KEGG   PATHWAY: afz03008
Entry
afz03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Antechinus flavipes (yellow-footed antechinus)
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
afz03008  Ribosome biogenesis in eukaryotes
afz03008

Organism
Antechinus flavipes (yellow-footed antechinus) [GN:afz]
Gene
127561066  casein kinase II subunit beta [KO:K03115]
127550480  casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
127547637  casein kinase II subunit alpha' isoform X1 [KO:K03097] [EC:2.7.11.1]
127561803  nucleolar protein 6 isoform X1 [KO:K14544]
127538472  ribosomal RNA-processing protein 7 homolog A [KO:K14545]
127548700  WD repeat-containing protein 43 [KO:K14546]
127547744  U3 small nucleolar RNA-associated protein 4 homolog isoform X1 [KO:K14548]
127558898  U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
127559626  HEAT repeat-containing protein 1 [KO:K14550]
127554478  WD repeat-containing protein 75 [KO:K14552]
127560043  U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
127560060  WD repeat-containing protein 36 [KO:K14554]
127543411  transducin beta-like protein 3 [KO:K14555]
127559201  WD repeat-containing protein 3 [KO:K14556]
127558961  LOW QUALITY PROTEIN: U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
127553890  periodic tryptophan protein 2 homolog [KO:K14558]
127551321  U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
127547171  U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
127542444  U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
127540904  U3 small nucleolar ribonucleoprotein protein IMP4-like [KO:K14561]
127550094  treacle protein isoform X1 [KO:K14562]
127556122  rRNA 2'-O-methyltransferase fibrillarin isoform X1 [KO:K14563] [EC:2.1.1.-]
127541951  nucleolar protein 56 isoform X1 [KO:K14564]
127553218  nucleolar protein 58 [KO:K14565]
127538432  NHP2-like protein 1 [KO:K12845]
127542288  H/ACA ribonucleoprotein complex subunit DKC1 isoform X1 [KO:K11131] [EC:5.4.99.-]
127550299  H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
127542038  H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
127549178  H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
127549501  rRNA-processing protein FCF1 homolog isoform X1 [KO:K14566]
127557729  rRNA-processing protein FCF1 homolog [KO:K14566]
127548898  U3 small nucleolar RNA-associated protein 14 homolog A-like [KO:K14567]
127542350  U3 small nucleolar RNA-associated protein 14 homolog A isoform X1 [KO:K14567]
127543665  ribonuclease 3 isoform X1 [KO:K03685] [EC:3.1.26.3]
127538873  ribosomal RNA small subunit methyltransferase NEP1 isoform X1 [KO:K14568] [EC:2.1.1.260]
127551859  ribosome biogenesis protein BMS1 homolog [KO:K14569]
127541020  RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
127555479  RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
127544318  ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
127537866  ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
127550664  ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
127545563  ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
127551971  ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
127540892  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
127560968  ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
127551685  ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
127544212  ribonuclease P protein subunit p40 [KO:K14530] [EC:3.1.26.5]
127564652  RNA exonuclease 5 isoform X1 [KO:K14570] [EC:3.1.-.-]
127545166  RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
127555012  oligoribonuclease, mitochondrial [KO:K13288] [EC:3.1.-.-]
127552992  5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
127548432  5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
127564544  GTP-binding protein 4 [KO:K06943]
127555435  nucleolar GTP-binding protein 2 [KO:K14537]
127553194  guanine nucleotide-binding protein-like 3-like protein [KO:K14538]
127553877  guanine nucleotide-binding protein-like 3 [KO:K14538]
127559526  nuclear valosin-containing protein-like isoform X1 [KO:K14571]
127562004  LOW QUALITY PROTEIN: midasin [KO:K14572]
127537881  RNA-binding protein 28 isoform X1 [KO:K14573]
127547732  RNA-binding protein NOB1 [KO:K11883]
127545367  GTP-binding nuclear protein Ran [KO:K07936]
127548118  exportin-1 isoform X1 [KO:K14290]
127552842  60S ribosomal export protein NMD3 [KO:K07562]
127543153  nuclear RNA export factor 1-like [KO:K14284]
127541050  nuclear RNA export factor 1 isoform X1 [KO:K14284]
127542544  NTF2-related export protein 2 [KO:K14285]
127542896  NTF2-related export protein 2 [KO:K14285]
127542903  NTF2-related export protein 2-like isoform X1 [KO:K14285]
127550354  eukaryotic translation initiation factor 6 [KO:K03264]
127558740  ribosome maturation protein SBDS [KO:K14574]
127551446  elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
127558299  large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
127541135  ribosome biogenesis protein SPATA5 [KO:K14575]
127559093  adenylate kinase isoenzyme 6 [KO:K18532] [EC:2.7.4.3]
127559370  adenylate kinase isoenzyme 6-like [KO:K18532] [EC:2.7.4.3]
127544199  serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
127546259  LOW QUALITY PROTEIN: serine/threonine-protein kinase RIO1-like [KO:K07178] [EC:2.7.11.1]
127559942  serine/threonine-protein kinase RIO2 [KO:K07179] [EC:2.7.11.1]
127552707  18S ribosomal RNA [KO:K01979]
127539525  18S ribosomal RNA [KO:K01979]
127539499  5.8S ribosomal RNA [KO:K01986]
127552708  28S ribosomal RNA [KO:K01982]
127563706  small nucleolar RNA U3 [KO:K14483]
127563705  small nucleolar RNA U3 [KO:K14483]
127563713  small nucleolar RNA U3 [KO:K14483]
127563709  small nucleolar RNA U3 [KO:K14483]
127563710  small nucleolar RNA U3 [KO:K14483]
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
afz03010  Ribosome
KO pathway
ko03008   
LinkDB

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