ENTRY       mtr03008                    Pathway
NAME        Ribosome biogenesis in eukaryotes - Medicago truncatula (barrel medic)
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 mtr03008  Ribosome biogenesis in eukaryotes
ORGANISM    Medicago truncatula (barrel medic) [GN:mtr]
GENE        11430161  casein kinase II subunit beta-1 isoform X2 [KO:K03115]
            25493577  casein kinase II subunit beta-1 isoform X2 [KO:K03115]
            11410839  casein kinase II subunit alpha-2 [KO:K03097] [EC:2.7.11.1]
            11434455  casein kinase II subunit alpha-2 [KO:K03097] [EC:2.7.11.1]
            25493524  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
            11413629  nucleolar protein 6 [KO:K14544]
            11426579  DNA ligase 1 [KO:K14545]
            25492214  DEAD-box ATP-dependent RNA helicase 42 [KO:K14545]
            25491339  WD repeat-containing protein 43 isoform X2 [KO:K14546]
            11420256  uncharacterized protein LOC11420256 [KO:K14546]
            11421232  WD repeat-containing protein PCN isoform X2 [KO:K14548]
            11417189  WD repeat-containing protein PCN [KO:K14548]
            11420033  protein SLOW WALKER 1 [KO:K14549]
            11431978  uncharacterized protein At3g06530 isoform X2 [KO:K14550]
            11438240  WD repeat-containing protein 75 [KO:K14552]
            11425141  U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
            11442001  U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
            25497027  U3 small nucleolar RNA-associated protein 21 homolog [KO:K14554]
            25493764  transducin beta-like protein 3 [KO:K14555]
            25494154  WD repeat-containing protein 3 [KO:K14556]
            11435791  U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
            11431644  periodic tryptophan protein 2 [KO:K14558]
            25493756  U3 small nucleolar ribonucleoprotein protein MPP10 isoform X2 [KO:K14559]
            11409612  U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
            11422276  U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
            25496400  rRNA 2'-O-methyltransferase fibrillarin 1 [KO:K14563] [EC:2.1.1.-]
            11440720  rRNA 2'-O-methyltransferase fibrillarin 1 [KO:K14563] [EC:2.1.1.-]
            11407456  nucleolar protein 56 isoform X1 [KO:K14564]
            11437645  probable nucleolar protein 5-1 [KO:K14565]
            11436777  probable nucleolar protein 5-2 [KO:K14565]
            25479574  NHP2-like protein 1 [KO:K12845]
            11441647  NHP2-like protein 1 [KO:K12845]
            25492817  H/ACA ribonucleoprotein complex subunit 4 isoform X1 [KO:K11131] [EC:5.4.99.-]
            11443631  H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
            25498984  putative H/ACA ribonucleoprotein complex subunit 1-like protein 1 [KO:K11128]
            25501480  H/ACA ribonucleoprotein complex subunit 3-like protein [KO:K11130]
            25499275  H/ACA ribonucleoprotein complex subunit 3-like protein [KO:K11130]
            11431764  rRNA-processing protein FCF1 homolog [KO:K14566]
            11432192  rRNA-processing protein FCF1 homolog [KO:K14566]
            112416091  uncharacterized protein C57A7.06-like [KO:K14567]
            25499036  U3 small nucleolar RNA-associated protein 14 [KO:K14567]
            11423401  U3 small nucleolar RNA-associated protein 14 [KO:K14567]
            11421258  ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
            11430617  ribosomal RNA small subunit methyltransferase nep-1 [KO:K14568] [EC:2.1.1.260]
            25495057  ribosomal RNA small subunit methyltransferase nep-1 [KO:K14568] [EC:2.1.1.260]
            11407664  ribosome biogenesis protein bms1 isoform X1 [KO:K14569]
