KEGG   PATHWAY: avit04141
Entry
avit04141                   Pathway                                
Name
Protein processing in endoplasmic reticulum - Apaloderma vittatum (bar-tailed trogon)
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
avit04141  Protein processing in endoplasmic reticulum
avit04141

Other DBs
GO: 0030433 0034976
Organism
Apaloderma vittatum (bar-tailed trogon) [GN:avit]
Gene
104277792  SEC61A1; protein transport protein Sec61 subunit alpha isoform 1 [KO:K10956]
104274403  SEC61A2; protein transport protein Sec61 subunit alpha isoform 2 [KO:K10956]
104269617  SEC61B; protein transport protein Sec61 subunit beta [KO:K09481]
104276528  SEC61G; protein transport protein Sec61 subunit gamma [KO:K07342]
104268473  SEC62; translocation protein SEC62 [KO:K12275]
104274974  SEC63; translocation protein SEC63 homolog [KO:K09540]
104270019  RPN1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 [KO:K12666]
104279318  RPN2; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 [KO:K12667]
104277094  DAD1; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1 [KO:K12668]
104277791  DDOST; dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kDa subunit [KO:K12670]
104272634  STT3A; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A [KO:K07151] [EC:2.4.99.18]
104272724  STT3B; dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3B [KO:K07151] [EC:2.4.99.18]
104268681  tumor suppressor candidate 3-like [KO:K19478]
104271209  MAGT1; magnesium transporter protein 1 [KO:K19478]
104269262  OSTC; oligosaccharyltransferase complex subunit OSTC [KO:K26501]
104269470  CKAP4; cytoskeleton-associated protein 4 [KO:K13999]
104275852  RRBP1; LOW QUALITY PROTEIN: ribosome-binding protein 1 [KO:K14000]
104276659  SIL1; nucleotide exchange factor SIL1 [KO:K14001]
104267191  LOW QUALITY PROTEIN: hypoxia up-regulated protein 1-like [KO:K09486]
104268306  HSPA5; 78 kDa glucose-regulated protein [KO:K09490] [EC:3.6.4.10]
104276156  DNAJB11; dnaJ homolog subfamily B member 11 [KO:K09517]
104280061  DNAJC1; dnaJ homolog subfamily C member 1 [KO:K09521]
104268665  DNAJC3; dnaJ homolog subfamily C member 3 [KO:K09523]
104279406  DNAJC10; dnaJ homolog subfamily C member 10 [KO:K09530] [EC:1.8.4.-]
104268274  HSP90B1; endoplasmin [KO:K09487]
104269974  CANX; LOW QUALITY PROTEIN: calnexin [KO:K08054]
104270343  PDIA3; protein disulfide-isomerase A3 [KO:K08056] [EC:5.3.4.1]
104280472  mannosyl-oligosaccharide 1,2-alpha-mannosidase IA-like [KO:K01230] [EC:3.2.1.113]
104277310  MAN1C1; mannosyl-oligosaccharide 1,2-alpha-mannosidase IC [KO:K01230] [EC:3.2.1.113]
104271161  MAN1B1; endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase [KO:K23741] [EC:3.2.1.209]
104268888  LMAN2; vesicular integral-membrane protein VIP36 [KO:K10082]
104276507  LMAN1; protein ERGIC-53 [KO:K10080]
104271015  GTP-binding protein SAR1a-like [KO:K07953] [EC:3.6.5.-]
104280762  SAR1B; GTP-binding protein SAR1b [KO:K07953] [EC:3.6.5.-]
104278795  SEC13; protein SEC13 homolog [KO:K14004]
104267877  SEC31B; protein transport protein Sec31B isoform X1 [KO:K14005]
104268029  protein transport protein Sec31A-like [KO:K14005]
104280393  SEC23A; protein transport protein Sec23A [KO:K14006]
104273894  SEC23B; LOW QUALITY PROTEIN: protein transport protein Sec23B [KO:K14006]
104267117  SEC24D; protein transport protein Sec24D [KO:K14007]
