KEGG   PATHWAY: oro03008
Entry
oro03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Odobenus rosmarus divergens (Pacific walrus)
Description
Ribosomes are the cellular factories responsible for making proteins. In eukaryotes, ribosome biogenesis involves the production and correct assembly of four rRNAs and about 80 ribosomal proteins. It requires hundreds of factors not present in the mature particle. In the absence of these proteins, ribosome biogenesis is stalled and cell growth is terminated even under optimal growth conditions. The primary pre-rRNA transcript is assembled into the 90S pre-ribosome, which contains both 40S and 60S assembly factors. Within this complex, the pre-rRNA is cleaved. pre-60S ribosomes are subjected to several sequential processing steps in the nucleoplasm involving numerous assembly intermediates before it is exported to the cytoplasm and matured into the 60S ribosomal subunit. The pre-40S ribosome is matured to the small ribosomal subunit in the cytoplasm by cleavage.
Class
Genetic Information Processing; Translation
Pathway map
oro03008  Ribosome biogenesis in eukaryotes
oro03008

Organism
Odobenus rosmarus divergens (Pacific walrus) [GN:oro]
Gene
101371857  CSNK2B; casein kinase II subunit beta isoform X1 [KO:K03115]
101364264  CSNK2A2; casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
101373397  CSNK2A1; casein kinase II subunit alpha isoform X1 [KO:K03097] [EC:2.7.11.1]
101364637  NOL6; nucleolar protein 6 isoform X1 [KO:K14544]
101379300  RRP7A; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
101371448  WDR43; WD repeat-containing protein 43 [KO:K14546]
101373198  CIRH1A; cirhin isoform X2 [KO:K14548]
101385298  UTP15; U3 small nucleolar RNA-associated protein 15 homolog isoform X1 [KO:K14549]
101367120  HEATR1; HEAT repeat-containing protein 1 [KO:K14550]
101373107  WDR75; WD repeat-containing protein 75 [KO:K14552]
101383258  UTP18; U3 small nucleolar RNA-associated protein 18 homolog isoform X2 [KO:K14553]
101369127  WDR36; WD repeat-containing protein 36 [KO:K14554]
101369740  TBL3; transducin beta-like protein 3 [KO:K14555]
101374492  WD repeat-containing protein 3 [KO:K14556]
101377595  UTP6; U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
101362869  PWP2; periodic tryptophan protein 2 homolog [KO:K14558]
101362561  MPHOSPH10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
101375589  IMP3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
101364202  IMP4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
101376727  TCOF1; treacle protein [KO:K14562]
101385030  rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1 [KO:K14563] [EC:2.1.1.-]
101376987  FBL; LOW QUALITY PROTEIN: rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
101380379  NOP56; nucleolar protein 56 isoform X1 [KO:K14564]
101386925  NOP58; nucleolar protein 58 isoform X1 [KO:K14565]
101383074  NHP2L1; NHP2-like protein 1 isoform X1 [KO:K12845]
101386051  DKC1; H/ACA ribonucleoprotein complex subunit 4 isoform X1 [KO:K11131] [EC:5.4.99.-]
101378246  NHP2; H/ACA ribonucleoprotein complex subunit 2 isoform X1 [KO:K11129]
101376557  GAR1; H/ACA ribonucleoprotein complex subunit 1 isoform X1 [KO:K11128]
101385750  NOP10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
101381236  H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
101371186  FCF1; rRNA-processing protein FCF1 homolog isoform X2 [KO:K14566]
101381367  UTP14A; U3 small nucleolar RNA-associated protein 14 homolog A isoform X1 [KO:K14567]
101381114  DROSHA; ribonuclease 3 isoform X1 [KO:K03685] [EC:3.1.26.3]
101375618  EMG1; ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
101367685  BMS1; ribosome biogenesis protein BMS1 homolog isoform X2 [KO:K14569]
101374711  NAT10; N-acetyltransferase 10 [KO:K14521] [EC:2.3.1.-]
101375300  RCL1; RNA 3'-terminal phosphate cyclase-like protein isoform X1 [KO:K11108]
101364799  POP1; ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
101376093  RPP38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
101383380  POP4; ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
