KEGG PATHWAY: ssc03008

PATHWAY: ssc03008

Entry

ssc03008 Pathway

Name

Ribosome biogenesis in eukaryotes - Sus scrofa (pig)

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

ssc03008

Ribosome biogenesis in eukaryotes

Module

ssc_M00425

H/ACA ribonucleoprotein complex [PATH:ssc03008]

Organism

Sus scrofa (pig) [GN:ssc]

Gene

397211	CSNK2B; casein kinase 2, beta polypeptide [KO:K03115]
100517435	casein kinase II subunit alpha-like; K03097 casein kinase II subunit alpha [EC:2.7.11.1] [KO:K03097] [EC:2.7.11.1]
100737256	casein kinase II subunit alpha'-like; K03097 casein kinase II subunit alpha [EC:2.7.11.1] [KO:K03097] [EC:2.7.11.1]
100511276	NOL6; nucleolar protein family 6 (RNA-associated) [KO:K14544]
100625121	ribosomal RNA-processing protein 7 homolog A-like; K14545 ribosomal RNA-processing protein 7 [KO:K14545]
100519832	WD repeat-containing protein 43-like; K14546 U3 small nucleolar RNA-associated protein 5 [KO:K14546]
414432	cirhin; K14548 U3 small nucleolar RNA-associated protein 4 [KO:K14548]
100515474	UTP15; UTP15, U3 small nucleolar ribonucleoprotein, homolog (S. cerevisiae) [KO:K14549]
100154560	HEATR1; HEAT repeat containing 1 [KO:K14550]
100511538	WDR75; WD repeat domain 75 [KO:K14552]
100517967	UTP18; UTP18 small subunit (SSU) processome component homolog (yeast) [KO:K14553]
100627271	WD repeat-containing protein 36-like; K14554 U3 small nucleolar RNA-associated protein 21 [KO:K14554]
100623969	transducin beta-like protein 3-like; K14555 U3 small nucleolar RNA-associated protein 13 [KO:K14555]
100154556	WDR3; WD repeat domain 3 [KO:K14556]
100524172	UTP6; UTP6, small subunit (SSU) processome component, homolog (yeast) [KO:K14557]
100623705	periodic tryptophan protein 2 homolog; K14558 periodic tryptophan protein 2 [KO:K14558]
100153310	MPHOSPH10; M-phase phosphoprotein 10 (U3 small nucleolar ribonucleoprotein) [KO:K14559]
100151831	IMP3; IMP3, U3 small nucleolar ribonucleoprotein, homolog (yeast) [KO:K14560]
100522523	U3 small nucleolar ribonucleoprotein protein IMP4-like; K14561 U3 small nucleolar ribonucleoprotein protein IMP4 [KO:K14561]
100516425	uncharacterized LOC100516425; K14562 Treacher Collins syndrome protein [KO:K14562]
100512568	rRNA/tRNA 2'-O-methyltransferase fibrillarin-like protein 1-like; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
100626002	rRNA 2'-O-methyltransferase fibrillarin-like; K14563 rRNA 2'-O-methyltransferase fibrillarin [EC:2.1.1.-] [KO:K14563] [EC:2.1.1.-]
100512446	NOP56; NOP56 ribonucleoprotein homolog (yeast) [KO:K14564]
100156132	NOP58; NOP58 ribonucleoprotein homolog (yeast) [KO:K14565]
100155420	NHP2L1; NHP2 non-histone chromosome protein 2-like 1 (S. cerevisiae) [KO:K12845]
100152658	NHP2-like protein 1-like; K12845 U4/U6 small nuclear ribonucleoprotein SNU13 [KO:K12845]
100155098	NHP2-like protein 1-like; K12845 U4/U6 small nuclear ribonucleoprotein SNU13 [KO:K12845]
100216430	DKC1; dyskeratosis congenita 1, dyskerin [KO:K11131] [EC:5.4.99.-]
100526157	H/ACA ribonucleoprotein complex subunit 2-like; K11129 H/ACA ribonucleoprotein complex subunit 2 [KO:K11129]
100516629	H/ACA ribonucleoprotein complex subunit 1-like; K11128 H/ACA ribonucleoprotein complex subunit 1 [KO:K11128]
100156164	H/ACA ribonucleoprotein complex subunit 3-like; K11130 H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
100524688	rRNA-processing protein FCF1 homolog; K14566 U3 small nucleolar RNA-associated protein 24 [KO:K14566]
100523416	U3 small nucleolar RNA-associated protein 14 homolog A-like; K14567 U3 small nucleolar RNA-associated protein 14 [KO:K14567]
100627558	EMG1; EMG1 nucleolar protein homolog (S. cerevisiae) [KO:K14568] [EC:2.1.1.260]
100157879	BMS1; BMS1 homolog, ribosome assembly protein (yeast) [KO:K14569]
100511365	NAT10; N-acetyltransferase 10 (GCN5-related) [KO:K14521] [EC:2.3.1.-]
100154484	RCL1; RNA terminal phosphate cyclase-like 1 [KO:K11108]
100739449	ribonucleases P/MRP protein subunit POP1-like; K01164 ribonuclease P/MRP protein subunit POP1 [EC:3.1.26.5] [KO:K01164] [EC:3.1.26.5]
