KEGG   PATHWAY: xtr04141
Entry
xtr04141                    Pathway                                
Name
Protein processing in endoplasmic reticulum - Xenopus tropicalis (tropical clawed frog)
Description
The endoplasmic reticulum (ER) is a subcellular organelle where proteins are folded with the help of lumenal chaperones. Newly synthesized peptides enter the ER via the sec61 pore and are glycosylated. Correctly folded proteins are packaged into transport vesicles that shuttle them to the Golgi complex. Misfolded proteins are retained within the ER lumen in complex with molecular chaperones. Proteins that are terminally misfolded bind to BiP and are directed toward degradation through the proteasome in a process called ER-associated degradation (ERAD). Accumulation of misfolded proteins in the ER causes ER stress and activates a signaling pathway called the unfolded protein response (UPR). In certain severe situations, however, the protective mechanisms activated by the UPR are not sufficient to restore normal ER function and cells die by apoptosis.
Class
Genetic Information Processing; Folding, sorting and degradation
Pathway map
xtr04141  Protein processing in endoplasmic reticulum
xtr04141

Other DBs
GO: 0030433 0034976
Organism
Xenopus tropicalis (tropical clawed frog) [GN:xtr]
Gene
100037899  hsp70; heat shock 70kDa protein [KO:K03283]
100038128  sec61b; protein transport protein Sec61 subunit beta [KO:K09481]
100038254  ero1b; ERO1-like protein beta precursor [KO:K10976] [EC:1.8.4.-]
100038295  krtcap2; uncharacterized protein LOC100038295 [KO:K28202]
100124924  sil1; nucleotide exchange factor SIL1 [KO:K14001]
100124948  ubxn8; UBX domain-containing protein 8 isoform X1 [KO:K24351]
100125094  sec63; translocation protein SEC63 homolog isoform X1 [KO:K09540]
100125160  plaa; phospholipase A-2-activating protein [KO:K14018]
100127642  wfs1; wolframin [KO:K14020]
100145194  man1b1; endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase [KO:K23741]
100145597  ddost; dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kDa subunit precursor [KO:K12670]
100145667  edem3; ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X2 [KO:K10086]
100158640  sec62; translocation protein SEC62 [KO:K12275]
100170194  mapk8; mitogen-activated protein kinase 8 [KO:K04440] [EC:2.7.11.24]
100170417  ssr4; translocon-associated protein subunit delta [KO:K04571]
100190763  eif2ak3; eukaryotic translation initiation factor 2-alpha kinase 3 isoform X1 [KO:K08860] [EC:2.7.11.1]
100216029  man1a2; mannosyl-oligosaccharide 1,2-alpha-mannosidase IB [KO:K01230] [EC:3.2.1.113]
100216289  nploc4; nuclear protein localization protein 4 homolog [KO:K14015]
100327246  syvn1; E3 ubiquitin-protein ligase synoviolin [KO:K10601] [EC:2.3.2.27]
100379708  dnajc5b; dnaJ homolog subfamily C member 5B [KO:K09525]
100379785  magt1; magnesium transporter protein 1 [KO:K19478]
100379861  capn8.5; calpain-2 catalytic subunit [KO:K03853] [EC:3.4.22.53]
100379935  rbx1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
100380014  bag1; BAG family molecular chaperone regulator 1 [KO:K09555]
100380038  sel1l; protein sel-1 homolog 1 [KO:K14026]
100380058  uggt1; UDP-glucose:glycoprotein glucosyltransferase 1 isoform X3 [KO:K11718] [EC:2.4.1.-]
100485267  bcl2; apoptosis regulator Bcl-2 [KO:K02161]
100485441  hspa1b; LOW QUALITY PROTEIN: heat shock 70 kDa protein [KO:K03283]
100485465  svip; small VCP/p97-interacting protein [KO:K14014]
100485889  man1c1; mannosyl-oligosaccharide 1,2-alpha-mannosidase IC isoform X2 [KO:K01230] [EC:3.2.1.113]
