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Basic Information | |
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Species | Brassica rapa |
Cazyme ID | Bra037183 |
Family | GH38 |
Protein Properties | Length: 1152 Molecular Weight: 128697 Isoelectric Point: 6.9437 |
Chromosome | Chromosome/Scaffold: 09 Start: 4109183 End: 4115737 |
Description | Glycosyl hydrolase family 38 protein |
View CDS |
External Links |
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NCBI Taxonomy |
CAZyDB |
Signature Domain Download full data set without filtering | |||
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Family | Start | End | Evalue |
GH38 | 44 | 356 | 0 |
NVHLVPHSHDDVGWLKTVDQYFIGSNNSIQKACVRNVMDSVMDSLRRDPNRKFVFAEMAFFTRWWGEQNPETHEQVKKLVNSGQLEFVNGGWSMNDEATC HYIDMIDQMTLGHRFIMQTFNITPRAAWQIDPFGHSSVQAYLLGAELGFDSLHFARIDYQDREKRKDEKSLEFVWRGSETFASSSQIFTNTFPVHYSPPS GFHYEITDDYAPLQDDPLLDAFNIKDAVDNFVNASLFYANVTRGNHVMWTMGDDFQYQFAESWFRQMDRLIHYVNKDGRVNAVYSTPSLYVDAKNAAKNI TWPLKTHDFFPYA |
Full Sequence |
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Protein Sequence Length: 1152 Download |
MVIPGLSVLI YVIVSVTTCL SLESVNGVYV KYGTDARVVP DKLNVHLVPH SHDDVGWLKT 60 VDQYFIGSNN SIQKACVRNV MDSVMDSLRR DPNRKFVFAE MAFFTRWWGE QNPETHEQVK 120 KLVNSGQLEF VNGGWSMNDE ATCHYIDMID QMTLGHRFIM QTFNITPRAA WQIDPFGHSS 180 VQAYLLGAEL GFDSLHFARI DYQDREKRKD EKSLEFVWRG SETFASSSQI FTNTFPVHYS 240 PPSGFHYEIT DDYAPLQDDP LLDAFNIKDA VDNFVNASLF YANVTRGNHV MWTMGDDFQY 300 QFAESWFRQM DRLIHYVNKD GRVNAVYSTP SLYVDAKNAA KNITWPLKTH DFFPYADRDS 360 AYWTGYFTSR PAFKRYVRSL SGYYLAARQL EFLVGKKSGG PNTCRLGDAL AIAQHHDGVT 420 GTAKQHVTND YAKRLAHGAS EAEAVVNSAL AHLMNKARTK PDISLAQCSS MNMSYCPVTE 480 ETISGQKSLI LVAYNSLAWN RTEVIRIPVN DAGLNVEDSS GKTLDAQYIP MDNVTSNLRS 540 NYSKAYLGVS SQQIPKYWLV FKATVPPLGW NTFFISKEPG KGSDKNKHSP GTFSPMKGIT 600 EIGPGNLKLV FSQDSGLLKQ MHNSRTGANI LVDQNYLWYA SNVGDSKNSQ VSGAYIFRPN 660 ASLAYSVSSK PELQIVRGPL VDEVHQQFSP WVSQVIRVYK DKEHAEFEYT IGPLPVGKDY 720 VGKEVITRMV ANMSTDKTFY TDSNGRDFLK RVRDNRTDWT LKVNEPIAGN YYPLNLGMYT 780 KDKKVELSVL VDRATGGGSI KDGELELMLH RRTCMDDSRG VEESLEETVC INGTCTGLTV 840 RGNYYVSINP VGGEGARWRR GTGQEIYTPL LMAFTHENKE KWKGSNSVKG NAMDPHYAFP 900 PNVALITLEE LDLGNVLLRL AHLYEAGEES EYSKVAKVEL KKLFPGKTIK GVKEMSLVAT 960 QEKAKMKEKM KWKVEGEAEK SQSSSHPQKG GPLDSSALVV ELSPMEILKT ENIAGLQQKY 1020 TQSGGVRPFG LSTLIVGFDP YSRVPSLYQT DPSGTFSAWK ANATGRNSNS IREFLEKNFK 1080 ETSGQETVKL AIRALLEVVE SGGKNIEVAV MTREESGLRQ LEEGEIDAIV AEIEAEKAAA 1140 EAAKKGPQKE T* 1200 |
Functional Domains Download unfiltered results here | ||||||||
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Cdd ID | Domain | E-Value | Start | End | Length | Domain Description | ||
cd10809 | GH38N_AMII_GMII_SfManIII_like | 3.0e-83 | 42 | 367 | 362 | + N-terminal catalytic domain of Golgi alpha-mannosidase II, Spodoptera frugiperda Sf9 alpha-mannosidase III, and similar proteins; glycoside hydrolase family 38 (GH38). This subfamily is represented by Golgi alpha-mannosidase II (GMII, also known as mannosyl-oligosaccharide 1,3- 1,6-alpha mannosidase, EC 3.2.1.114, Man2A1), a monomeric, membrane-anchored class II alpha-mannosidase existing in the Golgi apparatus of eukaryotes. GMII plays a key role in the N-glycosylation pathway. It catalyzes the hydrolysis of the terminal both alpha-1,3-linked and