KEGG   PATHWAY: ccw04141
Entry
ccw04141                    Pathway                                
Name
Protein processing in endoplasmic reticulum - Corvus cornix (hooded crow)
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
ccw04141  Protein processing in endoplasmic reticulum
ccw04141

Other DBs
GO: 0030433 0034976
Organism
Corvus cornix (hooded crow) [GN:ccw]
Gene
104683473  SEC61A1; LOW QUALITY PROTEIN: protein transport protein Sec61 subunit alpha [KO:K10956]
104694503  SEC61A2; protein transport protein Sec61 subunit alpha isoform X2 [KO:K10956]
104685816  SEC61B; protein transport protein Sec61 subunit beta [KO:K09481]
104688920  SEC61G; protein transport protein Sec61 subunit gamma [KO:K07342]
104688049  SEC62; translocation protein SEC62 [KO:K12275]
104694137  SEC63; translocation protein SEC63 homolog [KO:K09540]
104683471  RPN1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 [KO:K12666]
104687883  RPN2; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 isoform X1 [KO:K12667]
120411337  DAD1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1 [KO:K12668]
104698593  DDOST; dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kDa subunit [KO:K12670]
104692142  STT3A; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A isoform X1 [KO:K07151] [EC:2.4.99.18]
104689039  STT3B; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3B [KO:K07151] [EC:2.4.99.18]
104691618  MAGT1; LOW QUALITY PROTEIN: magnesium transporter protein 1 [KO:K19478]
104690610  TUSC3; tumor suppressor candidate 3 [KO:K19478]
104697120  OSTC; oligosaccharyltransferase complex subunit OSTC [KO:K26501]
120410123  TMEM258; LOW QUALITY PROTEIN: transmembrane protein 258 [KO:K26502]
120409966  MOGS; LOW QUALITY PROTEIN: mannosyl-oligosaccharide glucosidase [KO:K01228] [EC:3.2.1.106]
104696247  CKAP4; LOW QUALITY PROTEIN: cytoskeleton-associated protein 4 [KO:K13999]
104685606  RRBP1; ribosome-binding protein 1 isoform X1 [KO:K14000]
104696051  SIL1; nucleotide exchange factor SIL1 isoform X3 [KO:K14001]
104692162  HYOU1; hypoxia up-regulated protein 1 [KO:K09486]
104688520  HSPA5; endoplasmic reticulum chaperone BiP [KO:K09490] [EC:3.6.4.10]
104696734  DNAJB11; dnaJ homolog subfamily B member 11 [KO:K09517]
104689358  DNAJC1; LOW QUALITY PROTEIN: dnaJ homolog subfamily C member 1 [KO:K09521]
104685970  DNAJC3; dnaJ homolog subfamily C member 3 [KO:K09523]
104693821  DNAJC10; dnaJ homolog subfamily C member 10 [KO:K09530] [EC:1.8.4.-]
104696499  HSP90B1; endoplasmin [KO:K09487]
104689588  CANX; calnexin [KO:K08054]
104684041  PDIA3; protein disulfide-isomerase A3 [KO:K08056] [EC:5.3.4.1]
104691020  MAN1A1; LOW QUALITY PROTEIN: mannosyl-oligosaccharide 1,2-alpha-mannosidase IA [KO:K01230] [EC:3.2.1.113]
104687107  MAN1A2; mannosyl-oligosaccharide 1,2-alpha-mannosidase IB isoform X1 [KO:K01230] [EC:3.2.1.113]
104688195  UAP1L1; UDP-N-acetylhexosamine pyrophosphorylase-like protein 1 isoform X1 [KO:K23741] [EC:3.2.1.209]
104689659  LMAN2; LOW QUALITY PROTEIN: vesicular integral-membrane protein VIP36 [KO:K10082]
104698605  LMAN1; protein ERGIC-53 isoform X1 [KO:K10080]
104683720  SAR1B; GTP-binding protein SAR1b [KO:K07953] [EC:3.6.5.-]
104695061  SAR1A; GTP-binding protein SAR1a [KO:K07953] [EC:3.6.5.-]
104683400  SEC13; protein SEC13 homolog isoform X1 [KO:K14004]
104696930  SEC31B; protein transport protein Sec31B isoform X1 [KO:K14005]
104697222  SEC31A; protein transport protein Sec31A isoform X1 [KO:K14005]
104684940  SEC23A; protein transport protein Sec23A isoform X2 [KO:K14006]
104685600  SEC23B; protein transport protein Sec23B [KO:K14006]
104693671  SEC24D; protein transport protein Sec24D [KO:K14007]