101365479  POP5; ribonuclease P/MRP protein subunit POP5 isoform X1 [KO:K03537] [EC:3.1.26.5]
101370649  RPP25L; ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
101379348  RPP25; ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
101379218  POP7; LOW QUALITY PROTEIN: ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
101379537  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
101364459  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
101366904  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
101385328  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
101384777  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
101386130  RPP30; ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
101379110  RPP40; ribonuclease P protein subunit p40 isoform X1 [KO:K14530] [EC:3.1.26.5]
101370383  REXO1; RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
101382696  LOW QUALITY PROTEIN: putative RNA exonuclease NEF-sp [KO:K14570] [EC:3.1.-.-]
101377298  REXO2; oligoribonuclease, mitochondrial [KO:K13288] [EC:3.1.-.-]
101369891  XRN1; 5'-3' exoribonuclease 1 isoform X2 [KO:K12618] [EC:3.1.13.-]
101381649  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
101370476  GTPBP4; nucleolar GTP-binding protein 1 [KO:K06943]
101375081  GNL2; nucleolar GTP-binding protein 2 [KO:K14537]
101365316  GNL3L; guanine nucleotide-binding protein-like 3-like protein isoform X2 [KO:K14538]
101364042  GNL3; guanine nucleotide-binding protein-like 3 [KO:K14538]
101374059  NVL; nuclear valosin-containing protein-like [KO:K14571]
101375383  MDN1; midasin [KO:K14572]
101369407  RBM28; RNA-binding protein 28 [KO:K14573]
101368670  NOB1; RNA-binding protein NOB1 [KO:K11883]
101372654  RAN; GTP-binding nuclear protein Ran [KO:K07936]
101386485  LOW QUALITY PROTEIN: GTP-binding nuclear protein Ran-like [KO:K07936]
101376604  GTP-binding nuclear protein Ran [KO:K07936]
101380184  XPO1; exportin-1 [KO:K14290]
101362242  NMD3; 60S ribosomal export protein NMD3 [KO:K07562]
101378805  NXF1; nuclear RNA export factor 1 [KO:K14284]
101365073  uncharacterized protein LOC101365073 [KO:K14284]
101385673  NXF3; nuclear RNA export factor 3 [KO:K14284]
101364769  nuclear RNA export factor 2-like [KO:K14284]
101383968  NXT1; NTF2-related export protein 1 [KO:K14285]
101371188  NXT2; NTF2-related export protein 2 isoform X2 [KO:K14285]
101377543  EIF6; eukaryotic translation initiation factor 6 isoform X1 [KO:K03264]
101362343  SBDS; ribosome maturation protein SBDS [KO:K14574]
101382017  EFTUD1; elongation factor Tu GTP-binding domain-containing protein 1 isoform X1 [KO:K14536] [EC:3.6.5.-]
101386527  LSG1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
101384428  SPATA5; spermatogenesis-associated protein 5 [KO:K14575]
102314694  AK6; adenylate kinase isoenzyme 6 [KO:K18532] [EC:2.7.4.3]
101374608  adenylate kinase isoenzyme 6-like [KO:K18532] [EC:2.7.4.3]
101368437  RIOK1; serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
101373367  RIOK2; serine/threonine-protein kinase RIO2 isoform X2 [KO:K07179] [EC:2.7.11.1]
Reference
  Authors
Freed EF, Bleichert F, Dutca LM, Baserga SJ
  Title
When ribosomes go bad: diseases of ribosome biogenesis.
  Journal
Mol Biosyst 6:481-93 (2010)
DOI:10.1039/b919670f
Reference
  Authors
Perez-Fernandez J, Roman A, De Las Rivas J, Bustelo XR, Dosil M
  Title
The 90S preribosome is a multimodular structure that is assembled through a hierarchical mechanism.
  Journal
Mol Cell Biol 27:5414-29 (2007)
DOI:10.1128/MCB.00380-07
Reference
  Authors
Strunk BS, Karbstein K
  Title
Powering through ribosome assembly.
  Journal
RNA 15:2083-104 (2009)
DOI:10.1261/rna.1792109
Reference
  Authors
Granneman S, Baserga SJ
  Title
Ribosome biogenesis: of knobs and RNA processing.
  Journal
Exp Cell Res 296:43-50 (2004)
DOI:10.1016/j.yexcr.2004.03.016
Reference
  Authors
Kressler D, Hurt E, Bassler J
  Title
Driving ribosome assembly.
  Journal
Biochim Biophys Acta 1803:673-83 (2010)
DOI:10.1016/j.bbamcr.2009.10.009
Related
pathway
oro03010  Ribosome
KO pathway
ko03008   
LinkDB

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