KEGG   PATHWAY: ppsd03008
Entry
ppsd03008                   Pathway                                
Name
Ribosome biogenesis in eukaryotes - Podospora pseudocomata
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
ppsd03008  Ribosome biogenesis in eukaryotes
ppsd03008

Organism
Podospora pseudocomata [GN:ppsd]
Gene
QC762_113880  CKB2; casein kinase 2 regulatory subunit [KO:K03115]
QC762_403900  CKB1; casein kinase 2 regulatory subunit [KO:K03115]
QC762_111090  CKA2; Casein kinase II subunit alpha' [KO:K03097] [EC:2.7.11.1]
QC762_508820  UTP22; U3 snoRNP protein [KO:K14544]
QC762_200730  uncharacterized protein [KO:K14545]
QC762_310610  UTP5; Small subunit (SSU) processome component [KO:K14546]
QC762_102330  UTP4; U3 small nucleolar RNA-associated protein [KO:K14548]
QC762_213250  utp15; U3 small nucleolar RNA-associated protein 15 [KO:K14549]
QC762_701690  UTP10; snoRNA-binding rRNA-processing protein utp10 [KO:K14550]
QC762_102550  NAN1; NET1-associated nuclear protein 1 [KO:K14552]
QC762_107790  UTP18; U3 snoRNP protein [KO:K14553]
QC762_123730  UTP21; rRNA-processing protein utp21 [KO:K14554]
QC762_209240  utp13; U3 small nucleolar RNA-associated protein 13 [KO:K14555]
QC762_117590  DIP2; beta transducin [KO:K14556]
QC762_502210  UTP6; U3 snoRNP protein [KO:K14557]
QC762_211820  PWP2; U3 snoRNP protein [KO:K14558]
QC762_402560  MPP10; U3 snoRNP protein [KO:K14559]
QC762_201860  imp3; U3 small nucleolar ribonucleoprotein imp3 [KO:K14560]
QC762_209720  IMP4; snoRNA-binding rRNA-processing protein imp4 [KO:K14561]
QC762_212100  NOP1_1; Small subunit processome complex component [KO:K14563] [EC:2.1.1.-]
QC762_512950  nop56; Nucleolar protein 56 [KO:K14564]
QC762_604910  NOP58; Nucleolar protein 58 [KO:K14565]
QC762_202970  SNU13; RNA binding protein snu13 [KO:K12845]
QC762_202910  CBF5; centromere/microtubule-binding protein cbf5 [KO:K11131] [EC:5.4.99.-]
QC762_212720  NHP2; snoRNA-binding protein [KO:K11129]
QC762_505520  GAR1_2; H/ACA snoRNP pseudouridylase subunit [KO:K11128]
QC762_206760  NOP10; snoRNP complex protein [KO:K11130]
QC762_211040  FCF1; rRNA-processing protein fcf1 [KO:K14566]
QC762_406890  hypothetical protein [KO:K14567]
QC762_305020  hypothetical protein [KO:K03685] [EC:3.1.26.3]
QC762_505480  NEP1; 18S rRNA pseudouridine methyltransferase [KO:K14568] [EC:2.1.1.260]
QC762_303600  BMS1; Glycoside hydrolase 2 (Mannanase, beta-galactosidase) [KO:K14569]
QC762_509060  NAT10; N-acetyltransferase 10 [KO:K14521] [EC:2.3.1.-]
QC762_113160  uncharacterized protein [KO:K11108]
QC762_118920  POP1; Ribonucleases P/MRP protein subunit pop1 [KO:K01164] [EC:3.1.26.5]
QC762_0107130  POP3; RNase P and RNase MRP subunit [KO:K14522] [EC:3.1.26.5]
QC762_303010  hypothetical protein [KO:K03538] [EC:3.1.26.5]
QC762_601740  POP5; RNA-binding protein pop5 [KO:K03537] [EC:3.1.26.5]
QC762_610840  hypothetical protein [KO:K14526] [EC:3.1.26.5]
QC762_205530  uncharacterized protein [KO:K14528] [EC:3.1.26.5]
QC762_103180  RPP1; RNA-binding RNA processing protein rpp1 [KO:K03539] [EC:3.1.26.5]
QC762_600930  hypothetical protein [KO:K14530] [EC:3.1.26.5]
QC762_118450  uncharacterized protein [KO:K14570] [EC:3.1.-.-]
QC762_212770  REX3; RNA exonuclease 3 [KO:K14570] [EC:3.1.-.-]
QC762_114260  rex2; Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 2 protein [KO:K13288] [EC:3.1.-.-]
QC762_211400  exo2; exonuclease II Exo2 [KO:K12618] [EC:3.1.13.-]
QC762_605250  RAT1; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
QC762_304270  NOG1; Nucleolar GTP-binding protein 1 [KO:K06943]
QC762_106480  NOG2; GTPase required for pre-60S ribosomal subunit nuclear export and maturation [KO:K14537]
QC762_112050  NUG1; nuclear GTP-binding protein nug1 [KO:K14538]
QC762_308790  RIX7; Ribosome biogenesis ATPase rix7 [KO:K14571]
QC762_710080  MDN1; AAA ATPase midasin [KO:K14572]
QC762_710590  NOP4; RNA recognition motif-containing protein [KO:K14573]
QC762_206770  nob1; 20S-pre-rRNA D-site endonuclease nob1 [KO:K11883]
QC762_118850  HRR25; serine/threonine protein kinase [KO:K14758] [EC:2.7.11.1]
QC762_107290  GSP1; GTP-binding nuclear protein gsp1/Ran [KO:K07936]
QC762_0047970  NMD3_2; ribosome-binding protein [KO:K07562]
QC762_112420  MEX67; nuclear mRNA export, poly(A)+RNA binding protein [KO:K14284]
QC762_209450  uncharacterized protein [KO:K14285]
QC762_707630  TIF6; Eukaryotic translation initiation factor 6 [KO:K03264]
QC762_706800  hypothetical protein [KO:K14574]
QC762_705980  RIA1; Cytoplasmic GTPase/eEF2-like protein (ribosomal biogenesis) [KO:K14536] [EC:3.6.5.-]
QC762_211170  uncharacterized protein [KO:K14539] [EC:3.6.1.-]
QC762_606000  AFG2; AAA+-type ATPase [KO:K14575]
QC762_205460  FAP7; factor activating pos9 [KO:K18532] [EC:2.7.4.3]
QC762_704910  rio1; Serine/threonine-protein kinase rio1 [KO:K07178] [EC:2.7.11.1]
QC762_603160  rio2; Serine/threonine-protein kinase rio2 [KO:K07179] [EC:2.7.11.1]
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
ppsd03010  Ribosome
KO pathway
ko03008   
LinkDB

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