KEGG   PATHWAY: ngr03008Help
Entry
ngr03008                    Pathway                                

Name
Ribosome biogenesis in eukaryotes - Naegleria gruberi
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
BRITE hierarchy
Pathway map
Ribosome biogenesis in eukaryotes
ngr03008

All organismsOrtholog table
Module
H/ACA ribonucleoprotein complex [PATH:ngr03008]
Organism
Naegleria gruberi [GN:ngr]
Gene
hypothetical protein; K03115 casein kinase II subunit beta [KO:K03115]
hypothetical protein; K03097 casein kinase II subunit alpha [EC:2.7.11.1] [KO:K03097] [EC:2.7.11.1]
hypothetical protein; K03097 casein kinase II subunit alpha [EC:2.7.11.1] [KO:K03097] [EC:2.7.11.1]
hypothetical protein; K14544 U3 small nucleolar RNA-associated protein 22 [KO:K14544]
hypothetical protein; K14545 ribosomal RNA-processing protein 7 [KO:K14545]
hypothetical protein; K14546 U3 small nucleolar RNA-associated protein 5 [KO:K14546]
hypothetical protein; K14548 U3 small nucleolar RNA-associated protein 4 [KO:K14548]
WD40 repeat domain-containing protein; K14549 U3 small nucleolar RNA-associated protein 15 [KO:K14549]
hypothetical protein; K14550 U3 small nucleolar RNA-associated protein 10 [KO:K14550]
WD40 repeat domain-containing protein; K14552 NET1-associated nuclear protein 1 (U3 small nucleolar RNA-associated protein 17) [KO:K14552]
hypothetical protein; K14553 U3 small nucleolar RNA-associated protein 18 [KO:K14553]
hypothetical protein; K14554 U3 small nucleolar RNA-associated protein 21 [KO:K14554]
hypothetical protein; K14555 U3 small nucleolar RNA-associated protein 13 [KO:K14555]
WD40 repeat domain-containing protein; K14556 U3 small nucleolar RNA-associated protein 12 [KO:K14556]
hypothetical protein; K14557 U3 small nucleolar RNA-associated protein 6 [KO:K14557]
hypothetical protein; K14558 periodic tryptophan protein 2 [KO:K14558]
U3 snoRNP protein; K14559 U3 small nucleolar RNA-associated protein MPP10 [KO:K14559]
hypothetical protein; K14560 U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
hypothetical protein; K14561 U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
fibrillarin; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
hypothetical protein; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
hypothetical protein; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
nucleolar protein 5A; K14564 nucleolar protein 56 [KO:K14564]
NOP58-like protein; K14565 nucleolar protein 58 [KO:K14565]
hypothetical protein; K14565 nucleolar protein 58 [KO:K14565]
hypothetical protein; K12845 U4/U6 small nuclear ribonucleoprotein SNU13 [KO:K12845]
hypothetical protein; K11131 H/ACA ribonucleoprotein complex subunit 4 [EC:5.4.99.-] [KO:K11131] [EC:5.4.99.-]
hypothetical protein; K11129 H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
small nucleolar RNP Gar1p; K11128 H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
hypothetical protein; K11130 H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
hypothetical protein; K14566 U3 small nucleolar RNA-associated protein 24 [KO:K14566]
hypothetical protein; K14567 U3 small nucleolar RNA-associated protein 14 [KO:K14567]
hypothetical protein; K14568 rRNA small subunit pseudouridine methyltransferase Nep1 [EC:2.1.1.260] [KO:K14568] [EC:2.1.1.260]
