KEGG   PATHWAY: sfm04141
Entry
sfm04141                    Pathway                                
Name
Protein processing in endoplasmic reticulum - Scleropages formosus (Asian bonytongue)
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
sfm04141  Protein processing in endoplasmic reticulum
sfm04141

Other DBs
GO: 0030433 0034976
Organism
Scleropages formosus (Asian bonytongue) [GN:sfm]
Gene
108929843  protein transport protein Sec61 subunit alpha-like 1 [KO:K10956]
108936896  protein transport protein Sec61 subunit alpha-like 1 [KO:K10956]
108940605  sec61b; protein transport protein Sec61 subunit beta [KO:K09481]
108935440  sec61g; protein transport protein Sec61 subunit gamma [KO:K07342]
108935164  sec62; translocation protein SEC62 [KO:K12275]
108921095  sec63; translocation protein SEC63 homolog isoform X1 [KO:K09540]
108923400  rpn1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 [KO:K12666]
108923427  rpn2; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X1 [KO:K12667]
108937910  dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit dad1-like [KO:K12668]
108929574  dad1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1 [KO:K12668]
108933892  ddost; dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kDa subunit [KO:K12670]
108932108  stt3a; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A [KO:K07151] [EC:2.4.99.18]
108942511  stt3b; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3B [KO:K07151] [EC:2.4.99.18]
108934085  magnesium transporter protein 1 isoform X1 [KO:K19478]
108925330  magnesium transporter protein 1 [KO:K19478]
108924523  tusc3; tumor suppressor candidate 3 isoform X1 [KO:K19478]
108927835  ostc; oligosaccharyltransferase complex subunit OSTC [KO:K26501]
108941024  tmem258; transmembrane protein 258 [KO:K26502]
108924334  mogs; mannosyl-oligosaccharide glucosidase [KO:K01228] [EC:3.2.1.106]
108942377  ckap4; cytoskeleton-associated protein 4 [KO:K13999]
108926979  rrbp1; ribosome-binding protein 1 isoform X1 [KO:K14000]
108923202  sil1; nucleotide exchange factor SIL1 [KO:K14001]
108936232  hyou1; hypoxia up-regulated protein 1 isoform X3 [KO:K09486]
108927206  endoplasmic reticulum chaperone BiP-like [KO:K09490] [EC:3.6.4.10]
108938559  endoplasmic reticulum chaperone BiP [KO:K09490] [EC:3.6.4.10]
114910680  endoplasmic reticulum chaperone BiP-like [KO:K09490] [EC:3.6.4.10]
108922317  dnajb11; dnaJ homolog subfamily B member 11 [KO:K09517]
108928008  dnajc1; dnaJ homolog subfamily C member 1 [KO:K09521]
108936334  dnajc3; dnaJ homolog subfamily C member 3 [KO:K09523]
108923058  dnaJ homolog subfamily C member 3-like isoform X1 [KO:K09523]
108920220  dnajc10; dnaJ homolog subfamily C member 10 isoform X1 [KO:K09530] [EC:1.8.4.-]
108927618  dnaJ homolog subfamily C member 10-like [KO:K09530] [EC:1.8.4.-]
108920976  hsp90b1; endoplasmin [KO:K09487]
108920363  neutral alpha-glucosidase AB-like isoform X1 [KO:K05546] [EC:3.2.1.207]
108925479  neutral alpha-glucosidase AB [KO:K05546] [EC:3.2.1.207]
108935789  prkcsh; glucosidase 2 subunit beta [KO:K08288]
108925421  canx; calnexin [KO:K08054]
108925341  calnexin-like [KO:K08054]
108941978  pdia3; protein disulfide-isomerase A3 [KO:K08056] [EC:5.3.4.1]
108941883  protein disulfide-isomerase A3-like [KO:K08056] [EC:5.3.4.1]
108931743  protein disulfide-isomerase A3-like isoform X1 [KO:K08056] [EC:5.3.4.1]
108919048  calreticulin-like [KO:K08057]
108921506  calreticulin-like [KO:K08057]