100487046  tusc3; tumor suppressor candidate 3 [KO:K19478]
100487468  erp29; endoplasmic reticulum resident protein 29 [KO:K09586]
100488052  hspa1a; heat shock cognate 71 kDa protein [KO:K03283]
100488185  cryaa; alpha-crystallin A chain [KO:K09541]
100488447  ngly1; peptide-N(4)-(N-acetyl-beta- glucosaminyl)asparagine amidase [KO:K01456] [EC:3.5.1.52]
100488463  sec24a; protein transport protein Sec24A [KO:K14007]
100488855  atf6b; cyclic AMP-dependent transcription factor ATF-6 beta isoform X2 [KO:K09049]
100489027  calr3; calreticulin [KO:K08057]
100491067  pdia4; protein disulfide-isomerase A4 [KO:K09582] [EC:5.3.4.1]
100491174  ube4b; ubiquitin conjugation factor E4 B isoform X4 [KO:K10597] [EC:2.3.2.27]
100491314  man1a1; mannosyl-oligosaccharide 1,2-alpha-mannosidase IA [KO:K01230] [EC:3.2.1.113]
100491668  [KO:K03237]
100492570  hspa5; endoplasmic reticulum chaperone BiP [KO:K09490] [EC:3.6.4.10]
100492576  ganab; neutral alpha-glucosidase AB isoform X2 [KO:K05546] [EC:3.2.1.207]
100492802  sec61g; protein transport protein Sec61 subunit gamma [KO:K07342]
100493203  yod1; ubiquitin thioesterase OTU1 [KO:K13719] [EC:3.1.2.-]
100493346  sec24b; protein transport protein Sec24B isoform X1 [KO:K14007]
100493790  uggt2; UDP-glucose:glycoprotein glucosyltransferase 2 [KO:K11718] [EC:2.4.1.-]
100494048  sec24d; protein transport protein Sec24D [KO:K14007]
100494185  marchf6; E3 ubiquitin-protein ligase MARCH6 isoform X1 [KO:K10661] [EC:2.3.2.27]
100494296  hspb6; heat shock protein beta-6 [KO:K09542]
100494321  cryab; alpha-crystallin B chain isoform X1 [KO:K09542]
100494337  lman1; protein ERGIC-53 precursor [KO:K10080]
100494415  traf2; TNF receptor-associated factor 2 [KO:K03173] [EC:2.3.2.27]
100494922  [KO:K03853] [EC:3.4.22.53]
100495934  stt3b; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3B [KO:K07151] [EC:2.4.99.18]
100495980  [KO:K03853] [EC:3.4.22.53]
100496320  hspa8; heat shock cognate 71 kDa protein [KO:K03283]
100497147  ube2d4; ubiquitin-conjugating enzyme E2 D4 isoform X2 [KO:K06689] [EC:2.3.2.23]
100497536  sec31b; protein transport protein Sec31B isoform X1 [KO:K14005]
100497692  map3k5; mitogen-activated protein kinase kinase kinase 5 isoform X1 [KO:K04426] [EC:2.7.11.25]
100497835  ubxn4; UBX domain-containing protein 4 [KO:K24348]
100498199  atf6; cyclic AMP-dependent transcription factor ATF-6 alpha [KO:K09054]
101731802  [KO:K10100]
101733128  fbxo2; F-box only protein 2 [KO:K10099]
108645783  bak1; bcl-2 homologous antagonist/killer isoform X1 [KO:K14021]
116407936  ern1; serine/threonine-protein kinase/endoribonuclease IRE1 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
116408006  nsfl1c; NSFL1 cofactor p47 [KO:K14012]
387599  sar1a; GTP-binding protein SAR1a [KO:K07953] [EC:3.6.5.-]
394564  sec13; protein SEC13 homolog [KO:K14004]
394579  bcap31; B-cell receptor-associated protein 31 [KO:K14009]
394648  ube2g1; ubiquitin-conjugating enzyme E2 G1 [KO:K10575] [EC:2.3.2.23]
394775  hsph1; heat shock protein 105 kDa [KO:K09485]
394787  dnajb11; dnaJ homolog subfamily B member 11 [KO:K09517]
394793  bax; apoptosis regulator BAX [KO:K02159]
394794  txndc5; thioredoxin domain-containing protein 5 precursor [KO:K13984] [EC:5.3.4.1]
394829  ubqln1; ubiquilin-1 [KO:K04523]
394954  pdia3; protein disulfide-isomerase A3 precursor [KO:K08056] [EC:5.3.4.1]
394983  prkcsh; glucosidase 2 subunit beta precursor [KO:K08288]
395031  rpn1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 precursor [KO:K12666]
395034  edem1; ER degradation-enhancing alpha-mannosidase-like protein 1 [KO:K10084]
