KEGG   PATHWAY: ath03008
Entry
ath03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Arabidopsis thaliana (thale cress)
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
ath03008  Ribosome biogenesis in eukaryotes
ath03008

Organism
Arabidopsis thaliana (thale cress) [GN:ath]
Gene
AT1G04635  EMB1687; ribonuclease P family protein / Rpp14 family protein [KO:K03537] [EC:3.1.26.5]
AT1G06720  [KO:K14569]
AT1G08410  [KO:K14539] [EC:3.6.1.-]
AT1G10300  [KO:K06943]
AT1G10490  [KO:K14521] [EC:2.3.1.-]
AT1G15420  [KO:K14546]
AT1G15440  PWP2; periodic tryptophan protein 2 [KO:K14558]
AT1G26530  [KO:K14566]
AT1G27470  [KO:K14548]
AT1G43860  [KO:K14574]
AT1G50920  [KO:K06943]
AT1G52980  AtNug2; GTP-binding family protein [KO:K14537]
AT1G56110  NOP56; NOP56-like pre RNA processing ribonucleoprotein [KO:K14564]
AT1G63780  IMP4; Ribosomal RNA processing Brix domain protein [KO:K14561]
AT1G63810  [KO:K14544]
AT1G67120  [KO:K14572]
AT1G75660  XRN3; 5'-3' exoribonuclease 3 [KO:K12619] [EC:3.1.13.-]
AT1G80770  PDE318; P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K06943]
AT2G01010  [KO:K01979]
AT2G03820  NMD3; nonsense-mediated mRNA decay NMD3 family protein [KO:K07562]
AT2G18900  [KO:K14552]
AT2G20490  NOP10; nucleolar RNA-binding Nop10p family protein [KO:K11130]
AT2G21440  [KO:K14573]
AT2G23070  [KO:K03097] [EC:2.7.11.1]
AT2G23080  CKA3; Protein kinase superfamily protein [KO:K03097] [EC:2.7.11.1]
AT2G24990  [KO:K07178] [EC:2.7.11.1]
AT2G25420  [KO:K14558]
AT2G26970  [KO:K13288] [EC:3.1.-.-]
AT2G27200  [KO:K14539] [EC:3.6.1.-]
AT2G39820  eIF6B; Translation initiation factor IF6 [KO:K03264]
AT2G43190  POP4; ribonuclease P family protein [KO:K03538] [EC:3.1.26.5]
AT2G44680  CKB4; casein kinase II beta subunit 4 [KO:K03115]
AT2G46230  [KO:K14566]
AT2G47300  POP1; ribonuclease Ps [KO:K01164] [EC:3.1.26.5]
AT2G47990  SWA1; transducin family protein / WD-40 repeat family protein [KO:K14549]
AT3G01610  CDC48C; cell division cycle 48C [KO:K14571]
AT3G03110  XPO1B; exportin 1B [KO:K14290]
AT3G03920  [KO:K11128]
AT3G05060  [KO:K14565]
AT3G06530  [KO:K14550]
AT3G07050  NSN1; GTP-binding family protein [KO:K14538]
AT3G12860  [KO:K14564]
AT3G21540  [KO:K14556]
AT3G22980  [KO:K14536] [EC:3.6.5.-]
AT3G23860  [KO:K06943]
AT3G26480  [KO:K14552]
AT3G41768  [KO:K01979]
AT3G50000  CKA2; casein kinase II, alpha chain 2 [KO:K03097] [EC:2.7.11.1]
AT3G50090  [KO:K14570] [EC:3.1.-.-]
AT3G50100  SDN1; small RNA degrading nuclease 1 [KO:K14570] [EC:3.1.-.-]
AT3G51270  [KO:K07179] [EC:2.7.11.1]
AT3G55620  eIF6A; Translation initiation factor IF6 [KO:K03264]
AT3G57000  [KO:K14568] [EC:2.1.1.260]
AT3G57150  NAP57; homologue of NAP57 [KO:K11131] [EC:5.4.99.-]
AT3G57940  [KO:K14521] [EC:2.3.1.-]
AT3G60250  CKB3; casein kinase II beta chain 3 [KO:K03115]
AT4G02400  [KO:K14567]
AT4G04940  [KO:K14554]
AT4G07410  PCN; Transducin family protein / WD-40 repeat family protein [KO:K14548]
AT4G12600  [KO:K12845]
AT4G17640  CKB2; casein kinase II beta chain 2 [KO:K03115]
AT4G22380  [KO:K12845]
AT4G25630  FIB2; fibrillarin 2 [KO:K14563] [EC:2.1.1.-]
AT4G28200  [KO:K14557]
AT5G05540  SDN2; small RNA degrading nuclease 2 [KO:K14570] [EC:3.1.-.-]
AT5G08180  [KO:K11129]
AT5G08600  [KO:K14567]
AT5G11240  [KO:K14546]
AT5G14050  [KO:K14553]
AT5G15750  [KO:K14560]
AT5G16750  TOZ; Transducin family protein / WD-40 repeat family protein [KO:K14555]
AT5G17020  XPO1A; exportin 1A [KO:K14290]
AT5G18180  [KO:K11128]
AT5G20010  RAN-1; RAS-related nuclear protein-1 [KO:K07936]
AT5G20020  RAN2; RAS-related GTP-binding nuclear protein 2 [KO:K07936]
AT5G20160  [KO:K12845]
AT5G22100  [KO:K11108]
AT5G25800  [KO:K14570] [EC:3.1.-.-]
AT5G27120  [KO:K14565]
AT5G27140  [KO:K14565]
AT5G37350  [KO:K07178] [EC:2.7.11.1]
AT5G38720  [KO:K14545]
AT5G41190  [KO:K11883]
AT5G42540  XRN2; exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
AT5G47080  CKB1; casein kinase II beta chain 1 [KO:K03115]
AT5G52470  FIB1; fibrillarin 1 [KO:K14563] [EC:2.1.1.-]
AT5G52490  [KO:K14563] [EC:2.1.1.-]
AT5G53902  U3B; U3B; snoRNA [KO:K14483]
AT5G54075  U3D; U3D; snoRNA [KO:K14483]
AT5G55080  RAN4; ras-related nuclear protein 4 [KO:K07936]
AT5G55190  RAN3; RAN GTPase 3 [KO:K07936]
AT5G59980  GAF1; Polymerase/histidinol phosphatase-like protein [KO:K03539] [EC:3.1.26.5]
AT5G60340  AAK6; P-loop containing nucleoside triphosphate hydrolases superfamily protein [KO:K18532] [EC:2.7.4.3]
AT5G66540  [KO:K14559]
AT5G67240  SDN3; small RNA degrading nuclease 3 [KO:K14570] [EC:3.1.-.-]
AT5G67380  CKA1; casein kinase alpha 1 [KO:K03097] [EC:2.7.11.1]
ArthCr088  [KO:K01979]
ArthCr091  [KO:K01981]
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
ath03010  Ribosome
KO pathway
ko03008   

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