KEGG   PATHWAY: pgeo03008
Entry
pgeo03008                   Pathway                                
Name
Ribosome biogenesis in eukaryotes - Pseudochaenichthys georgianus (South Georgia icefish)
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
pgeo03008  Ribosome biogenesis in eukaryotes
pgeo03008

Organism
Pseudochaenichthys georgianus (South Georgia icefish) [GN:pgeo]
Gene
117460464  casein kinase II subunit beta [KO:K03115]
117455106  csnk2b; casein kinase II subunit beta [KO:K03115]
117460900  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
117463605  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
117448568  csnk2a2b; casein kinase II subunit alpha' isoform X1 [KO:K03097] [EC:2.7.11.1]
117446699  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
117452061  nol6; nucleolar protein 6 [KO:K14544]
117451261  rrp7a; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
117442664  wdr43; WD repeat-containing protein 43 [KO:K14546]
117448100  utp4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
117452272  utp15; U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
117443721  heatr1; HEAT repeat-containing protein 1 isoform X1 [KO:K14550]
117466664  wdr75; WD repeat-containing protein 75 [KO:K14552]
117444856  utp18; LOW QUALITY PROTEIN: U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
117441031  wdr36; WD repeat-containing protein 36 [KO:K14554]
117450865  tbl3; LOW QUALITY PROTEIN: transducin beta-like protein 3 [KO:K14555]
117467036  wdr3; WD repeat-containing protein 3 [KO:K14556]
117446503  utp6; U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
117461380  pwp2h; PWP2 small subunit processome component [KO:K14558]
117466784  mphosph10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
117463033  imp3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
117452487  imp4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
117461102  fbl; rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
117446451  nop56; nucleolar protein 56 [KO:K14564]
117456753  nop58; nucleolar protein 58 isoform X1 [KO:K14565]
117464854  NHP2-like protein 1 [KO:K12845]
117441682  dkc1; H/ACA ribonucleoprotein complex subunit DKC1 [KO:K11131] [EC:5.4.99.-]
117444284  nhp2; H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
117453571  gar1; H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
117467681  fcf1; rRNA-processing protein FCF1 homolog [KO:K14566]
117466731  si:dkey-251i10.3; U3 small nucleolar RNA-associated protein 14 homolog A [KO:K14567]
117465652  drosha; ribonuclease 3 [KO:K03685] [EC:3.1.26.3]
117461126  emg1; ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
117464830  bms1; LOW QUALITY PROTEIN: ribosome biogenesis protein BMS1 homolog [KO:K14569]
117448103  nat10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
117448412  LOW QUALITY PROTEIN: RNA cytidine acetyltransferase-like [KO:K14521] [EC:2.3.1.-]
117455864  rcl1; RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
117460848  pop1; ribonucleases P/MRP protein subunit POP1 isoform X1 [KO:K01164] [EC:3.1.26.5]
117451340  rpp38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
117443247  pop4; ribonuclease P protein subunit p29 isoform X1 [KO:K03538] [EC:3.1.26.5]
117452826  pop5; ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
117466349  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
117448655  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
117442827  rpp25l; LOW QUALITY PROTEIN: ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
117464048  pop7; ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
117449654  RNA exonuclease 5-like [KO:K14570] [EC:3.1.-.-]
117445656  rexo1; RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
117451946  RNA exonuclease 1 homolog isoform X1 [KO:K14570] [EC:3.1.-.-]
117458546  smfn; small fragment nuclease isoform X1 [KO:K13288] [EC:3.1.-.-]
117462126  xrn1; LOW QUALITY PROTEIN: 5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
117441556  xrn2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
117460336  gnl2; nucleolar GTP-binding protein 2 [KO:K14537]
117446253  guanine nucleotide-binding protein-like 3 [KO:K14538]
117446593  gnl3l; guanine nucleotide-binding protein-like 3-like protein isoform X1 [KO:K14538]
117460180  nvl; nuclear valosin-containing protein-like isoform X1 [KO:K14571]
117440243  LOW QUALITY PROTEIN: midasin-like [KO:K14572]
117448070  rbm28; RNA-binding protein 28 [KO:K14573]
117444872  nob1; RNA-binding protein NOB1 [KO:K11883]
117453778  ran; GTP-binding nuclear protein Ran [KO:K07936]
117459560  xpo1b; exportin-1 isoform X1 [KO:K14290]
117450762  xpo1a; exportin-1 [KO:K14290]
117457838  nmd3; 60S ribosomal export protein NMD3 [KO:K07562]
117453703  zgc:153681; nuclear RNA export factor 1 isoform X1 [KO:K14284]
117453355  nxt2; NTF2-related export protein 2 [KO:K14285]
117441037  eif6; eukaryotic translation initiation factor 6 [KO:K03264]
117457736  sbds; ribosome maturation protein SBDS [KO:K14574]
117464409  efl1; elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
117445728  lsg1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
117453592  spata5; ATPase family protein 2 homolog [KO:K14575]
117452342  ak6; adenylate kinase isoenzyme 6 [KO:K18532] [EC:2.7.4.3]
117441603  riok1; serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
117442387  serine/threonine-protein kinase RIO2-like [KO:K07179] [EC:2.7.11.1]
117452541  riok2; LOW QUALITY PROTEIN: serine/threonine-protein kinase RIO2 [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
pgeo03010  Ribosome
KO pathway
ko03008   
LinkDB

DBGET integrated database retrieval system