104272545  SEC24A; protein transport protein Sec24A [KO:K14007]
104268936  SEC24C; protein transport protein Sec24C isoform X1 [KO:K14007]
104267829  SEC24B; protein transport protein Sec24B [KO:K14007]
104270510  UGGT1; UDP-glucose:glycoprotein glucosyltransferase 1 [KO:K11718] [EC:2.4.1.-]
104271831  EDEM1; ER degradation-enhancing alpha-mannosidase-like protein 1 [KO:K10084]
104273714  EDEM2; ER degradation-enhancing alpha-mannosidase-like protein 2 [KO:K10085]
104276994  EDEM3; ER degradation-enhancing alpha-mannosidase-like protein 3 [KO:K10086]
104277322  P4HB; protein disulfide-isomerase [KO:K09580] [EC:5.3.4.1]
104273191  PDIA4; protein disulfide-isomerase A4 [KO:K09582] [EC:5.3.4.1]
104279391  PDIA6; protein disulfide-isomerase A6 [KO:K09584] [EC:5.3.4.1]
104269200  ERP29; endoplasmic reticulum resident protein 29 [KO:K09586]
104267319  TXNDC5; thioredoxin domain-containing protein 5 [KO:K13984] [EC:5.3.4.1]
104278934  ERO1L; ERO1-like protein alpha [KO:K10950] [EC:1.8.4.-]
104280359  ERO1LB; ERO1-like protein beta [KO:K10976] [EC:1.8.4.-]
104274927  ERLEC1; endoplasmic reticulum lectin 1 [KO:K14008]
104269011  SSR1; translocon-associated protein subunit alpha [KO:K13249]
104274169  SSR2; translocon-associated protein subunit beta [KO:K13250]
104267370  SSR3; translocon-associated protein subunit gamma [KO:K13251]
104272672  LOW QUALITY PROTEIN: translocating chain-associated membrane protein 1-like [KO:K14010]
104268540  TRAM1; translocating chain-associated membrane protein 1 [KO:K14010]
104270946  DERL1; derlin-1 [KO:K11519]
104268612  DERL2; derlin-2 [KO:K13989]
104278395  derlin-2-like [KO:K13989]
104277494  UBXN4; UBX domain-containing protein 4 [KO:K24348]
104267728  UBXN2A; UBX domain-containing protein 2A [KO:K24349]
104268270  UBXN6; UBX domain-containing protein 6 [KO:K14011]
104278507  NSFL1C; LOW QUALITY PROTEIN: NSFL1 cofactor p47 [KO:K14012]
104276311  SVIP; small VCP/p97-interacting protein [KO:K14014]
104280516  VCP; transitional endoplasmic reticulum ATPase [KO:K13525]
104270680  nuclear protein localization protein 4 homolog [KO:K14015]
104267795  UFD1L; ubiquitin fusion degradation protein 1 homolog [KO:K14016]
104274203  HSPA8; heat shock cognate 71 kDa protein isoform X1 [KO:K03283]
104268396  DNAJA1; dnaJ homolog subfamily A member 1 [KO:K09502]
104270352  DNAJA2; LOW QUALITY PROTEIN: dnaJ homolog subfamily A member 2 [KO:K09503]
104281257  DNAJB12; dnaJ homolog subfamily B member 12 [KO:K09518]
104280820  dnaJ homolog subfamily C member 5 [KO:K09525]
104273443  cysteine string protein-like [KO:K09525]
104272003  HSP90AB1; heat shock protein HSP 90-beta isoform X1 [KO:K04079]
104273780  HSP90AA1; heat shock protein HSP 90-alpha [KO:K04079]
104279495  HSPH1; heat shock protein 105 kDa isoform X1 [KO:K09485]
104281301  HSPA4L; heat shock 70 kDa protein 4L isoform X1 [KO:K09485]
104268754  BAG1; BAG family molecular chaperone regulator 1 [KO:K09555]
104276240  BAG2; LOW QUALITY PROTEIN: BAG family molecular chaperone regulator 2 [KO:K09556]
104271597  alpha-crystallin A chain [KO:K09541]
104274430  CRYAB; alpha-crystallin B chain [KO:K09542]
104270742  YOD1; ubiquitin thioesterase OTU1 [KO:K13719] [EC:3.1.2.-]
104267439  PLAA; phospholipase A-2-activating protein [KO:K14018]
104268055  RAD23B; UV excision repair protein RAD23 homolog B [KO:K10839]
104270195  UBQLN1; ubiquilin-1 [KO:K04523]
