KEGG   PATHWAY: caua03008
Entry
caua03008                   Pathway                                
Name
Ribosome biogenesis in eukaryotes - Carassius auratus (goldfish)
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
caua03008  Ribosome biogenesis in eukaryotes
caua03008

Organism
Carassius auratus (goldfish) [GN:caua]
Gene
113119509  casein kinase II subunit beta [KO:K03115]
113090784  casein kinase II subunit beta [KO:K03115]
113106367  casein kinase II subunit alpha'-like isoform X1 [KO:K03097] [EC:2.7.11.1]
113066802  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
113119944  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
113043054  casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
113062185  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
113043727  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
113062392  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
113069240  casein kinase II subunit alpha-like isoform X1 [KO:K03097] [EC:2.7.11.1]
113097557  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
113116080  casein kinase II subunit alpha-like [KO:K03097] [EC:2.7.11.1]
113081694  casein kinase II subunit alpha isoform X1 [KO:K03097] [EC:2.7.11.1]
113099604  casein kinase II subunit alpha isoform X1 [KO:K03097] [EC:2.7.11.1]
113051816  casein kinase II subunit alpha'-like [KO:K03097] [EC:2.7.11.1]
113049088  nol6; nucleolar protein 6 isoform X1 [KO:K14544]
113067447  ribosomal RNA-processing protein 7 homolog A-like [KO:K14545]
113055380  ribosomal RNA-processing protein 7 homolog A-like [KO:K14545]
113095788  WD repeat-containing protein 43-like [KO:K14546]
113117231  WD repeat-containing protein 43-like [KO:K14546]
113118250  utp4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
113079202  U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
113100344  U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
113118152  U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
113056289  heatr1; HEAT repeat-containing protein 1 [KO:K14550]
113053017  wdr75; WD repeat-containing protein 75 [KO:K14552]
113068411  utp18; U3 small nucleolar RNA-associated protein 18 homolog isoform X1 [KO:K14553]
113049832  WD repeat-containing protein 36-like [KO:K14554]
113084049  WD repeat-containing protein 36-like [KO:K14554]
113052301  transducin beta-like protein 3 [KO:K14555]
113046629  transducin beta-like protein 3 [KO:K14555]
113108533  WD repeat-containing protein 3-like [KO:K14556]
113108549  WD repeat-containing protein 3-like [KO:K14556]
113053409  WD repeat-containing protein 3-like [KO:K14556]
113050695  utp6; U3 small nucleolar RNA-associated protein 6 homolog isoform X1 [KO:K14557]
113105505  periodic tryptophan protein 2 homolog [KO:K14558]
113051531  U3 small nucleolar ribonucleoprotein protein MPP10-like [KO:K14559]
113052282  U3 small nucleolar ribonucleoprotein protein MPP10-like [KO:K14559]
113105945  U3 small nucleolar ribonucleoprotein protein MPP10-like [KO:K14559]
113037991  imp3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
113049420  imp4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
113115889  rRNA 2'-O-methyltransferase fibrillarin-like [KO:K14563] [EC:2.1.1.-]
113059559  rRNA 2'-O-methyltransferase fibrillarin-like [KO:K14563] [EC:2.1.1.-]
113038848  nop56; nucleolar protein 56 [KO:K14564]
113092342  nucleolar protein 58-like [KO:K14565]
113050866  nucleolar protein 58-like [KO:K14565]
113047581  NHP2-like protein 1 [KO:K12845]
113056319  NHP2-like protein 1 [KO:K12845]
113052963  NHP2-like protein 1 [KO:K12845]
113111915  NHP2-like protein 1 [KO:K12845]
113063912  H/ACA ribonucleoprotein complex subunit DKC1-like [KO:K11131] [EC:5.4.99.-]
113038285  H/ACA ribonucleoprotein complex subunit DKC1-like [KO:K11131] [EC:5.4.99.-]
113064048  H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
113038455  H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
113114040  H/ACA ribonucleoprotein complex subunit 1-like [KO:K11128]
113096285  H/ACA ribonucleoprotein complex subunit 3-like [KO:K11130]
113096414  H/ACA ribonucleoprotein complex subunit 3-like [KO:K11130]
113105411  nop10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
113116997  fcf1; rRNA-processing protein FCF1 homolog [KO:K14566]
113085956  U3 small nucleolar RNA-associated protein 14 homolog A-like [KO:K14567]
113072462  ribonuclease 3-like [KO:K03685] [EC:3.1.26.3]
113112123  ribonuclease 3-like [KO:K03685] [EC:3.1.26.3]
113060146  ribosomal RNA small subunit methyltransferase NEP1-like [KO:K14568] [EC:2.1.1.260]
113116236  ribosomal RNA small subunit methyltransferase NEP1-like [KO:K14568] [EC:2.1.1.260]
113074316  bms1; ribosome biogenesis protein BMS1 homolog [KO:K14569]
113061656  nat10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
113070153  rcl1; RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
113059443  pop1; ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
113116607  ribonuclease P protein subunit p38-like [KO:K14523] [EC:3.1.26.5]
