KEGG PATHWAY: ngr03008

PATHWAY: ngr03008

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

Pathway map

ngr03008

Ribosome biogenesis in eukaryotes

Module

ngr_M00425

H/ACA ribonucleoprotein complex [PATH:ngr03008]

Organism

Naegleria gruberi [GN:ngr]

Gene

NAEGRDRAFT_71259	hypothetical protein; K03115 casein kinase II subunit beta [KO:K03115]
NAEGRDRAFT_75313	hypothetical protein; K03097 casein kinase II subunit alpha [EC:2.7.11.1] [KO:K03097] [EC:2.7.11.1]
NAEGRDRAFT_64289	hypothetical protein; K03097 casein kinase II subunit alpha [EC:2.7.11.1] [KO:K03097] [EC:2.7.11.1]
NAEGRDRAFT_51361	hypothetical protein; K14544 U3 small nucleolar RNA-associated protein 22 [KO:K14544]
NAEGRDRAFT_75803	hypothetical protein; K14545 ribosomal RNA-processing protein 7 [KO:K14545]
NAEGRDRAFT_77954	hypothetical protein; K14546 U3 small nucleolar RNA-associated protein 5 [KO:K14546]
NAEGRDRAFT_61327	hypothetical protein; K14548 U3 small nucleolar RNA-associated protein 4 [KO:K14548]
NAEGRDRAFT_79190	WD40 repeat domain-containing protein; K14549 U3 small nucleolar RNA-associated protein 15 [KO:K14549]
NAEGRDRAFT_80021	hypothetical protein; K14550 U3 small nucleolar RNA-associated protein 10 [KO:K14550]
NAEGRDRAFT_79137	WD40 repeat domain-containing protein; K14552 NET1-associated nuclear protein 1 (U3 small nucleolar RNA-associated protein 17) [KO:K14552]
NAEGRDRAFT_45194	hypothetical protein; K14553 U3 small nucleolar RNA-associated protein 18 [KO:K14553]
NAEGRDRAFT_77811	hypothetical protein; K14554 U3 small nucleolar RNA-associated protein 21 [KO:K14554]
NAEGRDRAFT_79671	hypothetical protein; K14555 U3 small nucleolar RNA-associated protein 13 [KO:K14555]
NAEGRDRAFT_78881	WD40 repeat domain-containing protein; K14556 U3 small nucleolar RNA-associated protein 12 [KO:K14556]
NAEGRDRAFT_61522	hypothetical protein; K14557 U3 small nucleolar RNA-associated protein 6 [KO:K14557]
NAEGRDRAFT_80729	hypothetical protein; K14558 periodic tryptophan protein 2 [KO:K14558]
NAEGRDRAFT_78642	U3 snoRNP protein; K14559 U3 small nucleolar RNA-associated protein MPP10 [KO:K14559]
NAEGRDRAFT_61280	hypothetical protein; K14560 U3 small nucleolar ribonucleoprotein protein IMP3 [KO:K14560]
NAEGRDRAFT_60788	hypothetical protein; K14561 U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
NAEGRDRAFT_81136	fibrillarin; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
NAEGRDRAFT_65440	hypothetical protein; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
NAEGRDRAFT_58777	nucleolar protein 5A; K14564 nucleolar protein 56 [KO:K14564]
NAEGRDRAFT_71796	NOP58-like protein; K14565 nucleolar protein 58 [KO:K14565]
NAEGRDRAFT_81334	hypothetical protein; K14565 nucleolar protein 58 [KO:K14565]
NAEGRDRAFT_71325	hypothetical protein; K12845 U4/U6 small nuclear ribonucleoprotein SNU13 [KO:K12845]
NAEGRDRAFT_80134	hypothetical protein; K11131 H/ACA ribonucleoprotein complex subunit 4 [EC:5.4.99.-] [KO:K11131] [EC:5.4.99.-]
NAEGRDRAFT_75197	hypothetical protein; K11129 H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
NAEGRDRAFT_78440	small nucleolar RNP Gar1p; K11128 H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
NAEGRDRAFT_5785	hypothetical protein; K11130 H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
NAEGRDRAFT_4516	hypothetical protein; K14566 U3 small nucleolar RNA-associated protein 24 [KO:K14566]
NAEGRDRAFT_61218	hypothetical protein; K14567 U3 small nucleolar RNA-associated protein 14 [KO:K14567]
NAEGRDRAFT_60179	hypothetical protein; K14568 rRNA small subunit pseudouridine methyltransferase Nep1 [EC:2.1.1.260] [KO:K14568] [EC:2.1.1.260]
NAEGRDRAFT_78491	ribosome assembly protein BSM1; K14569 ribosome biogenesis protein BMS1 [KO:K14569]
NAEGRDRAFT_29437	hypothetical protein; K14521 N-acetyltransferase 10 [EC:2.3.1.-] [KO:K14521] [EC:2.3.1.-]
NAEGRDRAFT_44203	hypothetical protein; K11108 RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
NAEGRDRAFT_77967	AM42; hypothetical protein [KO:K01164] [EC:3.1.26.5]
