KEGG   PATHWAY: zca03008
Entry
zca03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Zalophus californianus (California sea lion)
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
zca03008  Ribosome biogenesis in eukaryotes
zca03008

Organism
Zalophus californianus (California sea lion) [GN:zca]
Gene
113908406  [KO:K14483]
113908407  [KO:K14483]
113908408  [KO:K14483]
113908409  [KO:K14483]
113908495  [KO:K14527] [EC:3.1.26.5]
113909089  FCF1; rRNA-processing protein FCF1 homolog isoform X1 [KO:K14566]
113909628  MPHOSPH10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
113909691  NOP10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
113909857  IMP3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
113909934  EFL1; elongation factor-like GTPase 1 isoform X1 [KO:K14536] [EC:3.6.5.-]
113910121  RPP25; ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
113910582  [KO:K01981]
113911050  RBM28; RNA-binding protein 28 isoform X2 [KO:K14573]
113911162  [KO:K03539] [EC:3.1.26.5]
113911603  [KO:K11130]
113912119  [KO:K14483]
113912209  [KO:K14527] [EC:3.1.26.5]
113912684  POP5; ribonuclease P/MRP protein subunit POP5 isoform X1 [KO:K03537] [EC:3.1.26.5]
113912829  [KO:K18532] [EC:2.7.4.3]
113913050  RAN; GTP-binding nuclear protein Ran isoform X1 [KO:K07936]
113913784  [KO:K11130]
113913944  NXF1; nuclear RNA export factor 1 isoform X1 [KO:K14284]
113914254  REXO2; oligoribonuclease, mitochondrial isoform X1 [KO:K13288] [EC:3.1.-.-]
113914405  [KO:K14566]
113915430  NAT10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
113915740  [KO:K14566]
113916235  REXO1; RNA exonuclease 1 homolog isoform X1 [KO:K14570] [EC:3.1.-.-]
113916314  GNL3; guanine nucleotide-binding protein-like 3 isoform X1 [KO:K14538]
113916586  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
113916838  PWP2; periodic tryptophan protein 2 homolog isoform X1 [KO:K14558]
113917792  LSG1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
113917995  [KO:K12845]
113918341  NMD3; 60S ribosomal export protein NMD3 [KO:K07562]
113918970  [KO:K01981]
113919154  [KO:K14483]
113919679  [KO:K07179] [EC:2.7.11.1]
113919725  BMS1; ribosome biogenesis protein BMS1 homolog [KO:K14569]
113919796  IMP4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
113920030  NOP58; nucleolar protein 58 isoform X1 [KO:K14565]
113920739  WDR75; WD repeat-containing protein 75 isoform X1 [KO:K14552]
113921243  [KO:K14483]
113921244  [KO:K14483]
113921262  RRP7A; ribosomal RNA-processing protein 7 homolog A isoform X1 [KO:K14545]
113921930  GTPBP4; nucleolar GTP-binding protein 1 [KO:K06943]
113921942  RPP38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
113922156  EMG1; LOW QUALITY PROTEIN: ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
113922316  [KO:K07936]
113923090  SNU13; NHP2-like protein 1 isoform X1 [KO:K12845]
113923316  [KO:K14483]
113923710  HEATR1; HEAT repeat-containing protein 1 isoform X1 [KO:K14550]
113923892  RPP30; ribonuclease P protein subunit p30 isoform X1 [KO:K03539] [EC:3.1.26.5]
113923948  [KO:K01981]
113924006  [KO:K14483]
113924301  GAR1; H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
113924917  SPATA5; ATPase family protein 2 homolog isoform X1 [KO:K14575]
113925460  [KO:K03115]
113925496  [KO:K06943]
113925634  [KO:K07936]
113926206  RPP40; ribonuclease P protein subunit p40 [KO:K14530] [EC:3.1.26.5]
113926393  WDR3; WD repeat-containing protein 3 [KO:K14556]
113926565  MDN1; midasin [KO:K14572]
113927089  RIOK1; serine/threonine-protein kinase RIO1 isoform X1 [KO:K07178] [EC:2.7.11.1]