113059124  ribonuclease P protein subunit p38-like [KO:K14523] [EC:3.1.26.5]
113051514  pop4; ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
113107403  pop5; ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
113066454  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
113061248  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
113043888  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
113115910  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
113059562  ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
113118027  ribonuclease P protein subunit p25-like [KO:K14525] [EC:3.1.26.5]
113052180  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
113105898  ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
113056204  ribonuclease P protein subunit p30-like isoform X1 [KO:K03539] [EC:3.1.26.5]
113111702  ribonuclease P protein subunit p30-like isoform X1 [KO:K03539] [EC:3.1.26.5]
113116757  rpp40; ribonuclease P protein subunit p40 [KO:K14530] [EC:3.1.26.5]
113107240  RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
113078413  RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
113069920  RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
113044457  RNA exonuclease 1 homolog isoform X1 [KO:K14570] [EC:3.1.-.-]
113100634  rexo5; RNA exonuclease 5 [KO:K14570] [EC:3.1.-.-]
113054526  oligoribonuclease, mitochondrial-like [KO:K13288] [EC:3.1.-.-]
113092599  oligoribonuclease, mitochondrial-like [KO:K13288] [EC:3.1.-.-]
113069606  oligoribonuclease, mitochondrial-like [KO:K13288] [EC:3.1.-.-]
113115476  5'-3' exoribonuclease 1-like isoform X1 [KO:K12618] [EC:3.1.13.-]
113045786  5'-3' exoribonuclease 1-like isoform X1 [KO:K12618] [EC:3.1.13.-]
113093348  5'-3' exoribonuclease 2-like [KO:K12619] [EC:3.1.13.-]
113120621  5'-3' exoribonuclease 2-like [KO:K12619] [EC:3.1.13.-]
113120667  nucleolar GTP-binding protein 1-like [KO:K06943]
113045060  nucleolar GTP-binding protein 1 [KO:K06943]
113116127  gnl2; nucleolar GTP-binding protein 2 [KO:K14537]
113069413  gnl3; guanine nucleotide-binding protein-like 3 [KO:K14538]
113111147  gnl3l; guanine nucleotide-binding protein-like 3-like protein [KO:K14538]
113113112  nvl; nuclear valosin-containing protein-like [KO:K14571]
113096431  LOW QUALITY PROTEIN: midasin-like [KO:K14572]
113037739  mdn1; midasin [KO:K14572]
113037938  LOW QUALITY PROTEIN: midasin-like [KO:K14572]
113061529  RNA-binding protein 28-like [KO:K14573]
113118208  RNA-binding protein 28-like isoform X1 [KO:K14573]
113079339  RNA-binding protein NOB1-like [KO:K11883]
113079580  RNA-binding protein NOB1-like [KO:K11883]
113113662  GTP-binding nuclear protein Ran [KO:K07936]
113069566  GTP-binding nuclear protein Ran [KO:K07936]
113076712  exportin-1-like [KO:K14290]
113093179  exportin-1-like [KO:K14290]
113097614  exportin-1-like [KO:K14290]
113117396  exportin-1 [KO:K14290]
113059941  exportin-1-like [KO:K14290]
113115424  nmd3; 60S ribosomal export protein NMD3 [KO:K07562]
113113761  nuclear RNA export factor 1-like isoform X1 [KO:K14284]
113038521  nuclear RNA export factor 1-like isoform X1 [KO:K14284]
113064342  nuclear RNA export factor 1-like isoform X1 [KO:K14284]
113064343  nuclear RNA export factor 1-like isoform X1 [KO:K14284]
113114188  nxt2; NTF2-related export protein 2 [KO:K14285]
113050232  eukaryotic translation initiation factor 6 [KO:K03264]
113103498  eukaryotic translation initiation factor 6-like [KO:K03264]
113115408  sbds; ribosome maturation protein SBDS [KO:K14574]
113051948  elongation factor-like GTPase 1 isoform X1 [KO:K14536] [EC:3.6.5.-]
113105687  elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
113110940  lsg1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
113058054  spata5; spermatogenesis-associated protein 5 isoform X1 [KO:K14575]
113049409  uncharacterized protein LOC113049409 isoform X1 [KO:K18532] [EC:2.7.4.3]
113091307  adenylate kinase isoenzyme 6-like [KO:K18532] [EC:2.7.4.3]
113116777  riok1; serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
113049157  riok2; serine/threonine-protein kinase RIO2 [KO:K07179] [EC:2.7.11.1]
113074573  18S ribosomal RNA [KO:K01979]
113074572  5.8S ribosomal RNA [KO:K01986]
113092072  28S ribosomal RNA [KO:K01982]
113074574  28S ribosomal RNA [KO:K01982]
113096927  28S ribosomal RNA [KO:K01982]
113095718  28S ribosomal RNA [KO:K01982]
113086139  28S ribosomal RNA [KO:K01982]
113117955  5S ribosomal RNA [KO:K01981]
113052562  5S ribosomal RNA [KO:K01981]
113110219  small nucleolar RNA U3 [KO:K14483]
113044825  small nucleolar RNA U3 [KO:K14483]
113094225  small nucleolar RNA U3 [KO:K14483]
113106656  small nucleolar RNA U3 [KO:K14483]
113087737  small nucleolar RNA U3 [KO:K14483]
113073206  small nucleolar RNA U3 [KO:K14483]
113094227  small nucleolar RNA U3 [KO:K14483]
113097690  small nucleolar RNA U3 [KO:K14483]
113063524  small nucleolar RNA U3 [KO:K14483]
113044826  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
caua03010  Ribosome
KO pathway
ko03008   
LinkDB

DBGET integrated database retrieval system