KEGG   PATHWAY: pss03008
Entry
pss03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Pelodiscus sinensis (Chinese soft-shelled turtle)
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
pss03008  Ribosome biogenesis in eukaryotes
pss03008

Organism
Pelodiscus sinensis (Chinese soft-shelled turtle) [GN:pss]
Gene
102456336  CSNK2B; LOW QUALITY PROTEIN: casein kinase II subunit beta [KO:K03115]
102460464  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
102448017  CSNK2A2; casein kinase II subunit alpha' isoform X1 [KO:K03097] [EC:2.7.11.1]
102449508  CSNK2A1; casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
102451186  NOL6; LOW QUALITY PROTEIN: nucleolar protein 6 [KO:K14544]
102446116  RRP7A; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
102463711  WDR43; WD repeat-containing protein 43 [KO:K14546]
102456872  UTP4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
102462356  UTP15; U3 small nucleolar RNA-associated protein 15 homolog isoform X1 [KO:K14549]
102443816  HEATR1; HEAT repeat-containing protein 1 [KO:K14550]
102451473  WDR75; LOW QUALITY PROTEIN: WD repeat-containing protein 75 [KO:K14552]
102454383  UTP18; U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
102460634  WDR36; WD repeat-containing protein 36 [KO:K14554]
102455161  TBL3; LOW QUALITY PROTEIN: transducin beta-like protein 3 [KO:K14555]
102449877  WDR3; WD repeat-containing protein 3 [KO:K14556]
102461482  UTP6; U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
102456688  PWP2; periodic tryptophan protein 2 homolog [KO:K14558]
102446419  MPHOSPH10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
102461543  IMP3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
102462406  TCOF1; LOW QUALITY PROTEIN: treacle protein [KO:K14562]
102445008  FBL; rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
102447717  NOP56; nucleolar protein 56 [KO:K14564]
102457898  NOP58; nucleolar protein 58 [KO:K14565]
102445152  SNU13; NHP2-like protein 1 [KO:K12845]
102453939  DKC1; H/ACA ribonucleoprotein complex subunit 4 [KO:K11131] [EC:5.4.99.-]
112545543  NHP2; H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
102454045  GAR1; H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
102455742  NOP10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
102450144  FCF1; rRNA-processing protein FCF1 homolog [KO:K14566]
102443791  DROSHA; LOW QUALITY PROTEIN: ribonuclease 3 [KO:K03685] [EC:3.1.26.3]
102450259  EMG1; ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
102459363  BMS1; ribosome biogenesis protein BMS1 homolog isoform X1 [KO:K14569]
102459159  NAT10; LOW QUALITY PROTEIN: RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
102458422  RCL1; RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
102444222  POP1; LOW QUALITY PROTEIN: ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
102462103  RPP38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
102450082  POP4; ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
102460888  POP5; ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
102446927  RPP25L; ribonuclease P protein subunit p25-like protein isoform X1 [KO:K14525] [EC:3.1.26.5]
102454063  RPP25; ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
102459839  POP7; ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
102462830  RPP30; ribonuclease P protein subunit p30 isoform X1 [KO:K03539] [EC:3.1.26.5]
102460013  RPP40; ribonuclease P protein subunit p40 [KO:K14530] [EC:3.1.26.5]
102459008  RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
102444921  REXO5; RNA exonuclease 5 isoform X1 [KO:K14570] [EC:3.1.-.-]
102459493  REXO1; RNA exonuclease 1 homolog isoform X1 [KO:K14570] [EC:3.1.-.-]
102449521  REXO2; oligoribonuclease, mitochondrial isoform X1 [KO:K13288] [EC:3.1.-.-]
102459789  XRN1; 5'-3' exoribonuclease 1 isoform X2 [KO:K12618] [EC:3.1.13.-]
102452295  XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
102458867  GTPBP4; LOW QUALITY PROTEIN: nucleolar GTP-binding protein 1 [KO:K06943]
102459188  GNL2; nucleolar GTP-binding protein 2 [KO:K14537]
102455569  GNL3; guanine nucleotide-binding protein-like 3 [KO:K14538]
102457480  NVL; nuclear valosin-containing protein-like [KO:K14571]
102463272  MDN1; midasin [KO:K14572]
102457871  NOB1; RNA-binding protein NOB1 [KO:K11883]
102448079  RAN; GTP-binding nuclear protein Ran [KO:K07936]
102446816  GTP-binding nuclear protein Ran isoform X1 [KO:K07936]
102460823  XPO1; exportin-1 [KO:K14290]
102454301  NMD3; 60S ribosomal export protein NMD3 [KO:K07562]
102446109  NXF1; nuclear RNA export factor 1 [KO:K14284]
102457586  NXT2; NTF2-related export protein 2 isoform X1 [KO:K14285]
102446002  EIF6; eukaryotic translation initiation factor 6 [KO:K03264]
102456999  SBDS; ribosome maturation protein SBDS [KO:K14574]
102449427  EFL1; elongation factor-like GTPase 1 isoform X1 [KO:K14536] [EC:3.6.5.-]
102456553  LSG1; LOW QUALITY PROTEIN: large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
102445077  SPATA5; spermatogenesis-associated protein 5 [KO:K14575]
102448180  AK6; adenylate kinase isoenzyme 6 isoform X2 [KO:K18532] [EC:2.7.4.3]
102449354  RIOK1; serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
102450895  RIOK2; serine/threonine-protein kinase RIO2 [KO:K07179] [EC:2.7.11.1]
112544450  5.8S ribosomal RNA [KO:K01986]
112545257  5S ribosomal RNA [KO:K01981]
112545875  small nucleolar RNA U3 [KO:K14483]
112543977  small nucleolar RNA U3 [KO:K14483]
112543976  small nucleolar RNA U3 [KO:K14483]
112543978  small nucleolar RNA U3 [KO:K14483]
112546288  small nucleolar RNA U3 [KO:K14483]
112544140  small nucleolar RNA U3 [KO:K14483]
112545431  small nucleolar RNA U3 [KO:K14483]
112544844  small nucleolar RNA U3 [KO:K14483]
112543648  small nucleolar RNA U3 [KO:K14483]
112544963  small nucleolar RNA U3 [KO:K14483]
112543979  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
pss03010  Ribosome
KO pathway
ko03008   
LinkDB

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