100626611	RPP38; ribonuclease P/MRP 38kDa subunit [KO:K14523] [EC:3.1.26.5]
100523065	ribonuclease P protein subunit p29-like; K03538 ribonuclease P protein subunit POP4 [EC:3.1.26.5] [KO:K03538] [EC:3.1.26.5]
100151786	ribonuclease P/MRP protein subunit POP5-like; K03537 ribonuclease P/MRP protein subunit POP5 [EC:3.1.26.5] [KO:K03537] [EC:3.1.26.5]
100157338	ribonuclease P protein subunit p25-like; K14525 ribonucleases P/MRP protein subunit RPP25 [EC:3.1.26.5] [KO:K14525] [EC:3.1.26.5]
100522095	alba-like protein C9orf23-like; K14525 ribonucleases P/MRP protein subunit RPP25 [EC:3.1.26.5] [KO:K14525] [EC:3.1.26.5]
100627239	ribonuclease P protein subunit p20-like; K14527 ribonuclease P/MRP protein subunit RPP20 [EC:3.1.26.5] [KO:K14527] [EC:3.1.26.5]
100156540	RPP30; ribonuclease P/MRP 30kDa subunit [KO:K03539] [EC:3.1.26.5]
100522444	ribonuclease P protein subunit p40-like; K14530 ribonucleases P/MRP protein subunit RPP40 [EC:3.1.26.5] [KO:K14530] [EC:3.1.26.5]
100513338	RNA exonuclease 1 homolog; K14570 RNA exonuclease 1 [EC:3.1.-.-] [KO:K14570] [EC:3.1.-.-]
100525449	RNA exonuclease 1 homolog; K14570 RNA exonuclease 1 [EC:3.1.-.-] [KO:K14570] [EC:3.1.-.-]
100512042	putative RNA exonuclease NEF-sp-like; K14570 RNA exonuclease 1 [EC:3.1.-.-] [KO:K14570] [EC:3.1.-.-]
100522629	oligoribonuclease; K13288 oligoribonuclease [EC:3.1.-.-] [KO:K13288] [EC:3.1.-.-]
100515927	XRN1; 5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
100517201	XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
100625226	GTPBP4; GTP binding protein 4 [KO:K06943]
100623150	nucleolar GTP-binding protein 2-like; K14537 nuclear GTP-binding protein [KO:K14537]
100155235	GNL3; guanine nucleotide binding protein-like 3 (nucleolar) [KO:K14538]
100521120	guanine nucleotide-binding protein-like 3-like protein-like; K14538 nuclear GTP-binding protein [KO:K14538]
100525725	MDN1; MDN1, midasin homolog (yeast) [KO:K14572]
100628057	RNA-binding protein 28-like; K14573 nucleolar protein 4 [KO:K14573]
100516270	RNA-binding protein NOB1-like; K11883 RNA-binding protein NOB1 [KO:K11883]
397655	RAN; RAN, member RAS oncogene family [KO:K07936]
397330	XPO1; exportin 1 (CRM1 homolog, yeast) [KO:K14290]
100738596	60S ribosomal export protein NMD3-like; K07562 nonsense-mediated mRNA decay protein 3 [KO:K07562]
100153087	NXF2B; nuclear RNA export factor 2B [KO:K14284]
100511855	nuclear RNA export factor 2-like; K14284 nuclear RNA export factor 1/2 [KO:K14284]
100628213	NXF1; nuclear RNA export factor 1 [KO:K14284]
100622292	nuclear RNA export factor 2-like; K14284 nuclear RNA export factor 1/2 [KO:K14284]
100514739	NTF2-related export protein 1-like; K14285 NTF2-related export protein 1/2 [KO:K14285]
100521422	NTF2-related export protein 2-like; K14285 NTF2-related export protein 1/2 [KO:K14285]
100627301	EIF6; eukaryotic translation initiation factor 6 [KO:K03264]
100516003	SBDS; Shwachman-Bodian-Diamond syndrome [KO:K14574]
100155652	EFTUD1; elongation factor Tu GTP binding domain containing 1 [KO:K14536] [EC:3.6.5.-]
100155750	LSG1; large subunit GTPase 1 homolog (S. cerevisiae) [KO:K14539] [EC:3.6.1.-]
100415805	SPATA5; spermatogenesis associated 5 [KO:K14575]
100515933	transcription initiation factor TFIID subunit 9-like; K14535 transcription initiation factor TFIID subunit 9 / adenylate kinase [EC:2.7.4.3] [KO:K14535] [EC:2.7.4.3]
100516765	transcription initiation factor TFIID subunit 9-like; K14535 transcription initiation factor TFIID subunit 9 / adenylate kinase [EC:2.7.4.3] [KO:K14535] [EC:2.7.4.3]
100157926	RIOK1; RIO kinase 1 (yeast) [KO:K07178] [EC:2.7.11.1]
100511553	RIOK2; RIO kinase 2 (yeast) [KO:K07179] [EC:2.7.11.1]
12S_rRNA	12S ribosomal RNA; K01979 small subunit ribosomal RNA [KO:K01979]
16S_rRNA	16S ribosomal RNA; K01982 large subunit ribosomal RNA [KO:K01982]

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 (79)   
   KEGG GENES (79)   
All databases (82)   

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