alpha-1,6-linked mannoses from the high-mannose oligosaccharide GlcNAc(Man)5(GlcNAc)2 to yield GlcNAc(Man)3(GlcNAc)2(GlcNAc, N-acetylglucosmine), which is the committed step of complex N-glycan synthesis. GMII is activated by zinc or cobalt ions and is strongly inhibited by swainsonine. Inhibition of GMII provides a route to block cancer-induced changes in cell surface oligosaccharide structures. GMII has a pH optimum of 5.5-6.0, which is intermediate between those of acidic (lysosomal alpha-mannosidase) and neutral (ER/cytosolic alpha-mannosidase) enzymes. GMII is a retaining glycosyl hydrolase of family GH38 that employs a two-step mechanism involving the formation of a covalent glycosyl enzyme complex; two carboxylic acids positioned within the active site act in concert: one as a catalytic nucleophile and the other as a general acid/base catalyst. This subfamily also includes human alpha-mannosidase 2x (MX, also known as mannosyl-oligosaccharide 1,3- 1,6-alpha mannosidase, EC 3.2.1.114, Man2A2). MX is enzymatically and functionally very similar to GMII, and is thought to also function in the N-glycosylation pathway. Also found in this subfamily is class II alpha-mannosidase encoded by Spodoptera frugiperda Sf9 cell. This alpha-mannosidase is an integral membrane glycoprotein localized in the Golgi apparatus. It shows high sequence homology with mammalian Golgi alpha-mannosidase II(GMII). It can hydrolyze p-nitrophenyl alpha-D-mannopyranoside (pNP-alpha-Man), and it is inhibited by swainsonine. However, the Sf9 enzyme is stimulated by cobalt and can hydrolyze (Man)5(GlcNAc)2 to (Man)3(GlcNAc)2, but it cannot hydrolyze GlcNAc(Man)5(GlcNAc)2, which is distinct from that of GMII. Thus, this enzyme has been designated as Sf9 alpha-mannosidase III (SfManIII). It probably functions in an alternate N-glycan processing pathway in Sf9 cells. | ||
pfam01074 | Glyco_hydro_38 | 7.0e-96 | 44 | 356 | 317 | + Glycosyl hydrolases family 38 N-terminal domain. Glycosyl hydrolases are key enzymes of carbohydrate metabolism. | ||
cd00451 | GH38N_AMII_euk | 2.0e-111 | 43 | 319 | 277 | + N-terminal catalytic domain of eukaryotic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38). The family corresponds to a group of eukaryotic class II alpha-mannosidases (AlphaMII), which contain Golgi alpha-mannosidases II (GMII), the major broad specificity lysosomal alpha-mannosidases (LAM, MAN2B1), the noval core-specific lysosomal alpha 1,6-mannosidases (Epman, MAN2B2), and similar proteins. GMII catalyzes the hydrolysis of the terminal both alpha-1,3-linked and alpha-1,6-linked mannoses from the high-mannose oligosaccharide GlcNAc(Man)5(GlcNAc)2 to yield GlcNAc(Man)3(GlcNAc)2 (GlcNAc, N-acetylglucosmine), which is the committed step of complex N-glycan synthesis. LAM is a broad specificity exoglycosidase hydrolyzing all known alpha 1,2-, alpha 1,3-, and alpha 1,6-mannosidic linkages from numerous high mannose type oligosaccharides. Different from LAM, Epman can efficiently cleave only the alpha 1,6-linked mannose residue from (Man)3GlcNAc, but not (Man)3(GlcNAc)2 or other larger high mannose oligosaccharides, in the core of N-linked glycans. Members in this family are retaining glycosyl hydrolases of family GH38 that employs a two-step mechanism involving the formation of a covalent glycosyl enzyme complex. Two carboxylic acids positioned within the active site act in concert: one as a catalytic nucleophile and the other as a general acid/base catalyst. | ||
