KEGG   PATHWAY: acs03018
Entry
acs03018                    Pathway                                
Name
RNA degradation - Anolis carolinensis (green anole)
Description
The correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay exist and both pathways are initiated by poly(A) shortening of the mRNA. In the 5' to 3' pathway, this is followed by decapping which then permits the 5' to 3' exonucleolytic degradation of transcripts. In the 3' to 5' pathway, the exosome, a large multisubunit complex, plays a key role. The exosome exists in archaeal cells, too. In bacteria, endoribonuclease E, a key enzyme involved in RNA decay and processing, organizes a protein complex called degradosome. RNase E or R interacts with the phosphate-dependent exoribonuclease polynucleotide phosphorylase, DEAD-box helicases, and additional factors in the RNA-degrading complex.
Class
Genetic Information Processing; Folding, sorting and degradation
Pathway map
acs03018  RNA degradation
acs03018

Other DBs
GO: 0006401
Organism
Anolis carolinensis (green anole) [GN:acs]
Gene
100567351  dcps; decapping enzyme, scavenger [KO:K12584] [EC:3.6.1.59]
100558775  exosc1; exosome component 1 [KO:K07573]
100562463  exosc2; exosome component 2 [KO:K03679]
100562168  exosc3; exosome component 3 [KO:K03681]
100565161  exosc8; exosome component 8 [KO:K12586]
103280040  exosc6; exosome component 6 [KO:K12587]
100559756  exosc7; exosome component 7 [KO:K12589]
100560496  exosome complex component RRP42 [KO:K12589]
100555705  exosc4; exosome component 4 [KO:K11600]
100558943  exosc5; exosome component 5 [KO:K12590]
100565770  exosc9; exosome component 9 [KO:K03678]
100557156  dis3; DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease [KO:K12585] [EC:3.1.13.-]
100557265  exosome component 10 [KO:K12591] [EC:3.1.13.-]
100560618  c1d; C1D nuclear receptor corepressor [KO:K12592]
100565015  mphosph6; M-phase phosphoprotein 6 [KO:K12593]
100556743  dis3l; DIS3 like exosome 3'-5' exoribonuclease [KO:K18681] [EC:3.1.13.-]
100555466  papd7; non-canonical poly(A) RNA polymerase PAPD7 [KO:K03514] [EC:2.7.7.19]
100560329  papd5; poly(A) RNA polymerase D5, non-canonical [KO:K03514] [EC:2.7.7.19]
100555739  zcchc7; zinc finger CCHC-type containing 7 [KO:K12597]
100556882  skiv2l2; Ski2 like RNA helicase 2 [KO:K12598] [EC:5.6.2.6]
100555592  skiv2l; Ski2 like RNA helicase [KO:K12599] [EC:5.6.2.6]
100561220  ttc37; tetratricopeptide repeat domain 37 [KO:K12600]
100565531  wdr61; WD repeat domain 61 [KO:K12602]
100556448  cnot6l; CCR4-NOT transcription complex subunit 6 like [KO:K12603] [EC:3.1.13.4]
100565621  cnot6; CCR4-NOT transcription complex subunit 6 [KO:K12603] [EC:3.1.13.4]
100561603  cnot1; CCR4-NOT transcription complex subunit 1 [KO:K12604]
100555353  cnot2; CCR4-NOT transcription complex subunit 2 [KO:K12605]
100564141  cnot3; CCR4-NOT transcription complex subunit 3 [KO:K12580]
100553912  cnot4; CCR4-NOT transcription complex subunit 4 [KO:K10643] [EC:2.3.2.27]
100567145  cnot8; CCR4-NOT transcription complex subunit 8 [KO:K12581]
100567331  cnot7; CCR4-NOT transcription complex subunit 7 [KO:K12581]
100565877  cnot9; CCR4-NOT transcription complex subunit 9 [KO:K12606]
100566473  cnot10; CCR4-NOT transcription complex subunit 10 [KO:K12607]
100552515  dhx36; DEAH-box helicase 36 [KO:K14442] [EC:5.6.2.6]
100560800  parn; poly(A)-specific ribonuclease [KO:K01148] [EC:3.1.13.4]
100561016  pnldc1; PARN like, ribonuclease domain containing 1 [KO:K01148] [EC:3.1.13.4]
100554385  btg4; BTG anti-proliferation factor 4 [KO:K14443]
100566448  protein BTG3 [KO:K14443]
100561814  tob1; transducer of ERBB2, 1 [KO:K14443]
100561441  btg1; BTG anti-proliferation factor 1 [KO:K14443]
100559132  btg2; BTG anti-proliferation factor 2 [KO:K14443]