108919939  calreticulin [KO:K08057]
108919178  mannosyl-oligosaccharide 1,2-alpha-mannosidase IC-like isoform X2 [KO:K01230] [EC:3.2.1.113]
108938572  mannosyl-oligosaccharide 1,2-alpha-mannosidase IB-like isoform X1 [KO:K01230] [EC:3.2.1.113]
108926840  man1a2; mannosyl-oligosaccharide 1,2-alpha-mannosidase IB isoform X1 [KO:K01230] [EC:3.2.1.113]
108928530  man1a1; mannosyl-oligosaccharide 1,2-alpha-mannosidase IA [KO:K01230] [EC:3.2.1.113]
108922690  endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase-like [KO:K23741] [EC:3.2.1.209]
108938629  man1b1; endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase isoform X1 [KO:K23741] [EC:3.2.1.209]
108922819  lman2; vesicular integral-membrane protein VIP36 isoform X1 [KO:K10082]
108932076  lman1; protein ERGIC-53 [KO:K10080]
108937137  preb; prolactin regulatory element-binding protein isoform X1 [KO:K14003]
108920319  GTP-binding protein SAR1b [KO:K07953] [EC:3.6.5.-]
108939728  sar1a; GTP-binding protein SAR1a isoform X1 [KO:K07953] [EC:3.6.5.-]
108929649  GTP-binding protein SAR1b-like [KO:K07953] [EC:3.6.5.-]
108931093  sec13; protein SEC13 homolog [KO:K14004]
108929916  sec31a; protein transport protein Sec31A isoform X3 [KO:K14005]
108939694  protein transport protein Sec31B-like isoform X1 [KO:K14005]
108923848  protein transport protein Sec23A [KO:K14006]
108933799  protein transport protein Sec23A [KO:K14006]
108918093  sec24c; protein transport protein Sec24C isoform X1 [KO:K14007]
108920318  sec24a; protein transport protein Sec24A isoform X1 [KO:K14007]
108925750  sec24d; protein transport protein Sec24D isoform X1 [KO:K14007]
108938822  sec24b; protein transport protein Sec24B isoform X1 [KO:K14007]
108934892  protein transport protein Sec24C-like isoform X1 [KO:K14007]
108940368  protein transport protein Sec24C-like [KO:K14007]
108936715  uggt1; UDP-glucose:glycoprotein glucosyltransferase 1 isoform X1 [KO:K11718] [EC:2.4.1.-]
108928533  uggt2; UDP-glucose:glycoprotein glucosyltransferase 2 isoform X1 [KO:K11718] [EC:2.4.1.-]
108937030  edem1; ER degradation-enhancing alpha-mannosidase-like protein 1 [KO:K10084]
108936922  ER degradation-enhancing alpha-mannosidase-like protein 2 [KO:K10085]
108919794  ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X1 [KO:K10086]
108922651  ER degradation-enhancing alpha-mannosidase-like protein 3 [KO:K10086]
108940179  p4hb; protein disulfide-isomerase [KO:K09580] [EC:5.3.4.1]
108919666  pdia4; protein disulfide-isomerase A4 [KO:K09582] [EC:5.3.4.1]
108923566  pdia6; protein disulfide-isomerase A6 [KO:K09584] [EC:5.3.4.1]
108927710  txndc5; thioredoxin domain-containing protein 5 [KO:K13984] [EC:5.3.4.1]
108919637  ero1a; ERO1-like protein alpha isoform X1 [KO:K10950] [EC:1.8.4.-]
108933755  ero1b; ERO1-like protein beta isoform X1 [KO:K10976] [EC:1.8.4.-]
108918163  os9; protein OS-9 isoform X1 [KO:K10088]
108942595  erlec1; endoplasmic reticulum lectin 1 [KO:K14008]
108936425  translocon-associated protein subunit alpha-like [KO:K13249]
108942114  translocon-associated protein subunit alpha-like [KO:K13249]
108928011  ssr1; translocon-associated protein subunit alpha isoform X1 [KO:K13249]
108931745  ssr2; translocon-associated protein subunit beta [KO:K13250]
108924664  ssr3; translocon-associated protein subunit gamma [KO:K13251]
108918347  translocon-associated protein subunit delta-like [KO:K04571]