PLN02701 | PLN02701 | 3.0e-118 | 41 | 823 | 875 | + alpha-mannosidase | ||
cd10810 | GH38N_AMII_LAM_like | 2.0e-167 | 43 | 319 | 279 | + N-terminal catalytic domain of lysosomal alpha-mannosidase and similar proteins; glycoside hydrolase family 38 (GH38). The subfamily is represented by lysosomal alpha-mannosidase (LAM, Man2B1, EC 3.2.1.114), which is a broad specificity exoglycosidase hydrolyzing all known alpha 1,2-, alpha 1,3-, and alpha 1,6-mannosidic linkages from numerous high mannose type oligosaccharides. LAM is expressed in all tissues and in many species. In mammals, the absence of LAM can cause the autosomal recessive disease alpha-mannosidosis. LAM has an acidic pH optimum at 4.0-4.5. It is stimulated by zinc ion and is inhibited by cobalt ion and plant alkaloids, such as swainsonine (SW). LAM catalyzes hydrolysis by a double displacement mechanism in which a glycosyl-enzyme intermediate is formed and hydrolyzed via oxacarbenium ion-like transition states. A carboxylic acid in the active site acts as the catalytic nucleophile in the formation of the covalent intermediate while a second carboxylic acid acts as a general acid catalyst. The same residue is thought to assist in the hydrolysis (deglycosylation) step, this time acting as a general base. |
Gene Ontology | |
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GO Term | Description |
GO:0004298 | threonine-type endopeptidase activity |
GO:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds |
GO:0004559 | alpha-mannosidase activity |
GO:0005839 | proteasome core complex |
GO:0005975 | carbohydrate metabolic process |
Annotations - NR Download unfiltered results here | |||||||
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Source | Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End | Description |
GenBank | EEC66555.1 | 0 | 32 | 1007 | 27 | 997 | hypothetical protein OsI_32713 [Oryza sativa Indica Group] |
RefSeq | NP_001064140.1 | 0 | 32 | 1007 | 27 | 997 | Os10g0140200 [Oryza sativa (japonica cultivar-group)] |
RefSeq | NP_201416.1 | 0 | 1 | 1007 | 1 | 1028 | glycosyl hydrolase family 38 protein [Arabidopsis thaliana] |
RefSeq | XP_002265360.1 | 0 | 11 | 1007 | 9 | 999 | PREDICTED: hypothetical protein [Vitis vinifera] |
RefSeq | XP_002303405.1 | 0 | 11 | 1007 | 14 | 1004 | predicted protein [Populus trichocarpa] |
Annotations - PDB Download unfiltered results here | |||||||
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Source | Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End | Description |
PDB | 1hxk_A | 0 | 20 | 821 | 22 | 848 | A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Deoxymannojirimicin |
PDB | 1hww_A | 0 | 20 | 821 | 22 | 848 | A Chain A, Golgi Alpha-Mannosidase Ii In Complex With Deoxymannojirimicin |
PDB | 1hty_A | 0 | 20 | 821 | 22 | 848 | A Chain A, Golgi Alpha-Mannosidase Ii |
PDB | 1ps3_A | 0 | 20 | 821 | 52 | 878 | A Chain A, Golgi Alpha-mannosidase Ii In Complex With Kifunensine |
PDB | 3eju_A | 0 | 20 | 821 | 52 | 878 | A Chain A, Golgi Alpha-mannosidase Ii In Complex With Kifunensine |