ribosome assembly protein BSM1; K14569 ribosome biogenesis protein BMS1 [KO:K14569]
hypothetical protein; K14521 N-acetyltransferase 10 [EC:2.3.1.-] [KO:K14521] [EC:2.3.1.-]
hypothetical protein; K11108 RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
AM42; hypothetical protein [KO:K01164] [EC:3.1.26.5]
hypothetical protein; K03538 ribonuclease P protein subunit POP4 [EC:3.1.26.5] [KO:K03538] [EC:3.1.26.5]
exonuclease family protein; K14570 RNA exonuclease 1 [EC:3.1.-.-] [KO:K14570] [EC:3.1.-.-]
hypothetical protein; K13288 oligoribonuclease [EC:3.1.-.-] [KO:K13288] [EC:3.1.-.-]
hypothetical protein; K13288 oligoribonuclease [EC:3.1.-.-] [KO:K13288] [EC:3.1.-.-]
hypothetical protein; K12618 5'-3' exoribonuclease 1 [EC:3.1.13.-] [KO:K12618] [EC:3.1.13.-]
5'-3' exoribonuclease 1; K12619 5'-3' exoribonuclease 2 [EC:3.1.13.-] [KO:K12619] [EC:3.1.13.-]
5'-3' exoribonuclease; K12619 5'-3' exoribonuclease 2 [EC:3.1.13.-] [KO:K12619] [EC:3.1.13.-]
hypothetical protein; K12619 5'-3' exoribonuclease 2 [EC:3.1.13.-] [KO:K12619] [EC:3.1.13.-]
hypothetical protein; K06943 nucleolar GTP-binding protein [KO:K06943]
hypothetical protein; K14537 nuclear GTP-binding protein [KO:K14537]
nucleostemin family protein; K14538 nuclear GTP-binding protein [KO:K14538]
hypothetical protein; K14571 ribosome biogenesis ATPase [KO:K14571]
midasin; K14572 midasin [KO:K14572]
RNA recognition motif-containing protein; K14573 nucleolar protein 4 [KO:K14573]
hypothetical protein; K11883 RNA-binding protein NOB1 [KO:K11883]
hypothetical protein; K14758 casein kinase I homolog HRR25 [EC:2.7.11.1] [KO:K14758] [EC:2.7.11.1]
ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
exportin-1; K14290 exportin-1 [KO:K14290]
hypothetical protein; K07562 nonsense-mediated mRNA decay protein 3 [KO:K07562]
hypothetical protein; K07562 nonsense-mediated mRNA decay protein 3 [KO:K07562]
AM44; hypothetical protein [KO:K14284]
hypothetical protein; K03264 translation initiation factor 6 [KO:K03264]
Shwachman-Bodian-Diamond syndrome protein; K14574 ribosome maturation protein SDO1 [KO:K14574]
hypothetical protein; K14536 ribosome assembly protein 1 [EC:3.6.5.-] [KO:K14536] [EC:3.6.5.-]
large subunit GTPase 1; K14539 large subunit GTPase 1 [EC:3.6.1.-] [KO:K14539] [EC:3.6.1.-]
hypothetical protein; K14575 AAA family ATPase [KO:K14575]
hypothetical protein; K14535 transcription initiation factor TFIID subunit 9 / adenylate kinase [EC:2.7.4.3] [KO:K14535] [EC:2.7.4.3]
hypothetical protein; K07178 RIO kinase 1 [EC:2.7.11.1] [KO:K07178] [EC:2.7.11.1]
tentative rio kinase; K07178 RIO kinase 1 [EC:2.7.11.1] [KO:K07178] [EC:2.7.11.1]
hypothetical protein; K07178 RIO kinase 1 [EC:2.7.11.1] [KO:K07178] [EC:2.7.11.1]
hypothetical protein; K07179 RIO kinase 2 [EC:2.7.11.1] [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)
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)
Reference
  Authors
Strunk BS, Karbstein K
  Title
Powering through ribosome assembly.
  Journal
RNA 15:2083-104 (2009)
Reference
  Authors
Granneman S, Baserga SJ
  Title
Ribosome biogenesis: of knobs and RNA processing.
  Journal
Exp Cell Res 296:43-50 (2004)
Reference
  Authors
Kressler D, Hurt E, Bassler J
  Title
Driving ribosome assembly.
  Journal
Biochim Biophys Acta 1803:673-83 (2010)
KO pathway
 

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