395047  ubqln4; ubiquilin-4 [KO:K04523]
395048  p4hb; protein disulfide-isomerase precursor [KO:K09580] [EC:5.3.4.1]
407858  xbp1; X-box-binding protein 1 [KO:K09027]
407861  stt3a; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A [KO:K07151] [EC:2.4.99.18]
407868  tram1; translocating chain-associated membrane protein 1 [KO:K14010]
407898  herpud1; homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein [KO:K14027]
407912  preb; prolactin regulatory element-binding protein [KO:K14003]
407930  erlec1; endoplasmic reticulum lectin 1 precursor [KO:K14008]
407962  calr; calreticulin precursor [KO:K08057]
448005  atf4; cyclic AMP-dependent transcription factor ATF-4 [KO:K04374]
448030  ssr2; translocon-associated protein subunit beta precursor [KO:K13250]
448033  sec61a1; protein transport protein Sec61 subunit alpha isoform 1 [KO:K10956]
448035  capn2; calpain-2 catalytic subunit [KO:K03853] [EC:3.4.22.53]
448048  dnaja2; dnaJ homolog subfamily A member 2 [KO:K09503]
448068  dnajc5g; DnaJ heat shock protein family (Hsp40) member C5 gamma [KO:K09525]
448087  eif2s1; eukaryotic translation initiation factor 2 subunit 1 [KO:K03237]
448090  ubxn2a; UBX domain-containing protein 2A [KO:K24349]
448161  canx; calnexin precursor [KO:K08054]
448168  rrbp1; ribosome-binding protein 1 [KO:K14000]
448177  vcp; transitional endoplasmic reticulum ATPase [KO:K13525]
448295  ubxn6; UBX domain-containing protein 6 [KO:K14011]
448372  ubxn1; UBX domain-containing protein 1 [KO:K24348]
448388  bag2; BAG family molecular chaperone regulator 2 [KO:K09556]
448516  ufd1; ubiquitin fusion degradation protein 1 homolog [KO:K14016]
448548  edem2; ER degradation-enhancing alpha-mannosidase-like protein 2 precursor [KO:K10085]
448655  ssr3; translocon-associated protein subunit gamma [KO:K13251]
448722  tmem258; transmembrane protein 258 [KO:K26502]
493217  nfe2l2; nuclear factor erythroid 2-related factor 2 [KO:K05638]
493341  pdia6; protein disulfide-isomerase A6 precursor [KO:K09584] [EC:5.3.4.1]
493474  dnajb1; dnaJ homolog subfamily B member 1 [KO:K09507]
496421  dnaja1; dnaJ homolog subfamily A member 1 [KO:K09502]
496576  sec31a; protein transport protein Sec31A [KO:K14005]
496585  ube2j1; ubiquitin-conjugating enzyme E2 J1 [KO:K10578] [EC:2.3.2.23]
496634  cplx3; protein ERGIC-53-like precursor [KO:K10080]
496816  dnajc1; dnaJ homolog subfamily C member 1 precursor [KO:K09521]
496959  rpn2; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 precursor [KO:K12667]
496967  selenos; selenoprotein S [KO:K14025]
496977  dnajc3; dnaJ homolog subfamily C member 3 precursor [KO:K09523]
541454  capn11; calpain 1, large subunit [KO:K01367] [EC:3.4.22.52]
541455  capn1; calpain-1 catalytic subunit [KO:K01367] [EC:3.4.22.52]
548454  dnajb2; dnaJ homolog subfamily B member 2 [KO:K09508]
548588  sar1b; GTP-binding protein SAR1b [KO:K07953] [EC:3.6.5.-]
548742  dnajc5; uncharacterized protein LOC548742 [KO:K09525]
548745  dnajb12; dnaJ homolog subfamily B member 12 [KO:K09518]
548812  ero1a; ERO1-like protein alpha precursor [KO:K10950] [EC:1.8.4.-]
548818  ube2d3; ubiquitin-conjugating enzyme E2 D3 [KO:K06689] [EC:2.3.2.23]
548823  hspbp1; hsp70-binding protein 1 [KO:K09562]
548851  derl2; derlin-2 [KO:K13989]
549036  hsp90aa1.1; heat shock protein 90kDa alpha family class A member 1 [KO:K04079]
549143  atxn3; ataxin-3 [KO:K11863] [EC:3.4.22.-]
549273  skp1; S-phase kinase-associated protein 1 [KO:K03094]
549410  ostc; oligosaccharyltransferase complex subunit ostc [KO:K26501]
549477  derl1; derlin-1 [KO:K11519]
