KEGG   PATHWAY: dsp03008
Entry
dsp03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Dipodomys spectabilis (banner-tailed kangaroo rat)
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
dsp03008  Ribosome biogenesis in eukaryotes
dsp03008

Organism
Dipodomys spectabilis (banner-tailed kangaroo rat) [GN:dsp]
Gene
122111124  Csnk2b; casein kinase II subunit beta [KO:K03115]
122120178  Csnk2a1; casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
122102234  Csnk2a2; casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
122123520  Nol6; nucleolar protein 6 isoform X1 [KO:K14544]
122123580  Rrp7a; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
122122484  Wdr43; WD repeat-containing protein 43 [KO:K14546]
122126248  Utp4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
122117277  Utp15; U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
122113141  Heatr1; HEAT repeat-containing protein 1 [KO:K14550]
122115014  Wdr75; WD repeat-containing protein 75 [KO:K14552]
122103427  Utp18; U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
122118163  Wdr36; WD repeat-containing protein 36 [KO:K14554]
122123698  Tbl3; transducin beta-like protein 3 [KO:K14555]
122095225  LOW QUALITY PROTEIN: WD repeat-containing protein 3-like [KO:K14556]
122118309  Wdr3; WD repeat-containing protein 3 isoform X1 [KO:K14556]
122118882  Utp6; U3 small nucleolar RNA-associated protein 6 homolog [KO:K14557]
122114316  Pwp2; periodic tryptophan protein 2 homolog [KO:K14558]
122123992  Mphosph10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
122098427  Imp3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
122112374  Imp4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
122118062  Tcof1; treacle protein [KO:K14562]
122097597  Fbl; rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
122099669  Fbll1; rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1 [KO:K14563] [EC:2.1.1.-]
122120165  Nop56; nucleolar protein 56 [KO:K14564]
122096432  Nop58; nucleolar protein 58 isoform X1 [KO:K14565]
122123576  Snu13; NHP2-like protein 1 isoform X1 [KO:K12845]
122096993  Dkc1; H/ACA ribonucleoprotein complex subunit DKC1 [KO:K11131] [EC:5.4.99.-]
122115421  Nhp2; H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
122127238  Gar1; H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
122114524  Nop10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
122118715  Fcf1; rRNA-processing protein FCF1 homolog [KO:K14566]
122112584  U3 small nucleolar RNA-associated protein 14 homolog A-like [KO:K14567]
122109954  Utp14a; U3 small nucleolar RNA-associated protein 14 homolog A isoform X1 [KO:K14567]
122116931  Drosha; ribonuclease 3 isoform X1 [KO:K03685] [EC:3.1.26.3]
122101957  Emg1; ribosomal RNA small subunit methyltransferase NEP1 [KO:K14568] [EC:2.1.1.260]
122122275  Bms1; ribosome biogenesis protein BMS1 homolog [KO:K14569]
122117627  Nat10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
122124698  Rcl1; RNA 3'-terminal phosphate cyclase-like protein isoform X1 [KO:K11108]
122102351  Pop1; ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
122113229  Rpp38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
122097535  Pop4; ribonuclease P protein subunit p29 isoform X1 [KO:K03538] [EC:3.1.26.5]
122099020  Pop5; ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
122121890  Rpp25l; ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
122098446  Rpp25; ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
122113624  Pop7; ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
122115972  Rpp30; ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
122108403  Rpp40; LOW QUALITY PROTEIN: ribonuclease P protein subunit p40 [KO:K14530] [EC:3.1.26.5]
122108409  ribonuclease P protein subunit p40-like [KO:K14530] [EC:3.1.26.5]
122117892  ribonuclease P protein subunit p40-like [KO:K14530] [EC:3.1.26.5]
122122751  Rexo1; RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
122110340  Rexo2; oligoribonuclease, mitochondrial [KO:K13288] [EC:3.1.-.-]
122095262  Xrn1; 5'-3' exoribonuclease 1 isoform X1 [KO:K12618] [EC:3.1.13.-]
122096046  Xrn2; 5'-3' exoribonuclease 2 isoform X1 [KO:K12619] [EC:3.1.13.-]
122113158  Gtpbp4; GTP-binding protein 4 [KO:K06943]
122104442  Gnl2; nucleolar GTP-binding protein 2 [KO:K14537]
122112065  Gnl3l; guanine nucleotide-binding protein-like 3-like protein [KO:K14538]
122107864  Gnl3; guanine nucleotide-binding protein-like 3 [KO:K14538]
122101916  Nvl; nuclear valosin-containing protein-like [KO:K14571]
122107718  Mdn1; midasin [KO:K14572]
122121826  Rbm28; RNA-binding protein 28 isoform X1 [KO:K14573]
122126123  Nob1; RNA-binding protein NOB1 [KO:K11883]
122101938  Ran; GTP-binding nuclear protein Ran [KO:K07936]
122117430  Xpo1; exportin-1 [KO:K14290]
122107287  Nmd3; 60S ribosomal export protein NMD3 isoform X1 [KO:K07562]
122104902  Nxf1; nuclear RNA export factor 1 [KO:K14284]
122114924  Nxf3; nuclear RNA export factor 3 [KO:K14284]
122096057  Nxt1; NTF2-related export protein 1 [KO:K14285]
122114314  NTF2-related export protein 2-like [KO:K14285]
122116399  Nxt2; NTF2-related export protein 2 isoform X1 [KO:K14285]
122120348  Eif6; eukaryotic translation initiation factor 6 [KO:K03264]
122114886  Sbds; ribosome maturation protein SBDS [KO:K14574]
122099080  Efl1; elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
122098631  Lsg1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
122119076  Spata5; ATPase family protein 2 homolog isoform X1 [KO:K14575]
122117085  Ak6; adenylate kinase isoenzyme 6 isoform X1 [KO:K18532] [EC:2.7.4.3]
122114043  Riok1; serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
122117247  Riok2; serine/threonine-protein kinase RIO2 [KO:K07179] [EC:2.7.11.1]
122102909  18S ribosomal RNA [KO:K01979]
122102721  18S ribosomal RNA [KO:K01979]
122102121  18S ribosomal RNA [KO:K01979]
122102872  18S ribosomal RNA [KO:K01979]
122102843  18S ribosomal RNA [KO:K01979]
122127614  18S ribosomal RNA [KO:K01979]
122095336  5.8S ribosomal RNA [KO:K01986]
122102877  28S ribosomal RNA [KO:K01982]
122102874  28S ribosomal RNA [KO:K01982]
122098730  28S ribosomal RNA [KO:K01982]
122112229  5S ribosomal RNA [KO:K01981]
122112303  5S ribosomal RNA [KO:K01981]
122103615  small nucleolar RNA U3 [KO:K14483]
122107307  small nucleolar RNA U3 [KO:K14483]
122120457  small nucleolar RNA U3 [KO:K14483]
122107320  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
dsp03010  Ribosome
KO pathway
ko03008   
LinkDB

DBGET integrated database retrieval system