103278861  tob2; transducer of ERBB2, 2 [KO:K14443]
100556539  pabpc4; poly(A) binding protein cytoplasmic 4 [KO:K13126]
100559090  pabpc1; poly(A) binding protein cytoplasmic 1 [KO:K13126]
100561368  pabpc1l; poly(A) binding protein cytoplasmic 1 like [KO:K13126]
100560566  pan2; PAN2 poly(A) specific ribonuclease subunit [KO:K12571] [EC:3.1.13.4]
100556898  pan3; PAN3 poly(A) specific ribonuclease subunit [KO:K12572]
100554670  dcp1a; decapping mRNA 1A [KO:K12610] [EC:3.-.-.-]
100566873  dcp1b; decapping mRNA 1B [KO:K12611] [EC:3.-.-.-]
100561966  dcp2; decapping mRNA 2 [KO:K12613] [EC:3.6.1.62]
100560749  ddx6; DEAD-box helicase 6 [KO:K12614] [EC:5.6.2.7]
103281297  edc3; enhancer of mRNA-decapping protein 3 [KO:K12615]
100551645  enhancer of mRNA-decapping protein 3 [KO:K12615]
100558293  edc4; enhancer of mRNA decapping 4 [KO:K12616]
100564102  patl1; PAT1 homolog 1, processing body mRNA decay factor [KO:K12617]
100562142  xrn1; 5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
100562943  xrn2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
100563390  nudt16; nudix hydrolase 16 [KO:K16855] [EC:3.6.1.62 3.6.1.64]
100551826  lsm1; LSM1 homolog, mRNA degradation associated [KO:K12620]
100566131  lsm2; LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12621]
100553365  lsm3; LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12622]
100555115  lsm5; U6 snRNA-associated Sm-like protein LSm5 [KO:K12624]
100559863  lsm6; LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12625]
100562026  lsm8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
100566193  eno2; enolase 2 [KO:K01689] [EC:4.2.1.11]
100558960  alpha-enolase [KO:K01689] [EC:4.2.1.11]
100564491  alpha-enolase [KO:K01689] [EC:4.2.1.11]
100567956  eno3; beta-enolase [KO:K01689] [EC:4.2.1.11]
100565222  pnpt1; polyribonucleotide nucleotidyltransferase 1 [KO:K00962] [EC:2.7.7.8]
100561110  pfkp; phosphofructokinase, platelet [KO:K00850] [EC:2.7.1.11]
100552812  pfkm; phosphofructokinase, muscle [KO:K00850] [EC:2.7.1.11]
100563919  pfkl; phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
100556293  hspa9; heat shock protein family A (Hsp70) member 9 [KO:K04043]
100558963  hspd1; heat shock protein family D (Hsp60) member 1 [KO:K04077] [EC:5.6.1.7]
Reference
  Authors
Houseley J, Tollervey D
  Title
The many pathways of RNA degradation.
  Journal
Cell 136:763-76 (2009)
DOI:10.1016/j.cell.2009.01.019
Reference
  Authors
Buttner K, Wenig K, Hopfner KP
  Title
The exosome: a macromolecular cage for controlled RNA degradation.
  Journal
Mol Microbiol 61:1372-9 (2006)
DOI:10.1111/j.1365-2958.2006.05331.x
Reference
  Authors
Schilders G, van Dijk E, Raijmakers R, Pruijn GJ
  Title
Cell and molecular biology of the exosome: how to make or break an RNA.
  Journal
Int Rev Cytol 251:159-208 (2006)
DOI:10.1016/S0074-7696(06)51005-8
Reference
  Authors
Hartung S, Hopfner KP
  Title
The exosome, plugged.
  Journal
EMBO Rep 8:456-7 (2007)
DOI:10.1038/sj.embor.7400961
Reference
  Authors
Carpousis AJ
  Title
The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E.
  Journal
Annu Rev Microbiol 61:71-87 (2007)
DOI:10.1146/annurev.micro.61.080706.093440
Reference
  Authors
Marcaida MJ, DePristo MA, Chandran V, Carpousis AJ, Luisi BF
  Title
The RNA degradosome: life in the fast lane of adaptive molecular evolution.
  Journal
Trends Biochem Sci 31:359-65 (2006)
DOI:10.1016/j.tibs.2006.05.005
Reference
  Authors
Condon C
  Title
Maturation and degradation of RNA in bacteria.
  Journal
Curr Opin Microbiol 10:271-8 (2007)
DOI:10.1016/j.mib.2007.05.008
Related
pathway
acs03015  mRNA surveillance pathway
KO pathway
ko03018   
LinkDB

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