ENTRY       sly03008                    Pathway
NAME        Ribosome biogenesis in eukaryotes - Solanum lycopersicum (tomato)
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 sly03008  Ribosome biogenesis in eukaryotes
ORGANISM    Solanum lycopersicum (tomato) [GN:sly]
GENE        101249856  putative casein kinase II subunit beta-4 isoform X1 [KO:K03115]
            101245655  putative casein kinase II subunit beta-4 isoform X1 [KO:K03115]
            101257119  putative casein kinase II subunit beta-4 [KO:K03115]
            101246833  casein kinase II subunit beta-3 isoform X1 [KO:K03115]
            101246108  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
            101256338  casein kinase II subunit alpha-1 [KO:K03097] [EC:2.7.11.1]
            101244750  casein kinase II subunit alpha-2 [KO:K03097] [EC:2.7.11.1]
            101260390  nucleolar protein 6 [KO:K14544]
            101268734  uncharacterized protein LOC101268734 isoform X1 [KO:K14545]
            101259128  uncharacterized protein LOC101259128 [KO:K14545]
            101243653  WD repeat-containing protein 43 [KO:K14546]
            101255780  WD repeat-containing protein 43 isoform X2 [KO:K14546]
            101256087  WD repeat-containing protein PCN [KO:K14548]
            101254771  WD repeat-containing protein PCN [KO:K14548]
            101251776  protein SLOW WALKER 1 [KO:K14549]
            101267297  uncharacterized protein At3g06530 isoform X1 [KO:K14550]
            101258878  WD repeat-containing protein 75 [KO:K14552]
            101256636  U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
            101254131  WD repeat-containing protein 36 [KO:K14554]
            101246325  transducin beta-like protein 3 [KO:K14555]
            101257021  WD repeat-containing protein 3 [KO:K14556]
            101257911  U3 small nucleolar RNA-associated protein 6 homolog isoform X2 [KO:K14557]
            101252265  periodic tryptophan protein 2 [KO:K14558]
            101253879  U3 small nucleolar ribonucleoprotein protein MPP10 isoform X1 [KO:K14559]
            101249976  alpha-L RNA-binding motif/ribosomal protein S4 family protein [KO:K14560]
            101261441  U3 small nucleolar ribonucleoprotein protein IMP4-like [KO:K14561]
            101253657  U3 small nucleolar ribonucleoprotein protein IMP4 isoform X1 [KO:K14561]
            101261490  mediator of RNA polymerase II transcription subunit 36a-like [KO:K14563] [EC:2.1.1.-]
            101250547  nucleolar protein 56 [KO:K14564]
            101255995  probable nucleolar protein 5-2 [KO:K14565]
            101263757  MAR-binding protein [KO:K14565]
            101244799  NHP2-like protein 1 [KO:K12845]
            101267649  NHP2-like protein 1 [KO:K12845]
            101255259  H/ACA ribonucleoprotein complex subunit 4 [KO:K11131] [EC:5.4.99.-]
            101268074  H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
            101246000  putative H/ACA ribonucleoprotein complex subunit 1-like protein 1 [KO:K11128]
            101254236  H/ACA ribonucleoprotein complex subunit 3-like protein [KO:K11130]
            101252860  rRNA-processing protein FCF1 homolog [KO:K14566]
            101245392  U3 small nucleolar RNA-associated protein 14 homolog A [KO:K14567]
            101260019  ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
            101266977  ribosome biogenesis protein BMS1 homolog [KO:K14569]
            101258943  RNA cytidine acetyltransferase 2-like [KO:K14521] [EC:2.3.1.-]
            101247688  probable RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
            101252549  uncharacterized protein LOC101252549 [KO:K01164] [EC:3.1.26.5]
            101255622  uncharacterized protein LOC101255622 isoform X1 [KO:K03538] [EC:3.1.26.5]
            101249952  probable ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
            101253090  uncharacterized protein LOC101253090 [KO:K03539] [EC:3.1.26.5]
            101258362  small RNA degrading nuclease 5 [KO:K14570] [EC:3.1.-.-]
            101248438  small RNA degrading nuclease 1-like [KO:K14570] [EC:3.1.-.-]
            101249951  oligoribonuclease isoform X2 [KO:K13288] [EC:3.1.-.-]
            101264943  oligoribonuclease [KO:K13288] [EC:3.1.-.-]
            101254633  nucleolar GTP-binding protein 1 [KO:K06943]
            101259578  nucleolar GTP-binding protein 1 [KO:K06943]
            101249658  nucleolar GTP-binding protein 1-like [KO:K06943]
            101250712  nuclear/nucleolar GTPase 2 [KO:K14537]
            100037516  nuclear GTPase-like [KO:K14538]
            101245772  guanine nucleotide-binding protein-like NSN1 [KO:K14538]
            101245092  cell division control protein 48 homolog C [KO:K14571]
            101258364  midasin isoform X1 [KO:K14572]
            101263645  RNA-binding protein 28 [KO:K14573]
            101252008  uncharacterized protein LOC101252008 [KO:K11883]
            778290  RAN2A; GTP-binding nuclear protein Ran2 [KO:K07936]
            778289  RAN1; GTP-binding nuclear protein Ran1 [KO:K07936]
            778291  RAN2B; GTP-binding nuclear protein Ran2 [KO:K07936]
            100313952  Xpo1; exportin 1 [KO:K14290]
            101253905  60S ribosomal export protein NMD3 [KO:K07562]
            101255078  eukaryotic translation initiation factor 6-2 [KO:K03264]
            101265791  eukaryotic translation initiation factor 6-2 isoform X1 [KO:K03264]
            101268743  eukaryotic translation initiation factor 6-2-like [KO:K03264]
            101245433  eukaryotic translation initiation factor 6-2-like [KO:K03264]
            101258649  ribosome maturation protein SBDS [KO:K14574]
            101258526  elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
            101261781  GTPase LSG1-2 [KO:K14539] [EC:3.6.1.-]
            101055607  Hop-interacting protein THI105 [KO:K18532] [EC:2.7.4.3]
            101260825  adenylate kinase isoenzyme 6 homolog isoform X2 [KO:K18532] [EC:2.7.4.3]
            101261733  serine/threonine-protein kinase RIO1-like [KO:K07178] [EC:2.7.11.1]
            101248232  serine/threonine-protein kinase rio2 [KO:K07179] [EC:2.7.11.1]
            3950467  LyesC2r001; 16S ribosomal RNA [KO:K01979]
            3950432  LyesC2r007; 23S ribosomal RNA [KO:K01982]
            112940383  28S ribosomal RNA [KO:K01982]
            3950435  LyesC2r004; 5S ribosomal RNA [KO:K01981]
            3950436  LyesC2r005; 5S ribosomal RNA [KO:K01981]
            112940756  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 sly03010  Ribosome
KO_PATHWAY  ko03008
///