113927342  [KO:K03115]
113927593  [KO:K14530] [EC:3.1.26.5]
113927749  CSNK2B; casein kinase II subunit beta isoform X1 [KO:K03115]
113927865  [KO:K12845]
113928517  WDR36; WD repeat-containing protein 36 isoform X1 [KO:K14554]
113928967  RIOK2; serine/threonine-protein kinase RIO2 isoform X1 [KO:K07179] [EC:2.7.11.1]
113929025  [KO:K03097] [EC:2.7.11.1]
113929038  DROSHA; ribonuclease 3 isoform X1 [KO:K03685] [EC:3.1.26.3]
113929070  [KO:K14561]
113929074  AK6; adenylate kinase isoenzyme 6 isoform X1 [KO:K18532] [EC:2.7.4.3]
113929278  FBLL1; rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1 [KO:K14563] [EC:2.1.1.-]
113929605  NHP2; H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
113929692  UTP15; U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
113929750  TCOF1; treacle protein isoform X1 [KO:K14562]
113930239  [KO:K14284]
113930951  [KO:K14284]
113930978  [KO:K14284]
113931153  DKC1; H/ACA ribonucleoprotein complex subunit DKC1 [KO:K11131] [EC:5.4.99.-]
113931354  UTP14A; U3 small nucleolar RNA-associated protein 14 homolog A [KO:K14567]
113931495  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
113931545  [KO:K14538]
113931701  [KO:K14483]
113932365  POP7; ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
113932765  REXO5; RNA exonuclease 5 isoform X1 [KO:K14570] [EC:3.1.-.-]
113932824  [KO:K03115]
113933260  NVL; nuclear valosin-containing protein-like isoform X1 [KO:K14571]
113933367  SBDS; ribosome maturation protein SBDS [KO:K14574]
113933576  TBL3; transducin beta-like protein 3 isoform X1 [KO:K14555]
113934475  RPP25L; ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
113934594  POP1; ribonucleases P/MRP protein subunit POP1 isoform X1 [KO:K01164] [EC:3.1.26.5]
113934918  RCL1; RNA 3'-terminal phosphate cyclase-like protein isoform X1 [KO:K11108]
113935090  NOL6; nucleolar protein 6 isoform X1 [KO:K14544]
113935212  [KO:K14483]
113935214  [KO:K14483]
113935275  [KO:K14483]
113935873  [KO:K14574]
113935919  FBL; rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
113935942  CSNK2A2; casein kinase II subunit alpha' isoform X1 [KO:K03097] [EC:2.7.11.1]
113935980  UTP4; LOW QUALITY PROTEIN: U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
113936374  POP4; ribonuclease P protein subunit p29 isoform X1 [KO:K03538] [EC:3.1.26.5]
113936514  GNL2; nucleolar GTP-binding protein 2 isoform X1 [KO:K14537]
113936579  NOB1; RNA-binding protein NOB1 isoform X1 [KO:K11883]
113937056  CSNK2A1; LOW QUALITY PROTEIN: casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
113937390  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
113937577  NXT1; NTF2-related export protein 1 [KO:K14285]
113937600  WDR43; WD repeat-containing protein 43 [KO:K14546]
113937609  NOP56; nucleolar protein 56 [KO:K14564]
113937668  XPO1; exportin-1 [KO:K14290]
113938115  EIF6; eukaryotic translation initiation factor 6 isoform X1 [KO:K03264]
113938947  [KO:K14527] [EC:3.1.26.5]
113939207  UTP18; U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
113939795  UTP6; U3 small nucleolar RNA-associated protein 6 homolog isoform X1 [KO:K14557]
118356189  [KO:K14527] [EC:3.1.26.5]
118356527  [KO:K18532] [EC:2.7.4.3]
118356537  [KO:K14284]
118356578  [KO:K11130]
118357187  [KO:K14563] [EC:2.1.1.-]
118357206  [KO:K14566]
118357212  [KO:K18532] [EC:2.7.4.3]
118357349  [KO:K14527] [EC:3.1.26.5]
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
zca03010  Ribosome
KO pathway
ko03008   

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