ENTRY       osa03008                    Pathway
NAME        Ribosome biogenesis in eukaryotes - Oryza sativa japonica (Japanese rice) (RefSeq)
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 osa03008  Ribosome biogenesis in eukaryotes
ORGANISM    Oryza sativa japonica (Japanese rice) (RefSeq) [GN:osa]
GENE        4343287  putative casein kinase II subunit beta-4 isoform X1 [KO:K03115]
            4349414  putative casein kinase II subunit beta-4 isoform X1 [KO:K03115]
            4342248  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
            4334206  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
            4332003  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
            4351600  nucleolar protein 6 [KO:K14544]
            4330604  splicing regulatory glutamine/lysine-rich protein 1 isoform X1 [KO:K14545]
            4326248  WD repeat-containing protein 43 isoform X1 [KO:K14546]
            4352882  uncharacterized protein LOC4352882 [KO:K14546]
            4332567  WD repeat-containing protein 43 [KO:K14546]
            4334021  cirhin [KO:K14548]
            4342750  protein SLOW WALKER 1 [KO:K14549]
            4336577  uncharacterized protein At3g06530 [KO:K14550]
            4352760  WD repeat-containing protein 75 [KO:K14552]
            4343836  U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
            9270402  U3 small nucleolar RNA-associated protein 21 homolog [KO:K14554]
            4336833  transducin beta-like protein 3 isoform X1 [KO:K14555]
            4331644  WD repeat-containing protein 3 [KO:K14556]
            4328001  U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
            4339341  periodic tryptophan protein 2 homolog [KO:K14558]
            4351433  U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
            4349717  U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
            4337293  U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
            4344688  U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
            4331181  mediator of RNA polymerase II transcription subunit 36a [KO:K14563] [EC:2.1.1.-]
            9266224  probable mediator of RNA polymerase II transcription subunit 36b isoform X1 [KO:K14563] [EC:2.1.1.-]
            4332851  nucleolar protein 56 [KO:K14564]
            4332840  probable nucleolar protein 5-2 [KO:K14565]
            4332841  probable nucleolar protein 5-2 [KO:K14565]
            4352036  uncharacterized protein LOC4352036 [KO:K14565]
            4329457  uncharacterized protein LOC4329457 [KO:K14565]
            4350687  probable nucleolar protein 5-1 [KO:K14565]
            4332209  NHP2-like protein 1 [KO:K12845]
            4348007  13 kDa ribonucleoprotein-associated protein [KO:K12845]
            4344029  H/ACA ribonucleoprotein complex subunit 4 [KO:K11131] [EC:5.4.99.-]
            4332935  H/ACA ribonucleoprotein complex subunit 4 [KO:K11131] [EC:5.4.99.-]
            4336736  H/ACA ribonucleoprotein complex subunit 4 [KO:K11131] [EC:5.4.99.-]
            4330603  H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
            4340741  H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
            4350782  putative H/ACA ribonucleoprotein complex subunit 1-like protein 1 [KO:K11128]
            9269830  H/ACA ribonucleoprotein complex subunit 3-like protein [KO:K11130]
            4340192  rRNA-processing protein FCF1 homolog [KO:K14566]
            4332800  U3 small nucleolar RNA-associated protein 14 [KO:K14567]
            4329057  ribosomal RNA small subunit methyltransferase nep-1 [KO:K14568] [EC:2.1.1.260]
            4332742  ribosome biogenesis protein bms1 [KO:K14569]
            4351627  RNA cytidine acetyltransferase 1 [KO:K14521] [EC:2.3.1.-]
            4334688  probable RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
            4351115  uncharacterized protein C05D11.9 isoform X1 [KO:K01164] [EC:3.1.26.5]
            4339079  uncharacterized protein LOC4339079 [KO:K03538] [EC:3.1.26.5]
            4335406  probable ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
            4338260  probable ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
            9269193  ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
            4351650  ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
            9271052  uncharacterized protein LOC9271052 isoform X1 [KO:K03539] [EC:3.1.26.5]
            4349529  uncharacterized protein LOC4349529 isoform X1 [KO:K03539] [EC:3.1.26.5]
            4337228  small RNA degrading nuclease 1 [KO:K14570] [EC:3.1.-.-]
            9269093  small RNA degrading nuclease 5 isoform X1 [KO:K14570] [EC:3.1.-.-]
            4329319  oligoribonuclease [KO:K13288] [EC:3.1.-.-]
            9270337  oligoribonuclease [KO:K13288] [EC:3.1.-.-]
            4324952  5'-3' exoribonuclease 3 isoform X1 [KO:K12619] [EC:3.1.13.-]
            4329368  5'-3' exoribonuclease 4 isoform X1 [KO:K12619] [EC:3.1.13.-]
            4344710  nucleolar GTP-binding protein 1 [KO:K06943]
            4340389  nucleolar GTP-binding protein 1 [KO:K06943]
            4342225  nucleolar GTP-binding protein 1 [KO:K06943]
            4332852  nuclear/nucleolar GTPase 2 [KO:K14537]
            4325442  guanine nucleotide-binding protein-like NSN1 [KO:K14538]
            4339880  cell division control protein 48 homolog C [KO:K14571]
            4348797  midasin isoform X1 [KO:K14572]
            4334625  RNA-binding protein 28 [KO:K14573]
            4334461  RNA-binding protein 28 [KO:K14573]
            4328064  RNA-binding protein NOB1 [KO:K11883]
            4339683  GTP-binding nuclear protein Ran-2 [KO:K07936]
            4325312  GTP-binding nuclear protein Ran-1 [KO:K07936]
            9266942  GTP-binding nuclear protein Ran-3 [KO:K07936]
            4334849  protein EXPORTIN 1A isoform X1 [KO:K14290]
            4349477  60S ribosomal export protein NMD3 [KO:K07562]
            4326910  eukaryotic translation initiation factor 6-2 [KO:K03264]
            4344055  eukaryotic translation initiation factor 6-2 [KO:K03264]
            4344458  ribosome maturation protein SBDS [KO:K14574]
            4333588  elongation factor Tu GTP-binding domain-containing protein 1 [KO:K14536] [EC:3.6.5.-]
            4352809  GTPase LSG1-2 [KO:K14539] [EC:3.6.1.-]
            4333574  GTPase LSG1-2 [KO:K14539] [EC:3.6.1.-]
            4343011  adenylate kinase isoenzyme 6 homolog [KO:K18532] [EC:2.7.4.3]
            4342459  serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
            4324901  serine/threonine-protein kinase rio2 [KO:K07179] [EC:2.7.11.1]
            3131380  OrsajCr120; 16S ribosomal RNA [KO:K01979]
            3131377  OrsajCr119; 23S ribosomal RNA [KO:K01982]
            3131369  OrsajCr116; 5S ribosomal RNA [KO:K01981]
            3131375  OrsajCr117; 5S ribosomal RNA [KO:K01981]
            6450136  rrn5; 5S ribosomal RNA [KO:K01981]
REFERENCE   PMID:20174677
  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   PMID:17515605
  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   PMID:19850913
  AUTHORS   Strunk BS, Karbstein K
  TITLE     Powering through ribosome assembly.
  JOURNAL   RNA 15:2083-104 (2009)
            DOI:10.1261/rna.1792109
REFERENCE   PMID:15120992
  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   PMID:19879902
  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
REL_PATHWAY osa03010  Ribosome
KO_PATHWAY  ko03008
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