104697123  SEC24B; protein transport protein Sec24B isoform X1 [KO:K14007]
104697391  SEC24C; protein transport protein Sec24C isoform X1 [KO:K14007]
104683726  SEC24A; protein transport protein Sec24A [KO:K14007]
104693069  UGGT1; UDP-glucose:glycoprotein glucosyltransferase 1 isoform X3 [KO:K11718] [EC:2.4.1.-]
104685968  UGGT2; UDP-glucose:glycoprotein glucosyltransferase 2 isoform X2 [KO:K11718] [EC:2.4.1.-]
104683394  EDEM1; LOW QUALITY PROTEIN: ER degradation-enhancing alpha-mannosidase-like protein 1 [KO:K10084]
104687899  ER degradation-enhancing alpha-mannosidase-like protein 2 [KO:K10085]
104693612  EDEM3; ER degradation-enhancing alpha-mannosidase-like protein 3 isoform X1 [KO:K10086]
104698228  P4HB; protein disulfide-isomerase [KO:K09580] [EC:5.3.4.1]
104688926  PDIA4; protein disulfide-isomerase A4 [KO:K09582] [EC:5.3.4.1]
104685441  PDIA6; protein disulfide-isomerase A6 [KO:K09584] [EC:5.3.4.1]
104688817  ERP29; endoplasmic reticulum resident protein 29 [KO:K09586]
104691381  TXNDC5; thioredoxin domain-containing protein 5 [KO:K13984] [EC:5.3.4.1]
104695934  ERO1A; ERO1-like protein alpha isoform X1 [KO:K10950] [EC:1.8.4.-]
104684440  ERO1B; ERO1-like protein beta [KO:K10976] [EC:1.8.4.-]
104691485  ERLEC1; endoplasmic reticulum lectin 1 [KO:K14008]
104691449  SSR1; translocon-associated protein subunit alpha isoform X1 [KO:K13249]
104688168  SSR3; translocon-associated protein subunit gamma [KO:K13251]
104692823  TRAM1; translocating chain-associated membrane protein 1 [KO:K14010]
104692664  DERL1; derlin-1 [KO:K11519]
104688594  derlin-2 isoform X1 [KO:K13989]
104691123  DERL2; derlin-2 [KO:K13989]
104694074  UBXN4; UBX domain-containing protein 4 [KO:K24348]
104685404  UBXN2A; UBX domain-containing protein 2A [KO:K24349]
104697366  UBXN6; LOW QUALITY PROTEIN: UBX domain-containing protein 6 [KO:K14011]
104687698  NSFL1C; LOW QUALITY PROTEIN: NSFL1 cofactor p47 [KO:K14012]
104697691  small VCP/p97-interacting protein isoform X1 [KO:K14014]
104686563  transitional endoplasmic reticulum ATPase [KO:K13525]
104696017  NPLOC4; nuclear protein localization protein 4 homolog [KO:K14015]
104688611  UFD1; ubiquitin recognition factor in ER-associated degradation protein 1 isoform X2 [KO:K14016]
104692112  HSPA8; heat shock cognate 71 kDa protein [KO:K03283]
104689791  DNAJA1; dnaJ homolog subfamily A member 1 [KO:K09502]
104687443  DNAJA2; dnaJ homolog subfamily A member 2 [KO:K09503]
104693948  DNAJB2; dnaJ homolog subfamily B member 2 isoform X1 [KO:K09508]
104695058  DNAJB12; dnaJ homolog subfamily B member 12 [KO:K09518]
104684503  DNAJC5G; dnaJ homolog subfamily C member 5G [KO:K09525]
104692843  DNAJC5B; dnaJ homolog subfamily C member 5B [KO:K09525]
104687680  DNAJC5; dnaJ homolog subfamily C member 5 [KO:K09525]
104684413  HSP90AB1; heat shock protein HSP 90-beta [KO:K04079]
104686605  HSP90AA1; heat shock protein HSP 90-alpha [KO:K04079]
104693699  HSPA4L; heat shock 70 kDa protein 4L isoform X1 [KO:K09485]
104689906  HSPH1; heat shock protein 105 kDa isoform X1 [KO:K09485]
120409682  BAG1; BAG family molecular chaperone regulator 1 isoform X1 [KO:K09555]
104693321  BAG2; BAG family molecular chaperone regulator 2 [KO:K09556]
104686255  CRYAA; alpha-crystallin A chain [KO:K09541]
104692085  CRYAB; alpha-crystallin B chain [KO:K09542]
104692508  YOD1; ubiquitin thioesterase OTU1 [KO:K13719] [EC:3.1.2.-]
104690489  PLAA; phospholipase A-2-activating protein isoform X1 [KO:K14018]
104693187  RAD23B; UV excision repair protein RAD23 homolog B isoform X1 [KO:K10839]
104692029  UBQLN1; ubiquilin-1 isoform X1 [KO:K04523]