108939180  ssr4; translocon-associated protein subunit delta [KO:K04571]
108934849  bcap31; B-cell receptor-associated protein 31 [KO:K14009]
108936976  translocating chain-associated membrane protein 1-like [KO:K14010]
108935532  tram1; translocating chain-associated membrane protein 1 [KO:K14010]
108919303  derl1; derlin-1 [KO:K11519]
108921913  derlin-2-like isoform X1 [KO:K13989]
108928043  derl2; derlin-2 [KO:K13989]
108941973  ubxn4; UBX domain-containing protein 4 [KO:K24348]
108925335  ubxn1; UBX domain-containing protein 1 [KO:K24348]
108929243  ubxn2a; UBX domain-containing protein 2A [KO:K24349]
108919912  ubxn6; UBX domain-containing protein 6 [KO:K14011]
108929932  ubxn8; UBX domain-containing protein 8 [KO:K24351]
108926426  NSFL1 cofactor p47-like [KO:K14012]
108925593  NSFL1 cofactor p47-like [KO:K14012]
108942312  svip; small VCP/p97-interacting protein [KO:K14014]
108938081  transitional endoplasmic reticulum ATPase [KO:K13525]
108925097  transitional endoplasmic reticulum ATPase-like [KO:K13525]
108919758  transitional endoplasmic reticulum ATPase-like [KO:K13525]
108930289  nploc4; nuclear protein localization protein 4 homolog [KO:K14015]
108920131  ufd1; ubiquitin recognition factor in ER-associated degradation protein 1 [KO:K14016]
108923260  heat shock 70 kDa protein [KO:K03283]
108930323  heat shock cognate 71 kDa protein-like [KO:K03283]
108936180  heat shock cognate 71 kDa protein [KO:K03283]
108936183  heat shock cognate 71 kDa protein [KO:K03283]
114909126  heat shock 70 kDa protein-like [KO:K03283]
108935693  heat shock 70 kDa protein-like [KO:K03283]
108935695  heat shock 70 kDa protein-like [KO:K03283]
108925926  dnaja1; dnaJ homolog subfamily A member 1 [KO:K09502]
108937806  dnaja2; dnaJ homolog subfamily A member 2 [KO:K09503]
108926316  dnaJ homolog subfamily A member 2 [KO:K09503]
108919752  dnajb1; dnaJ homolog subfamily B member 1 [KO:K09507]
108935767  dnaJ homolog subfamily B member 1-like [KO:K09507]
108918127  dnaJ homolog subfamily B member 6-like isoform X1 [KO:K09508]
108920683  dnajb2; dnaJ homolog subfamily B member 2 isoform X1 [KO:K09508]
108939638  dnajb12; dnaJ homolog subfamily B member 12 [KO:K09518]
108926441  dnaJ homolog subfamily C member 5-like [KO:K09525]
108937013  dnaJ homolog subfamily C member 5-like [KO:K09525]
108925188  dnajc5g; dnaJ homolog subfamily C member 5G isoform X1 [KO:K09525]
108929619  dnajc5b; dnaJ homolog subfamily C member 5B isoform X1 [KO:K09525]
108929331  hsp90ab1; heat shock protein HSP 90-beta [KO:K04079]
108930816  heat shock protein HSP 90-alpha [KO:K04079]
108941499  heat shock protein HSP 90-alpha-like isoform X1 [KO:K04079]
108941510  heat shock protein HSP 90-alpha 1 [KO:K04079]
108942004  heat shock protein 105 kDa-like [KO:K09485]
108937042  bag1; BAG family molecular chaperone regulator 1 [KO:K09555]
108932811  bag2; BAG family molecular chaperone regulator 2 [KO:K09556]
108941641  hspbp1; hsp70-binding protein 1 [KO:K09562]
108920039  alpha-crystallin A chain-like [KO:K09541]
108933129  cryaa; alpha-crystallin A chain [KO:K09541]
108936023  cryab; alpha-crystallin B chain [KO:K09542]
108918328  yod1; ubiquitin thioesterase OTU1 [KO:K13719] [EC:3.1.2.-]
108938797  plaa; phospholipase A-2-activating protein isoform X1 [KO:K14018]
108930940  UV excision repair protein RAD23 homolog B-like [KO:K10839]
108936113  rad23b; UV excision repair protein RAD23 homolog B [KO:K10839]
