KEGG   PATHWAY: tgu03008
Entry
tgu03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Taeniopygia guttata (zebra finch)
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
tgu03008  Ribosome biogenesis in eukaryotes
tgu03008

Organism
Taeniopygia guttata (zebra finch) [GN:tgu]
Gene
100231582  CSNK2A1; casein kinase II subunit alpha isoform X1 [KO:K03097] [EC:2.7.11.1]
100227081  CSNK2A2; casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
100223344  NOL6; nucleolar protein 6 isoform X2 [KO:K14544]
100190142  RRP7A; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
100225826  WDR43; WD repeat-containing protein 43 [KO:K14546]
100229140  UTP4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
100227083  UTP15; U3 small nucleolar RNA-associated protein 15 homolog isoform X2 [KO:K14549]
100224158  HEATR1; HEAT repeat-containing protein 1 isoform X1 [KO:K14550]
100226191  WDR75; WD repeat-containing protein 75 [KO:K14552]
100229349  UTP18; U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
100230719  WDR36; WD repeat-containing protein 36 isoform X1 [KO:K14554]
105760258  TBL3; transducin beta-like protein 3 [KO:K14555]
100222071  WDR3; WD repeat-containing protein 3 isoform X2 [KO:K14556]
100232610  UTP6; U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
100218390  PWP2; periodic tryptophan protein 2 homolog [KO:K14558]
100231244  MPHOSPH10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
100190059  IMP4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
100226238  TCOF1; treacle protein isoform X1 [KO:K14562]
100225374  NOP56; nucleolar protein 56 [KO:K14564]
100218561  NOP58; nucleolar protein 58 [KO:K14565]
100221514  SNU13; NHP2-like protein 1 [KO:K12845]
100226242  DKC1; H/ACA ribonucleoprotein complex subunit DKC1 [KO:K11131] [EC:5.4.99.-]
100219456  NHP2; H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
115495021  GAR1; H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
100190062  NOP10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
100225809  FCF1; rRNA-processing protein FCF1 homolog [KO:K14566]
100223721  UTP14A; U3 small nucleolar RNA-associated protein 14 homolog A isoform X1 [KO:K14567]
100220998  DROSHA; ribonuclease 3 isoform X1 [KO:K03685] [EC:3.1.26.3]
100223062  EMG1; ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
100228918  BMS1; ribosome biogenesis protein BMS1 homolog [KO:K14569]
100229679  NAT10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
100222569  RCL1; RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
100230734  POP1; ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
100227716  RPP38; ribonuclease P protein subunit p38 isoform X2 [KO:K14523] [EC:3.1.26.5]
100231396  POP4; ribonuclease P protein subunit p29 isoform X1 [KO:K03538] [EC:3.1.26.5]
100222806  POP5; ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
100229963  RPP25L; ribonuclease P protein subunit p25-like protein isoform X2 [KO:K14525] [EC:3.1.26.5]
115492725  POP7; ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
100227590  RPP30; ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
100223943  RPP40; ribonuclease P protein subunit p40 isoform X2 [KO:K14530] [EC:3.1.26.5]
100228008  REXO5; RNA exonuclease 5 [KO:K14570] [EC:3.1.-.-]
100226237  REXO1; RNA exonuclease 1 homolog isoform X1 [KO:K14570] [EC:3.1.-.-]
100226295  REXO2; oligoribonuclease, mitochondrial [KO:K13288] [EC:3.1.-.-]
100232132  XRN1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
100225776  XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
100226123  GTPBP4; nucleolar GTP-binding protein 1 [KO:K06943]
100228570  GNL2; nucleolar GTP-binding protein 2 [KO:K14537]
100231668  GNL3; guanine nucleotide-binding protein-like 3 [KO:K14538]
100218120  NVL; nuclear valosin-containing protein-like [KO:K14571]
100223488  MDN1; midasin isoform X1 [KO:K14572]
100217941  NOB1; RNA-binding protein NOB1 [KO:K11883]
100190162  RAN; GTP-binding nuclear protein Ran [KO:K07936]
100220104  XPO1; exportin-1 isoform X1 [KO:K14290]
100226905  NMD3; 60S ribosomal export protein NMD3 [KO:K07562]
115492082  NXF1; nuclear RNA export factor 1 [KO:K14284]
100232267  NXT2; NTF2-related export protein 2 isoform X2 [KO:K14285]
100218116  EIF6; eukaryotic translation initiation factor 6 [KO:K03264]
100231252  EFL1; elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
100230741  LSG1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
100221993  SPATA5; ATPase family protein 2 homolog [KO:K14575]
100228585  AK6; adenylate kinase isoenzyme 6 [KO:K18532] [EC:2.7.4.3]
100222920  RIOK1; serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
100218856  RIOK2; serine/threonine-protein kinase RIO2 [KO:K07179] [EC:2.7.11.1]
116807673  18S ribosomal RNA [KO:K01979]
116807669  5.8S ribosomal RNA [KO:K01986]
116807671  28S ribosomal RNA [KO:K01982]
116807670  28S ribosomal RNA [KO:K01982]
115496470  5S ribosomal RNA [KO:K01981]
115496499  5S ribosomal RNA [KO:K01981]
115497831  small nucleolar RNA U3 [KO:K14483]
115497843  small nucleolar RNA U3 [KO:K14483]
115497844  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
tgu03010  Ribosome
KO pathway
ko03008   
LinkDB

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