            11439952  RNA cytidine acetyltransferase 1 [KO:K14521] [EC:2.3.1.-]
            11412106  RNA cytidine acetyltransferase 1 [KO:K14521] [EC:2.3.1.-]
            25502079  probable RNA 3'-terminal phosphate cyclase-like protein isoform X2 [KO:K11108]
            25491287  ribonucleases P/MRP protein subunit POP1 isoform X2 [KO:K01164] [EC:3.1.26.5]
            112421681  ribonuclease P protein subunit p29-like [KO:K03538] [EC:3.1.26.5]
            11437421  ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
            11410875  probable ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
            11408905  uncharacterized protein LOC11408905 [KO:K03539] [EC:3.1.26.5]
            25485770  small RNA degrading nuclease 1-like [KO:K14570] [EC:3.1.-.-]
            25494927  oligoribonuclease [KO:K13288] [EC:3.1.-.-]
            11419905  nucleolar GTP-binding protein 1 [KO:K06943]
            25499910  nucleolar GTP-binding protein 1 isoform X1 [KO:K06943]
            25487251  nucleolar GTP-binding protein 1-like [KO:K06943]
            11445055  nuclear/nucleolar GTPase 2 [KO:K14537]
            25487359  nuclear/nucleolar GTPase 2 [KO:K14537]
            25483154  guanine nucleotide-binding protein-like NSN1 isoform X1 [KO:K14538]
            11421160  cell division control protein 48 homolog C [KO:K14571]
            25488675  cell division control protein 48 homolog C [KO:K14571]
            25488676  cell division control protein 48 homolog C [KO:K14571]
            11434046  midasin isoform X2 [KO:K14572]
            11426394  RNA-binding protein 28 isoform X1 [KO:K14573]
            11435776  RNA-binding NOB1-like protein [KO:K11883]
            11441617  GTP-binding nuclear protein Ran-2 [KO:K07936]
            25490031  GTP-binding nuclear protein Ran/TC4 [KO:K07936]
            25490032  GTP-binding nuclear protein Ran/TC4 [KO:K07936]
            25490033  GTP-binding nuclear protein Ran/TC4 [KO:K07936]
            11437746  protein EXPORTIN 1A isoform X1 [KO:K14290]
            11435528  protein EXPORTIN 1A [KO:K14290]
            11406641  60S ribosomal export protein NMD3 [KO:K07562]
            11426774  60S ribosomal export protein NMD3 [KO:K07562]
            11441100  60S ribosomal export protein NMD3 [KO:K07562]
            11440943  60S ribosomal export protein NMD3 [KO:K07562]
            11441010  60S ribosomal export protein NMD3 [KO:K07562]
            11436295  60S ribosomal export protein NMD3 [KO:K07562]
            11431862  60S ribosomal export protein NMD3 [KO:K07562]
            11423329  60S ribosomal export protein NMD3 [KO:K07562]
            11425835  60S ribosomal export protein NMD3 [KO:K07562]
            112417130  eukaryotic translation initiation factor 6-2 [KO:K03264]
            25484520  eukaryotic translation initiation factor 6-2-like [KO:K03264]
            11422493  eukaryotic translation initiation factor 6-2 [KO:K03264]
            11414055  eukaryotic translation initiation factor 6-2 [KO:K03264]
            25496888  ribosome maturation protein SBDS [KO:K14574]
            11417702  elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
            11444051  GTPase LSG1-1 [KO:K14539] [EC:3.6.1.-]
            11432884  adenylate kinase isoenzyme 6 homolog [KO:K18532] [EC:2.7.4.3]
            11409162  serine/threonine-protein kinase RIO1-like isoform X2 [KO:K07178] [EC:2.7.11.1]
            11435888  serine/threonine-protein kinase rio1 [KO:K07178] [EC:2.7.11.1]
            11417407  serine/threonine-protein kinase rio1 [KO:K07178] [EC:2.7.11.1]
            25493398  serine/threonine-protein kinase rio2 [KO:K07179] [EC:2.7.11.1]
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 mtr03010  Ribosome
KO_PATHWAY  ko03008
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