KEGG   PATHWAY: vpc03008
Entry
vpc03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Vicugna pacos (alpaca)
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
vpc03008  Ribosome biogenesis in eukaryotes
vpc03008

Organism
Vicugna pacos (alpaca) [GN:vpc]
Gene
102545353  CSNK2B; casein kinase II subunit beta [KO:K03115]
102534979  CSNK2A1; LOW QUALITY PROTEIN: casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
102544451  CSNK2A2; casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
102528586  NOL6; LOW QUALITY PROTEIN: nucleolar protein 6 [KO:K14544]
102543387  RRP7A; ribosomal RNA-processing protein 7 homolog A [KO:K14545]
102533372  WDR43; LOW QUALITY PROTEIN: WD repeat-containing protein 43 [KO:K14546]
102541306  UTP4; U3 small nucleolar RNA-associated protein 4 homolog [KO:K14548]
102541008  UTP15; U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
102545872  HEATR1; HEAT repeat-containing protein 1 isoform X1 [KO:K14550]
102535425  WDR75; WD repeat-containing protein 75 isoform X2 [KO:K14552]
102541301  UTP18; U3 small nucleolar RNA-associated protein 18 homolog isoform X1 [KO:K14553]
102531525  WDR36; WD repeat-containing protein 36 [KO:K14554]
102545198  TBL3; transducin beta-like protein 3 isoform X1 [KO:K14555]
102527114  WDR3; WD repeat-containing protein 3 [KO:K14556]
102536756  UTP6; U3 small nucleolar RNA-associated protein 6 homolog isoform X1 [KO:K14557]
102530366  PWP2; periodic tryptophan protein 2 homolog isoform X1 [KO:K14558]
102527686  MPHOSPH10; U3 small nucleolar ribonucleoprotein protein MPP10 [KO:K14559]
102534424  IMP3; U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
102526314  IMP4; U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
102542959  TCOF1; LOW QUALITY PROTEIN: treacle protein [KO:K14562]
102538203  FBLL1; rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1 [KO:K14563] [EC:2.1.1.-]
102526085  FBL; rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
102538159  NOP56; nucleolar protein 56 [KO:K14564]
102545130  NOP58; nucleolar protein 58 isoform X1 [KO:K14565]
102532447  SNU13; NHP2-like protein 1 [KO:K12845]
102544935  DKC1; H/ACA ribonucleoprotein complex subunit DKC1 isoform X1 [KO:K11131] [EC:5.4.99.-]
102526226  NHP2; H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
102538271  GAR1; H/ACA ribonucleoprotein complex subunit 1 isoform X1 [KO:K11128]
102532754  NOP10; H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
102529948  FCF1; rRNA-processing protein FCF1 homolog isoform X1 [KO:K14566]
102544855  UTP14A; U3 small nucleolar RNA-associated protein 14 homolog A [KO:K14567]
102533885  DROSHA; ribonuclease 3 isoform X4 [KO:K03685] [EC:3.1.26.3]
102533764  EMG1; ribosomal RNA small subunit methyltransferase NEP1 isoform X1 [KO:K14568] [EC:2.1.1.260]
102543364  BMS1; ribosome biogenesis protein BMS1 homolog [KO:K14569]
102545605  NAT10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
102544247  RCL1; RNA 3'-terminal phosphate cyclase-like protein isoform X6 [KO:K11108]
102534791  POP1; ribonucleases P/MRP protein subunit POP1 [KO:K01164] [EC:3.1.26.5]
102529968  RPP38; ribonuclease P protein subunit p38 [KO:K14523] [EC:3.1.26.5]
102528129  POP4; ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
102526367  POP5; ribonuclease P/MRP protein subunit POP5 isoform X1 [KO:K03537] [EC:3.1.26.5]
102545364  RPP25L; ribonuclease P protein subunit p25-like protein [KO:K14525] [EC:3.1.26.5]
102532287  RPP25; ribonuclease P protein subunit p25 [KO:K14525] [EC:3.1.26.5]
102535078  POP7; ribonuclease P protein subunit p20 isoform X1 [KO:K14527] [EC:3.1.26.5]
102531346  LOW QUALITY PROTEIN: ribonuclease P protein subunit p20-like [KO:K14527] [EC:3.1.26.5]
102526893  RPP30; ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
102533880  RPP40; ribonuclease P protein subunit p40 isoform X1 [KO:K14530] [EC:3.1.26.5]
102544951  REXO1; RNA exonuclease 1 homolog [KO:K14570] [EC:3.1.-.-]
102536374  REXO5; RNA exonuclease 5 isoform X1 [KO:K14570] [EC:3.1.-.-]
102527401  REXO2; oligoribonuclease, mitochondrial isoform X1 [KO:K13288] [EC:3.1.-.-]
102526352  XRN1; 5'-3' exoribonuclease 1 isoform X3 [KO:K12618] [EC:3.1.13.-]
102544946  XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
102541278  GTPBP4; nucleolar GTP-binding protein 1 isoform X1 [KO:K06943]
102537419  GNL2; nucleolar GTP-binding protein 2 isoform X1 [KO:K14537]
102526009  GNL3L; guanine nucleotide-binding protein-like 3-like protein [KO:K14538]
102527087  GNL3; guanine nucleotide-binding protein-like 3 [KO:K14538]
102530503  NVL; nuclear valosin-containing protein-like isoform X1 [KO:K14571]
102526502  MDN1; midasin isoform X2 [KO:K14572]
102536719  RBM28; RNA-binding protein 28 [KO:K14573]
102530966  NOB1; RNA-binding protein NOB1 [KO:K11883]
102538429  RAN; GTP-binding nuclear protein Ran [KO:K07936]
102545205  LOW QUALITY PROTEIN: GTP-binding nuclear protein Ran-like [KO:K07936]
116282961  GTP-binding nuclear protein Ran-like [KO:K07936]
102530690  XPO1; exportin-1 isoform X1 [KO:K14290]
102528329  NMD3; 60S ribosomal export protein NMD3 isoform X1 [KO:K07562]
102535701  NXF1; nuclear RNA export factor 1 [KO:K14284]
102545717  NXT1; NTF2-related export protein 1 [KO:K14285]
102525841  NXT2; NTF2-related export protein 2 isoform X2 [KO:K14285]
102538231  EIF6; eukaryotic translation initiation factor 6 [KO:K03264]
102537536  SBDS; ribosome maturation protein SBDS [KO:K14574]
102533878  EFL1; elongation factor-like GTPase 1 [KO:K14536] [EC:3.6.5.-]
102541441  LSG1; large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
102535628  SPATA5; ATPase family protein 2 homolog isoform X1 [KO:K14575]
102534628  AK6; adenylate kinase isoenzyme 6 isoform X1 [KO:K18532] [EC:2.7.4.3]
102532483  RIOK1; serine/threonine-protein kinase RIO1 isoform X1 [KO:K07178] [EC:2.7.11.1]
102541500  RIOK2; serine/threonine-protein kinase RIO2 isoform X1 [KO:K07179] [EC:2.7.11.1]
116278557  5.8S ribosomal RNA [KO:K01986]
116283634  small nucleolar RNA U3 [KO:K14483]
116283624  small nucleolar RNA U3 [KO:K14483]
116278559  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
vpc03010  Ribosome
KO pathway
ko03008   
LinkDB

DBGET integrated database retrieval system