108939805  rad23a; UV excision repair protein RAD23 homolog A isoform X1 [KO:K10839]
108919930  UV excision repair protein RAD23 homolog A-like isoform X1 [KO:K10839]
108930429  ubqln4; ubiquilin-4 [KO:K04523]
108938641  ubqln1; ubiquilin-1 isoform X1 [KO:K04523]
108933276  ngly1; peptide-N(4)-(N-acetyl-beta- glucosaminyl)asparagine amidase isoform X1 [KO:K01456] [EC:3.5.1.52]
108919641  atxn3; ataxin-3 isoform X1 [KO:K11863] [EC:3.4.22.-]
108923282  ube4b; ubiquitin conjugation factor E4 B isoform X1 [KO:K10597] [EC:2.3.2.27]
108933760  ubiquitin conjugation factor E4 B-like [KO:K10597] [EC:2.3.2.27]
108921113  eif2ak3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
108923993  eif2s1; eukaryotic translation initiation factor 2 subunit 1 [KO:K03237]
108921092  eukaryotic translation initiation factor 2 subunit 1 [KO:K03237]
108920357  nfe2l2; nuclear factor erythroid 2-related factor 2 [KO:K05638]
108930667  atf4; cyclic AMP-dependent transcription factor ATF-4 [KO:K04374]
108928403  ddit3; DNA damage-inducible transcript 3 protein [KO:K04452]
108931633  apoptosis regulator Bcl-2-like [KO:K02161]
108937589  apoptosis regulator Bcl-2-like isoform X1 [KO:K02161]
108935502  cyclic AMP-dependent transcription factor ATF-6 alpha-like [KO:K09054]
108935180  cyclic AMP-dependent transcription factor ATF-6 alpha isoform X1 [KO:K09054]
108935684  atf6b; cyclic AMP-dependent transcription factor ATF-6 beta isoform X1 [KO:K09049]
108925906  wolframin-like isoform X1 [KO:K14020]
108924155  wfs1; wolframin [KO:K14020]
108918985  mbtps1; membrane-bound transcription factor site-1 protease [KO:K08653] [EC:3.4.21.112]
108939619  mbtps2; membrane-bound transcription factor site-2 protease isoform X1 [KO:K07765] [EC:3.4.24.85]
108925673  LOW QUALITY PROTEIN: uncharacterized protein LOC108925673 [KO:K09027]
108927413  ern2; serine/threonine-protein kinase/endoribonuclease IRE2 isoform X1 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
108940180  ern1; serine/threonine-protein kinase/endoribonuclease IRE1 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
108922584  TNF receptor-associated factor 2-like isoform X1 [KO:K03173] [EC:2.3.2.27]
108929927  TNF receptor-associated factor 2-like [KO:K03173] [EC:2.3.2.27]
108938148  TNF receptor-associated factor 2 [KO:K03173] [EC:2.3.2.27]
108919179  mitogen-activated protein kinase kinase kinase 5-like isoform X1 [KO:K04426] [EC:2.7.11.25]
108929292  map3k5; mitogen-activated protein kinase kinase kinase 5 isoform X1 [KO:K04426] [EC:2.7.11.25]
108939797  map2k7; dual specificity mitogen-activated protein kinase kinase 7 isoform X1 [KO:K04431] [EC:2.7.12.2]
108918109  mapk8; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
108918907  mitogen-activated protein kinase 8B isoform X1 [KO:K04440] [EC:2.7.11.24]
108936860  mitogen-activated protein kinase 9-like isoform X1 [KO:K04440] [EC:2.7.11.24]
108934371  mitogen-activated protein kinase 9-like isoform X1 [KO:K04440] [EC:2.7.11.24]
108935733  mapk10; mitogen-activated protein kinase 10 isoform X1 [KO:K04440] [EC:2.7.11.24]
108941669  bax; apoptosis regulator BAX isoform X1 [KO:K02159]
108923902  apoptosis regulator BAX-like [KO:K02159]
108931251  bak1; bcl-2 homologous antagonist/killer isoform X1 [KO:K14021]
108934318  calpain-1 catalytic subunit-like [KO:K01367] [EC:3.4.22.52]
108933741  calpain-1 catalytic subunit-like [KO:K01367] [EC:3.4.22.52]
108927110  calpain-1 catalytic subunit-like [KO:K01367] [EC:3.4.22.52]
