KEGG   PATHWAY: cel03008
Entry
cel03008                    Pathway                                
Name
Ribosome biogenesis in eukaryotes - Caenorhabditis elegans (nematode)
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
cel03008  Ribosome biogenesis in eukaryotes
cel03008

Organism
Caenorhabditis elegans (nematode) [GN:cel]
Gene
CELE_B0205.7  kin-3; Casein kinase II subunit alpha [KO:K03097] [EC:2.7.11.1]
CELE_B0280.9  B0280.9; U3 small nucleolar RNA-associated protein 18 homolog [KO:K14553]
CELE_C05C8.5  C05C8.5; Exonuclease domain-containing protein [KO:K14570] [EC:3.1.-.-]
CELE_C05D11.9  popl-1; Ribonucleases P/MRP protein subunit popl-1 [KO:K01164] [EC:3.1.26.5]
CELE_C08B6.8  C08B6.8; putative oligoribonuclease [KO:K13288] [EC:3.1.-.-]
CELE_C15C6.4  popl-4; Ribonuclease P protein subunit p29 [KO:K03538] [EC:3.1.26.5]
CELE_C15H11.3  nxf-1; Nuclear RNA export factor 1 [KO:K14284]
CELE_C15H11.6  nxf-2; Nuclear RNA export factor 2 [KO:K14284]
CELE_C25A1.6  nola-3; Putative H/ACA ribonucleoprotein complex subunit 3 [KO:K11130]
CELE_C47B2.5  eif-6; Eukaryotic translation initiation factor 6 [KO:K03264]
CELE_C48B6.2  C48B6.2; U3 small nucleolar ribonucleoprotein imp3 [KO:K14560]
CELE_C53H9.2  C53H9.2; Large subunit GTPase 1 homolog [KO:K14539] [EC:3.6.1.-]
CELE_E02H1.6  E02H1.6; Adenylate kinase isoenzyme 6 homolog [KO:K18532] [EC:2.7.4.3]
CELE_F13H8.2  F13H8.2; Small-subunit processome Utp12 domain-containing protein [KO:K14556]
CELE_F26E4.10  drsh-1; Ribonuclease 3 [KO:K03685] [EC:3.1.26.3]
CELE_F27C1.6  F27C1.6; Small-subunit processome [KO:K14567]
CELE_F30A10.9  F30A10.9; PIN domain-containing protein [KO:K14566]
CELE_F31C3.11  rrn-2.1; 5.8S ribosomal RNA [KO:K01986]
CELE_F31C3.7  rrn-1.1; 18S ribosomal RNA [KO:K01979]
CELE_F31C3.8  rrn-1.2; 18S ribosomal RNA [KO:K01979]
CELE_F31C3.9  rrn-3.1; 26S ribosomal RNA [KO:K01982]
CELE_F52C9.8  pqe-1; Putative RNA exonuclease pqe-1 [KO:K14570] [EC:3.1.-.-]
CELE_F55A12.8  nath-10; RNA cytidine acetyltransferase [KO:K14521] [EC:2.3.1.-]
CELE_F55F10.1  F55F10.1; Midasin [KO:K14572]
CELE_F55F8.3  F55F8.3; Periodic tryptophan protein 2 homolog [KO:K14558]
CELE_H35B03.2  H35B03.2; Ribonuclease P protein subunit p30 [KO:K03539] [EC:3.1.26.5]
CELE_K01C8.9  nst-1; Guanine nucleotide-binding protein-like 3 homolog [KO:K14538]
CELE_K01G5.4  ran-1; GTP-binding nuclear protein ran-1 [KO:K07936]
CELE_K01G5.5  dkc-1; Putative H/ACA ribonucleoprotein complex subunit 4 [KO:K11131] [EC:5.4.99.-]
CELE_K07C5.4  nol-56; Nucleolar protein 56 [KO:K14564]
CELE_K10C3.5  K10C3.5; Tr-type G domain-containing protein [KO:K14536] [EC:3.6.5.-]
CELE_M01B12.5  riok-1; Serine/threonine-protein kinase RIO1 [KO:K07178] [EC:2.7.11.1]
CELE_M28.5  snu-13; Small nuclear ribonucleoprotein associated homolog 13 [KO:K12845]
CELE_R05H10.2  rbm-28; RRM domain-containing protein [KO:K14573]
CELE_T01C3.7  fib-1; rRNA 2'-O-methyltransferase fibrillarin [KO:K14563] [EC:2.1.1.-]
CELE_T01G9.6  kin-10; Casein kinase II subunit beta [KO:K03115]
CELE_T07A9.9  nog-1; Nucleolar GTP-binding protein 1 [KO:K06943]
CELE_T09B4.23  rrn-4.16; 5S ribosomal RNA [KO:K01981]
CELE_T19A6.2  ngp-1; Nucleolar GTP-binding protein 2 [KO:K14537]
CELE_T19C4.11  T19C4.11; Unclassified non-coding RNA T19C4.11 [KO:K14483]
