0 noncon
hsa-miR-23a-3p 4482-4489 -0.292 95.0 -0.02 57.0 noncon
hsa-miR-4756-5p 29-36 -0.291 96.0 -0.291 97.0 noncon
hsa-miR-1321 29-36 -0.291 96.0 -0.291 97.0 noncon
hsa-miR-6507-3p 3930-3937 -0.288 98.0 -0.288 98.0 noncon
hsa-miR-145-3p 312-319 -0.286 97.0 -0.286 97.0 noncon
hsa-miR-1266-3p 671-678 -0.285 96.0 -0.285 97.0 noncon
hsa-miR-1273g-3p 3499-3506 -0.284 97.0 -0.284 98.0 noncon
hsa-miR-6804-5p 1097-1104 -0.277 90.0 -0.277 92.0 noncon
hsa-miR-6738-3p 1556-1562 -0.273 95.0 -0.273 96.0 noncon
hsa-miR-1257 3527-3534 -0.272 96.0 -0.272 97.0 noncon
hsa-miR-3189-5p 3408-3415 -0.271 96.0 -0.271 97.0 noncon
hsa-miR-4257 4469-4475 -0.27 97.0 -0.07 85.0 noncon
hsa-miR-4733-3p 3837-3844 -0.269 96.0 -0.269 97.0 noncon
hsa-miR-202-3p 4467-4473 -0.268 93.0 -0.069 68.0 noncon
hsa-miR-6127 200-206 -0.266 92.0 -0.266 94.0 noncon
hsa-miR-4725-5p 919-926 -0.264 92.0 -0.264 94.0 noncon
hsa-miR-892b 81-87 -0.261 93.0 -0.261 95.0 noncon
hsa-miR-596 21-28 -0.255 97.0 -0.255 98.0 noncon
hsa-miR-4456 4344-4351 -0.255 93.0 -0.254 95.0 noncon
hsa-miR-6133 200-206 -0.254 91.0 -0.254 93.0 noncon
hsa-miR-4540 53-59 -0.251 91.0 -0.251 94.0 noncon
hsa-miR-3126-3p 530-536 -0.25 94.0 -0.25 96.0 noncon