108921654  calpain-9-like [KO:K01367] [EC:3.4.22.52]
108927097  calpain-2 catalytic subunit-like [KO:K03853] [EC:3.4.22.53]
108927098  calpain-2 catalytic subunit-like [KO:K03853] [EC:3.4.22.53]
108927128  calpain-2 catalytic subunit-like [KO:K03853] [EC:3.4.22.53]
108933713  calpain-2 catalytic subunit-like [KO:K03853] [EC:3.4.22.53]
108933714  calpain-2 catalytic subunit-like [KO:K03853] [EC:3.4.22.53]
108935545  march6; E3 ubiquitin-protein ligase MARCH6 [KO:K10661] [EC:2.3.2.27]
108937949  E3 ubiquitin-protein ligase MARCH6-like [KO:K10661] [EC:2.3.2.27]
108929420  ube2j1; ubiquitin-conjugating enzyme E2 J1 [KO:K10578] [EC:2.3.2.23]
108933920  ubiquitin-conjugating enzyme E2 J2-like [KO:K04554] [EC:2.3.2.23]
108939080  ube2j2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
108921940  ubiquitin-conjugating enzyme E2 G1-like [KO:K10575] [EC:2.3.2.23]
108938330  ubiquitin-conjugating enzyme E2 G1-like isoform X1 [KO:K10575] [EC:2.3.2.23]
108928277  ube2g1; ubiquitin-conjugating enzyme E2 G1 isoform X1 [KO:K10575] [EC:2.3.2.23]
108942124  ube2g2; ubiquitin-conjugating enzyme E2 G2 [KO:K04555] [EC:2.3.2.23]
108923082  syvn1; E3 ubiquitin-protein ligase synoviolin isoform X1 [KO:K10601] [EC:2.3.2.27]
108935657  rnf5; E3 ubiquitin-protein ligase RNF5 [KO:K10666] [EC:2.3.2.27]
108935602  rnf185; E3 ubiquitin-protein ligase RNF185 [KO:K10666] [EC:2.3.2.27]
108940993  selenos; selenoprotein S isoform X1 [KO:K14025]
108919350  protein sel-1 homolog 1-like [KO:K14026]
108918083  sel1l; protein sel-1 homolog 1 isoform X1 [KO:K14026]
108918942  herpud1; homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein [KO:K14027]
108926184  E3 ubiquitin-protein ligase AMFR-like [KO:K10636] [EC:2.3.2.36]
108928314  E3 ubiquitin-protein ligase AMFR-like isoform X2 [KO:K10636] [EC:2.3.2.36]
108923864  stub1; E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
108920981  ubiquitin-conjugating enzyme E2 D2-like [KO:K06689] [EC:2.3.2.23]
108934428  ubiquitin-conjugating enzyme E2 D2 [KO:K06689] [EC:2.3.2.23]
108923184  ube2d2; ubiquitin-conjugating enzyme E2 D2 [KO:K06689] [EC:2.3.2.23]
108929513  ubiquitin-conjugating enzyme E2 D4 isoform X1 [KO:K06689] [EC:2.3.2.23]
108930918  ubiquitin-conjugating enzyme E2 D2-like [KO:K06689] [EC:2.3.2.23]
108932676  ubiquitin-conjugating enzyme E2 D4-like isoform X1 [KO:K06689] [EC:2.3.2.23]
108939552  ubiquitin-conjugating enzyme E2 D4-like [KO:K06689] [EC:2.3.2.23]
108923605  ubiquitin-conjugating enzyme E2 6-like isoform X1 [KO:K06689] [EC:2.3.2.23]
108942718  prkn; E3 ubiquitin-protein ligase parkin [KO:K04556] [EC:2.3.2.31]
108939936  E3 ubiquitin-protein ligase RBX1-like [KO:K03868] [EC:2.3.2.32]
108939944  E3 ubiquitin-protein ligase RBX1-like [KO:K03868] [EC:2.3.2.32]
108926071  rbx1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
108919683  cul1; cullin-1 [KO:K03347]
108935504  cullin-1 [KO:K03347]
108929701  S-phase kinase-associated protein 1-like isoform X1 [KO:K03094]
108934210  S-phase kinase-associated protein 1 [KO:K03094]
108938231  F-box only protein 2-like [KO:K10099]
108940215  F-box only protein 6-like isoform X1 [KO:K10100]
108940221  F-box only protein 6-like isoform X1 [KO:K10100]
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
sfm00510  N-Glycan biosynthesis
sfm03050  Proteasome
sfm03060  Protein export
sfm04210  Apoptosis
KO pathway
ko04141   
LinkDB

DBGET integrated database retrieval system