NAEGRDRAFT_51536	hypothetical protein; K03538 ribonuclease P protein subunit POP4 [EC:3.1.26.5] [KO:K03538] [EC:3.1.26.5]
NAEGRDRAFT_59694	exonuclease family protein; K14570 RNA exonuclease 1 [EC:3.1.-.-] [KO:K14570] [EC:3.1.-.-]
NAEGRDRAFT_77014	hypothetical protein; K13288 oligoribonuclease [EC:3.1.-.-] [KO:K13288] [EC:3.1.-.-]
NAEGRDRAFT_30577	hypothetical protein; K13288 oligoribonuclease [EC:3.1.-.-] [KO:K13288] [EC:3.1.-.-]
NAEGRDRAFT_81445	hypothetical protein; K12618 5'-3' exoribonuclease 1 [EC:3.1.13.-] [KO:K12618] [EC:3.1.13.-]
NAEGRDRAFT_79174	5'-3' exoribonuclease 1; K12619 5'-3' exoribonuclease 2 [EC:3.1.13.-] [KO:K12619] [EC:3.1.13.-]
NAEGRDRAFT_57596	5'-3' exoribonuclease; K12619 5'-3' exoribonuclease 2 [EC:3.1.13.-] [KO:K12619] [EC:3.1.13.-]
NAEGRDRAFT_55845	hypothetical protein; K06943 nucleolar GTP-binding protein [KO:K06943]
NAEGRDRAFT_36584	hypothetical protein; K14537 nuclear GTP-binding protein [KO:K14537]
NAEGRDRAFT_78391	nucleostemin family protein; K14538 nuclear GTP-binding protein [KO:K14538]
NAEGRDRAFT_81676	hypothetical protein; K14571 ribosome biogenesis ATPase [KO:K14571]
NAEGRDRAFT_78945	midasin; K14572 midasin [KO:K14572]
NAEGRDRAFT_62501	RNA recognition motif-containing protein; K14573 nucleolar protein 4 [KO:K14573]
NAEGRDRAFT_31334	hypothetical protein; K11883 RNA-binding protein NOB1 [KO:K11883]
NAEGRDRAFT_33472	ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
NAEGRDRAFT_72321	ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
NAEGRDRAFT_32121	ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
NAEGRDRAFT_67812	ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
NAEGRDRAFT_37563	ran family small GTPase; K07936 GTP-binding nuclear protein Ran [KO:K07936]
NAEGRDRAFT_38348	exportin-1; K14290 exportin-1 [KO:K14290]
NAEGRDRAFT_36359	hypothetical protein; K07562 nonsense-mediated mRNA decay protein 3 [KO:K07562]
NAEGRDRAFT_65564	hypothetical protein; K07562 nonsense-mediated mRNA decay protein 3 [KO:K07562]
NAEGRDRAFT_67690	AM44; hypothetical protein [KO:K14284]
NAEGRDRAFT_81588	hypothetical protein; K03264 translation initiation factor 6 [KO:K03264]
NAEGRDRAFT_58488	Shwachman-Bodian-Diamond syndrome protein; K14574 ribosome maturation protein SDO1 [KO:K14574]
NAEGRDRAFT_59085	hypothetical protein; K14536 ribosome assembly protein 1 [EC:3.6.5.-] [KO:K14536] [EC:3.6.5.-]
NAEGRDRAFT_77762	large subunit GTPase 1; K14539 large subunit GTPase 1 [EC:3.6.1.-] [KO:K14539] [EC:3.6.1.-]
NAEGRDRAFT_48022	hypothetical protein; K14575 AAA family ATPase [KO:K14575]
NAEGRDRAFT_44441	hypothetical protein; K14535 transcription initiation factor TFIID subunit 9 / adenylate kinase [EC:2.7.4.3] [KO:K14535] [EC:2.7.4.3]
NAEGRDRAFT_81480	hypothetical protein; K07178 RIO kinase 1 [EC:2.7.11.1] [KO:K07178] [EC:2.7.11.1]
NAEGRDRAFT_1175	tentative rio kinase; K07178 RIO kinase 1 [EC:2.7.11.1] [KO:K07178] [EC:2.7.11.1]
NAEGRDRAFT_80925	hypothetical protein; K07178 RIO kinase 1 [EC:2.7.11.1] [KO:K07178] [EC:2.7.11.1]
NAEGRDRAFT_69285	hypothetical protein; K07179 RIO kinase 2 [EC:2.7.11.1] [KO:K07179] [EC:2.7.11.1]

Reference

PMID:20174677

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

PMID:17515605

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

PMID:19850913

Authors

Strunk BS, Karbstein K

Title

Powering through ribosome assembly.

Journal

RNA 15:2083-104 (2009)

Reference

PMID:15120992

Authors

Granneman S, Baserga SJ

Title

Ribosome biogenesis: of knobs and RNA processing.

Journal

Exp Cell Res 296:43-50 (2004)

Reference

PMID:19879902

Authors

Kressler D, Hurt E, Bassler J

Title

Driving ribosome assembly.

Journal

Biochim Biophys Acta 1803:673-83 (2010)

KO pathway

ko03008

All links

Pathway (2)   
   KEGG MODULE (1)   
   BioSystems (1)   
Genome (1)   
   KEGG GENOME (1)   
Gene (69)   
   KEGG GENES (69)   
All databases (72)   

Download RDF

DBGET integrated database retrieval system