549604  sec23b; protein transport protein Sec23B [KO:K14006]
549666  ssr1; translocon-associated protein subunit alpha precursor [KO:K13249]
549679  dnajc10; dnaJ homolog subfamily C member 10 [KO:K09530] [EC:1.8.4.-]
549694  dad1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1 [KO:K12668]
549815  mbtps2; membrane-bound transcription factor site-2 protease [KO:K07765] [EC:3.4.24.85]
549825  rnf5; E3 ubiquitin-protein ligase RNF5 [KO:K10666] [EC:2.3.2.27]
549837  amfr; E3 ubiquitin-protein ligase AMFR [KO:K10636] [EC:2.3.2.36]
549952  ube2g2; ubiquitin-conjugating enzyme E2 G2 [KO:K04555] [EC:2.3.2.23]
594966  rad23b; UV excision repair protein RAD23 homolog B [KO:K10839]
595047  hsp90ab1; heat shock protein HSP 90-beta [KO:K04079]
613115  map2k7; dual specificity mitogen-activated protein kinase kinase 7 [KO:K04431] [EC:2.7.12.2]
619362  mogs; mannosyl-oligosaccharide glucosidase [KO:K01228] [EC:3.2.1.106]
733816  ddit3; DNA damage-inducible transcript 3 protein [KO:K04452]
733829  sec24c; protein transport protein Sec24C [KO:K14007]
734006  ube2j2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
734020  [KO:K09523]
734089  hsp90b1; endoplasmin precursor [KO:K09487]
734121  cul1; cullin-1 [KO:K03347]
779444  hyou1; hypoxia up-regulated protein 1 isoform 1 precursor [KO:K09486]
779515  mapk10; mitogen-activated protein kinase 10 isoform 2 [KO:K04440] [EC:2.7.11.24]
779517  os9; protein OS-9 isoform X1 [KO:K10088]
779642  lman2; vesicular integral-membrane protein VIP36 precursor [KO:K10082]
779732  ern2; serine/threonine-protein kinase/endoribonuclease IRE2 precursor [KO:K08852] [EC:2.7.11.1 3.1.26.-]
779800  stub1; E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
779872  ckap4; cytoskeleton-associated protein 4 [KO:K13999]
779883  hspa1l; heat shock protein family A (Hsp70) member 1 like [KO:K03283]
780116  sec23a; protein transport protein Sec23A [KO:K14006]
780222  hsp90aa1.2; heat shock protein 90kDa alpha (cytosolic), class A member 1, gene 2 [KO:K04079]
780252  mbtps1; membrane-bound transcription factor site-1 protease preproprotein [KO:K08653] [EC:3.4.21.112]
780353  ube2d1; ubiquitin-conjugating enzyme E2 D1 [KO:K06689] [EC:2.3.2.23]
Compound
C00076  Calcium cation
G00009  
G00010  
G00011  
G00012  
G10694  
Reference
PMID:19491040
  Authors
Naidoo N
  Title
ER and aging-Protein folding and the ER stress response.
  Journal
Ageing Res Rev 8:150-9 (2009)
DOI:10.1016/j.arr.2009.03.001
Reference
PMID:18023214
  Authors
Malhotra JD, Kaufman RJ
  Title
The endoplasmic reticulum and the unfolded protein response.
  Journal
Semin Cell Dev Biol 18:716-31 (2007)
DOI:10.1016/j.semcdb.2007.09.003
Reference
PMID:20347046
  Authors
Maattanen P, Gehring K, Bergeron JJ, Thomas DY
  Title
Protein quality control in the ER: the recognition of misfolded proteins.
  Journal
Semin Cell Dev Biol 21:500-11 (2010)
DOI:10.1016/j.semcdb.2010.03.006
Reference
PMID:20219571
  Authors
Stolz A, Wolf DH
  Title
Endoplasmic reticulum associated protein degradation: a chaperone assisted journey to hell.
  Journal
Biochim Biophys Acta 1803:694-705 (2010)
DOI:10.1016/j.bbamcr.2010.02.005
Reference
PMID:20112977
  Authors
Dejgaard K, Theberge JF, Heath-Engel H, Chevet E, Tremblay ML, Thomas DY
  Title
Organization of the Sec61 translocon, studied by high resolution native electrophoresis.
  Journal
J Proteome Res 9:1763-71 (2010)
DOI:10.1021/pr900900x
Related
pathway
xtr00510  N-Glycan biosynthesis
xtr03050  Proteasome
xtr03060  Protein export
xtr04210  Apoptosis
KO pathway
ko04141   

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