KEGG   PATHWAY: stow03008
Entry
stow03008                   Pathway                                
Name
Ribosome biogenesis in eukaryotes - Sphaerodactylus townsendi (Townsend's least gecko)
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
stow03008  Ribosome biogenesis in eukaryotes
stow03008

Organism
Sphaerodactylus townsendi (Townsend's least gecko) [GN:stow]
Gene
125425515  casein kinase II subunit beta isoform X1 [KO:K03115]
125425598  casein kinase II subunit beta [KO:K03115]
125425106  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
125443281  CSNK2A2; casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
125432981  CSNK2A1; casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
125437247  NOL6; nucleolar protein 6 [KO:K14544]
125434990  RRP7A; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
125441602  WDR43; WD repeat-containing protein 43 [KO:K14546]
125443542  UTP4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
125437305  UTP15; U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
125437521  HEATR1; HEAT repeat-containing protein 1 [KO:K14550]
125427437  WDR75; WD repeat-containing protein 75 isoform X1 [KO:K14552]
125428193  UTP18; U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
125436470  WDR36; WD repeat-containing protein 36 isoform X1 [KO:K14554]
125432041  TBL3; transducin beta-like protein 3 [KO:K14555]
125425239  WDR3; LOW QUALITY PROTEIN: WD repeat-containing protein 3 [KO:K14556]
125431800  PWP2; periodic tryptophan protein 2 homolog [KO:K14558]
125424730  MPHOSPH10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
125445151  IMP3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
125429762  IMP4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
125428167  TCOF1; treacle protein [KO:K14562]
125434389  rRNA 2'-O-methyltransferase fibrillarin-like [KO:K14563] [EC:2.1.1.-]
125440289  NOP56; nucleolar protein 56 [KO:K14564]
125427274  NOP58; LOW QUALITY PROTEIN: nucleolar protein 58 [KO:K14565]
125434403  SNU13; NHP2-like protein 1 [KO:K12845]
125442591  DKC1; H/ACA ribonucleoprotein complex subunit DKC1 [KO:K11131] [EC:5.4.99.-]
125429209  NHP2; H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
125439567  GAR1; H/ACA ribonucleoprotein complex subunit 1 isoform X1 [KO:K11128]
125444947  H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
125445244  H/ACA ribonucleoprotein complex subunit 3-like [KO:K11130]
125426535  FCF1; rRNA-processing protein FCF1 homolog [KO:K14566]
125442981  UTP14A; U3 small nucleolar RNA-associated protein 14 homolog A [KO:K14567]
125439399  DROSHA; ribonuclease 3 [KO:K03685] [EC:3.1.26.3]
125436266  EMG1; ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
125438324  BMS1; ribosome biogenesis protein BMS1 homolog [KO:K14569]
125425727  NAT10; RNA cytidine acetyltransferase isoform X1 [KO:K14521] [EC:2.3.1.-]
125436877  RCL1; RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
125438839  POP1; ribonucleases P/MRP protein subunit POP1 isoform X1 [KO:K01164] [EC:3.1.26.5]
125440822  RPP38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
125443894  POP4; ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
125442871  POP5; ribonuclease P/MRP protein subunit POP5 isoform X1 [KO:K03537] [EC:3.1.26.5]
125436037  RPP25L; ribonuclease P protein subunit p25-like protein isoform X1 [KO:K14525] [EC:3.1.26.5]
125436131  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
125444521  POP7; ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
125438326  RPP30; ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
125438702  RPP40; ribonuclease P protein subunit p40 isoform X1 [KO:K14530] [EC:3.1.26.5]
125430468  REXO5; LOW QUALITY PROTEIN: RNA exonuclease 5 [KO:K14570] [EC:3.1.-.-]
125437016  RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
125432526  REXO1; RNA exonuclease 1 homolog isoform X1 [KO:K14570] [EC:3.1.-.-]
125441862  REXO2; LOW QUALITY PROTEIN: oligoribonuclease, mitochondrial [KO:K13288] [EC:3.1.-.-]
125437698  5'-3' exoribonuclease 1-like [KO:K12618] [EC:3.1.13.-]
125443413  XRN2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
125441093  GTPBP4; GTP-binding protein 4 [KO:K06943]
125435903  GNL2; nucleolar GTP-binding protein 2 [KO:K14537]
125428209  GNL3; guanine nucleotide-binding protein-like 3 [KO:K14538]
125437263  NVL; nuclear valosin-containing protein-like isoform X1 [KO:K14571]
125431512  MDN1; midasin isoform X1 [KO:K14572]
125434586  RBM28; RNA-binding protein 28 [KO:K14573]
125443579  NOB1; RNA-binding protein NOB1 isoform X1 [KO:K11883]
125442846  RAN; GTP-binding nuclear protein Ran isoform X1 [KO:K07936]
125444913  XPO1; exportin-1 [KO:K14290]
125437964  NMD3; 60S ribosomal export protein NMD3 [KO:K07562]
125441674  NXF1; nuclear RNA export factor 1 [KO:K14284]
125443108  NXT2; NTF2-related export protein 2 [KO:K14285]
125432773  EIF6; eukaryotic translation initiation factor 6 [KO:K03264]
125445751  SBDS; ribosome maturation protein SBDS [KO:K14574]
125424715  EFL1; elongation factor-like GTPase 1 isoform X1 [KO:K14536] [EC:3.6.5.-]
125437665  LSG1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
125440149  SPATA5; ATPase family protein 2 homolog isoform X1 [KO:K14575]
125436974  AK6; adenylate kinase isoenzyme 6 [KO:K18532] [EC:2.7.4.3]
125439340  serine/threonine-protein kinase RIO1-like [KO:K07178] [EC:2.7.11.1]
125436329  RIOK2; serine/threonine-protein kinase RIO2 isoform X1 [KO:K07179] [EC:2.7.11.1]
125435964  5.8S ribosomal RNA [KO:K01986]
125435962  5S ribosomal RNA [KO:K01981]
125446098  small nucleolar RNA U3 [KO:K14483]
125446100  small nucleolar RNA U3 [KO:K14483]
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
stow03010  Ribosome
KO pathway
ko03008   
LinkDB

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