104689052  NGLY1; peptide-N(4)-(N-acetyl-beta- glucosaminyl)asparagine amidase isoform X1 [KO:K01456] [EC:3.5.1.52]
104686083  ATXN3; ataxin-3 [KO:K11863] [EC:3.4.22.-]
104693343  UBE4B; ubiquitin conjugation factor E4 B isoform X1 [KO:K10597] [EC:2.3.2.27]
104690935  EIF2AK3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
104683844  EIF2S1; eukaryotic translation initiation factor 2 subunit 1 [KO:K03237]
104693840  NFE2L2; nuclear factor erythroid 2-related factor 2 [KO:K05638]
104696333  ATF4; cyclic AMP-dependent transcription factor ATF-4 [KO:K04374]
104698161  BCL2; apoptosis regulator Bcl-2 [KO:K02161]
104695431  ATF6; LOW QUALITY PROTEIN: cyclic AMP-dependent transcription factor ATF-6 alpha [KO:K09054]
104690742  WFS1; wolframin [KO:K14020]
104687491  MBTPS1; membrane-bound transcription factor site-1 protease [KO:K08653] [EC:3.4.21.112]
104686191  MBTPS2; membrane-bound transcription factor site-2 protease isoform X1 [KO:K07765] [EC:3.4.24.85]
104688792  XBP1; LOW QUALITY PROTEIN: X-box-binding protein 1 [KO:K09027]
104694246  ERN1; serine/threonine-protein kinase/endoribonuclease IRE1 isoform X6 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
104684731  ERN2; serine/threonine-protein kinase/endoribonuclease IRE2 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
104688205  TRAF2; TNF receptor-associated factor 2 isoform X1 [KO:K03173] [EC:2.3.2.27]
104689448  MAP3K5; mitogen-activated protein kinase kinase kinase 5 [KO:K04426] [EC:2.7.11.25]
104689594  MAPK9; mitogen-activated protein kinase 9 isoform X1 [KO:K04440] [EC:2.7.11.24]
104696634  MAPK8; mitogen-activated protein kinase 8 isoform X1 [KO:K04440] [EC:2.7.11.24]
104697227  MAPK10; mitogen-activated protein kinase 10 isoform X4 [KO:K04440] [EC:2.7.11.24]
104692533  BAK1; bcl-2 homologous antagonist/killer [KO:K14021]
104684409  CAPN11; calpain-11 [KO:K01367] [EC:3.4.22.52]
104685555  CAPN2; calpain-2 catalytic subunit isoform X1 [KO:K03853] [EC:3.4.22.53]
104685883  MARCHF6; E3 ubiquitin-protein ligase MARCHF6 isoform X1 [KO:K10661] [EC:2.3.2.27]
104692311  UBE2J1; ubiquitin-conjugating enzyme E2 J1 isoform X1 [KO:K10578] [EC:2.3.2.23]
104693400  UBE2J2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
104691236  UBE2G1; ubiquitin-conjugating enzyme E2 G1 isoform X1 [KO:K10575] [EC:2.3.2.23]
104696726  UBE2G2; ubiquitin-conjugating enzyme E2 G2 [KO:K04555] [EC:2.3.2.23]
104688552  RNF185; E3 ubiquitin-protein ligase RNF185 [KO:K10666] [EC:2.3.2.27]
104683901  SELENOS; selenoprotein S [KO:K14025]
104685705  SEL1L; protein sel-1 homolog 1 isoform X1 [KO:K14026]
104691884  HERPUD1; homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein [KO:K14027]
104687500  AMFR; E3 ubiquitin-protein ligase AMFR [KO:K10636] [EC:2.3.2.36]
104684657  STUB1; E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
104693523  UBE2D2; ubiquitin-conjugating enzyme E2 D2 [KO:K06689] [EC:2.3.2.23]
104695082  UBE2D1; ubiquitin-conjugating enzyme E2 D1 isoform X1 [KO:K06689] [EC:2.3.2.23]
104697097  UBE2D3; ubiquitin-conjugating enzyme E2 D3 [KO:K06689] [EC:2.3.2.23]
104684351  PRKN; E3 ubiquitin-protein ligase parkin isoform X1 [KO:K04556] [EC:2.3.2.31]
104696532  RBX1; E3 ubiquitin-protein ligase RBX1 [KO:K03868] [EC:2.3.2.32]
104688924  CUL1; cullin-1 isoform X1 [KO:K03347]
104683717  SKP1; S-phase kinase-associated protein 1 [KO:K03094]
104693236  F-box only protein 2 isoform X1 [KO:K10099]
104693238  F-box only protein 44-like [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
ccw00510  N-Glycan biosynthesis
ccw03050  Proteasome
ccw03060  Protein export
ccw04210  Apoptosis
KO pathway
ko04141   
LinkDB

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