CELE_T25G3.3  T25G3.3; 60S ribosomal export protein NMD3 [KO:K07562]
CELE_T27C5.18  rrn-4.15; 5S ribosomal RNA [KO:K01981]
CELE_W01B11.3  nol-58; Nop domain-containing protein [KO:K14565]
CELE_W06E11.4  sbds-1; Ribosome maturation protein SBDS [KO:K14574]
CELE_Y102A5D.10  rrn-4.12; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.11  rrn-4.13; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.12  rrn-4.14; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.5  rrn-4.7; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.6  rrn-4.8; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.7  rrn-4.9; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.8  rrn-4.10; 5S ribosomal RNA [KO:K01981]
CELE_Y102A5D.9  rrn-4.11; 5S ribosomal RNA [KO:K01981]
CELE_Y105E8B.3  riok-2; Serine/threonine-protein kinase RIO2 [KO:K07179] [EC:2.7.11.1]
CELE_Y23H5B.5  Y23H5B.5; U3 small nucleolar RNA-associated protein 15 homolog [KO:K14549]
CELE_Y39A1A.14  emg-1; Ribosomal RNA small subunit methyltransferase nep-1 [KO:K14568] [EC:2.1.1.260]
CELE_Y39G8C.1  xrn-1; 5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
CELE_Y45F10D.7  Y45F10D.7; WD_REPEATS_REGION domain-containing protein [KO:K14554]
CELE_Y48A6B.3  Y48A6B.3; Putative H/ACA ribonucleoprotein complex subunit 2-like protein [KO:K11129]
CELE_Y48B6A.3  xrn-2; 5'-3' exoribonuclease 2 homolog [KO:K12619] [EC:3.1.13.-]
CELE_Y48C3A.7  mac-1; Protein mac-1 [KO:K14571]
CELE_Y51H7C.11  nol-6; Nucleolar protein 6 [KO:K14544]
CELE_Y53C12B.1  Y53C12B.1; U3 small nucleolar RNA-associated protein 13 C-terminal domain-containing protein [KO:K14555]
CELE_Y54E10BR.4  nobh-1; RNA-binding protein NOB1 [KO:K11883]
CELE_Y56A3A.33  Y56A3A.33; Exonuclease domain-containing protein [KO:K14570] [EC:3.1.-.-]
CELE_Y61A9LA.10  Y61A9LA.10; Bms1-type G domain-containing protein [KO:K14569]
CELE_Y62E10A.24  Y62E10A.24; Ribonuclease P protein subunit p20 [KO:K14527] [EC:3.1.26.5]
CELE_Y66A7A.2  popl-5; Ribonuclease P/MRP protein subunit POP5 [KO:K03537] [EC:3.1.26.5]
CELE_Y66H1A.4  garr-1; putative H/ACA ribonucleoprotein complex subunit 1-like protein [KO:K11128]
CELE_Y71F9AM.5  nxt-1; NTF2-related export protein [KO:K14285]
CELE_Y75B8A.7  Y75B8A.7; U3 small nucleolar ribonucleoprotein MPP10 [KO:K14559]
CELE_ZC434.4  ZC434.4; Ribosomal RNA-processing protein 7 homolog [KO:K14545]
CELE_ZK1127.5  ZK1127.5; putative RNA 3'-terminal phosphate cyclase-like protein [KO:K11108]
CELE_ZK218.12  rrn-4.1; 5S ribosomal RNA [KO:K01981]
CELE_ZK218.16  rrn-4.2; 5S ribosomal RNA [KO:K01981]
CELE_ZK218.17  rrn-4.3; 5S ribosomal RNA [KO:K01981]
CELE_ZK218.18  rrn-4.4; 5S ribosomal RNA [KO:K01981]
CELE_ZK218.19  rrn-4.5; 5S ribosomal RNA [KO:K01981]
CELE_ZK218.20  rrn-4.6; 5S ribosomal RNA [KO:K01981]
CELE_ZK430.1  toe-1; HEAT repeat-containing protein 1 homolog [KO:K14550]
CELE_ZK632.14  ZK632.14; DNA/RNA-binding protein Alba-like domain-containing protein [KO:K14525] [EC:3.1.26.5]
CELE_ZK742.1  xpo-1; Exportin-1 C-terminal domain-containing protein [KO:K14290]
CELE_ZK795.3  ZK795.3; Brix domain-containing protein ZK795.3 [KO:K14561]
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
cel03010  Ribosome
KO pathway
ko03008   

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