104280514  UBQLN4; LOW QUALITY PROTEIN: ubiquilin-4 [KO:K04523]
104279398  NGLY1; peptide-N(4)-(N-acetyl-beta- glucosaminyl)asparagine amidase [KO:K01456] [EC:3.5.1.52]
104279552  ATXN3; ataxin-3 isoform X1 [KO:K11863] [EC:3.4.22.-]
104267992  UBE4B; ubiquitin conjugation factor E4 B [KO:K10597] [EC:2.3.2.27]
104277583  EIF2AK3; eukaryotic translation initiation factor 2-alpha kinase 3 [KO:K08860] [EC:2.7.11.1]
104268455  EIF2S1; eukaryotic translation initiation factor 2 subunit 1 [KO:K03237]
104277748  NFE2L2; LOW QUALITY PROTEIN: nuclear factor erythroid 2-related factor 2 [KO:K05638]
104269231  ATF4; cyclic AMP-dependent transcription factor ATF-4 [KO:K04374]
104280722  WFS1; wolframin [KO:K14020]
104271458  MBTPS1; membrane-bound transcription factor site-1 protease [KO:K08653] [EC:3.4.21.112]
104277965  MBTPS2; membrane-bound transcription factor site-2 protease [KO:K07765] [EC:3.4.24.85]
104279634  ERN1; serine/threonine-protein kinase/endoribonuclease IRE1 [KO:K08852] [EC:2.7.11.1 3.1.26.-]
104271225  TRAF2; TNF receptor-associated factor 2 [KO:K03173] [EC:2.3.2.27]
104270448  MAP3K5; mitogen-activated protein kinase kinase kinase 5 [KO:K04426] [EC:2.7.11.25]
104270528  MAPK8; mitogen-activated protein kinase 8 [KO:K04440] [EC:2.7.11.24]
104273048  MAPK9; mitogen-activated protein kinase 9 isoform X1 [KO:K04440] [EC:2.7.11.24]
104276958  MAPK10; mitogen-activated protein kinase 10 isoform X1 [KO:K04440] [EC:2.7.11.24]
104275210  BAK1; bcl-2 homologous antagonist/killer [KO:K14021]
104272733  CAPN1; calpain-1 catalytic subunit [KO:K01367] [EC:3.4.22.52]
104268653  calpain-2 catalytic subunit [KO:K03853] [EC:3.4.22.53]
104267162  MARCH6; E3 ubiquitin-protein ligase MARCH6 [KO:K10661] [EC:2.3.2.27]
104279081  UBE2J1; ubiquitin-conjugating enzyme E2 J1 [KO:K10578] [EC:2.3.2.23]
104279116  UBE2J2; ubiquitin-conjugating enzyme E2 J2 [KO:K04554] [EC:2.3.2.23]
104269334  UBE2G1; ubiquitin-conjugating enzyme E2 G1 [KO:K10575] [EC:2.3.2.23]
104281438  UBE2G2; LOW QUALITY PROTEIN: ubiquitin-conjugating enzyme E2 G2 [KO:K04555] [EC:2.3.2.23]
104279569  RNF185; E3 ubiquitin-protein ligase RNF185 isoform X1 [KO:K10666] [EC:2.3.2.27]
104276693  VIMP; selenoprotein S [KO:K14025]
104268033  SEL1L; protein sel-1 homolog 1 [KO:K14026]
104272820  HERPUD1; homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain member 1 protein [KO:K14027]
104276709  LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase AMFR-like [KO:K10636] [EC:2.3.2.36]
104278364  STUB1; LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase CHIP [KO:K09561] [EC:2.3.2.27]
104278744  ubiquitin-conjugating enzyme E2 D2 [KO:K06689] [EC:2.3.2.23]
104281102  ubiquitin-conjugating enzyme E2 D1-like [KO:K06689] [EC:2.3.2.23]
104277767  ubiquitin-conjugating enzyme E2 D3-like [KO:K06689] [EC:2.3.2.23]
104277174  PARK2; E3 ubiquitin-protein ligase parkin [KO:K04556] [EC:2.3.2.31]
104278793  CUL1; cullin-1 [KO:K03347]
104269132  SKP1; S-phase kinase-associated protein 1 [KO:K03094]
104276936  LOW QUALITY PROTEIN: F-box only protein 2-like [KO:K10099]
104272608  FBXO6; F-box only protein 6 [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
avit00510  N-Glycan biosynthesis
avit03050  Proteasome
avit03060  Protein export
avit04210  Apoptosis
KO pathway
ko04141   
LinkDB

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