ENTRY ko03018 Pathway NAME RNA degradation 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 ko03018 RNA degradation DBLINKS GO: 0006401 ORTHOLOGY K12584 m7GpppX diphosphatase [EC:3.6.1.59] K07573 exosome complex component CSL4 K03679 exosome complex component RRP4 K03681 exosome complex component RRP40 K12586 exosome complex component RRP43 K12587 exosome complex component MTR3 K12589 exosome complex component RRP42 K11600 exosome complex component RRP41 K12590 exosome complex component RRP46 K03678 exosome complex component RRP45 K12585 exosome complex exonuclease DIS3/RRP44 [EC:3.1.13.-] K12591 exosome complex exonuclease RRP6 [EC:3.1.13.-] K12592 exosome complex protein LRP1 K12593 M-phase phosphoprotein 6, animal type K12594 M-phase phosphoprotein 6, fungi type K18681 DIS3-like exonuclease 1 [EC:3.1.13.-] K12595 superkiller protein 7 K03514 non-canonical poly(A) RNA polymerase PAPD5/7 [EC:2.7.7.19] K12596 poly(A) RNA polymerase K12597 protein AIR1/2 K12598 ATP-dependent RNA helicase DOB1 [EC:5.6.2.6] K12599 antiviral helicase SKI2 [EC:5.6.2.6] K12600 superkiller protein 3 K12601 superkiller protein 8 K12602 WD repeat-containing protein 61 K12603 CCR4-NOT transcription complex subunit 6 [EC:3.1.13.4] K12604 CCR4-NOT transcription complex subunit 1 K12605 CCR4-NOT transcription complex subunit 2 K12580 CCR4-NOT transcription complex subunit 3 K10643 CCR4-NOT transcription complex subunit 4 [EC:2.3.2.27] K12581 CCR4-NOT transcription complex subunit 7/8 K12606 CCR4-NOT transcription complex subunit 9 K12607 CCR4-NOT transcription complex subunit 10 K12608 CCR4-NOT complex subunit CAF16 K12609 CCR4-NOT transcriptional complex subunit CAF120 K14442 ATP-dependent RNA helicase DHX36 [EC:5.6.2.6] K01148 poly(A)-specific ribonuclease [EC:3.1.13.4] K14443 protein Tob/BTG K13126 polyadenylate-binding protein K12571 PAB-dependent poly(A)-specific ribonuclease subunit 2 [EC:3.1.13.4] K12572 PAB-dependent poly(A)-specific ribonuclease subunit 3 K12610 mRNA-decapping enzyme 1A [EC:3.-.-.-] K12611 mRNA-decapping enzyme 1B [EC:3.-.-.-] K12612 mRNA-decapping enzyme subunit 1 K12613 mRNA-decapping enzyme subunit 2 [EC:3.6.1.62] K12614 ATP-dependent RNA helicase DDX6/DHH1 [EC:5.6.2.7] K12615 enhancer of mRNA-decapping protein 3 K12616 enhancer of mRNA-decapping protein 4 K12617 DNA topoisomerase 2-associated protein PAT1 K12618 5'-3' exoribonuclease 1 [EC:3.1.13.-] K12619 5'-3' exoribonuclease 2 [EC:3.1.13.-] K16855 U8 snoRNA-decapping enzyme [EC:3.6.1.62 3.6.1.64] K12620 U6 snRNA-associated Sm-like protein LSm1 K12621 U6 snRNA-associated Sm-like protein LSm2 K12622 U6 snRNA-associated Sm-like protein LSm3 K12623 U6 snRNA-associated Sm-like protein LSm4 K12624 U6 snRNA-associated Sm-like protein LSm5 K12625 U6 snRNA-associated Sm-like protein LSm6 K12626 U6 snRNA-associated Sm-like protein LSm7 K12627 U6 snRNA-associated Sm-like protein LSm8 K08311 putative (di)nucleoside polyphosphate hydrolase [EC:3.6.1.-] K08300 ribonuclease E [EC:3.1.26.12] K03732 ATP-dependent RNA helicase RhlB [EC:5.6.2.7] K01689 enolase 1/2/3 [EC:4.2.1.11] K00962 polyribonucleotide nucleotidyltransferase [EC:2.7.7.8] K11927 ATP-dependent RNA helicase RhlE [EC:5.6.2.7] K12573 ribonuclease R [EC:3.1.13.1] K05592 ATP-dependent RNA helicase DeaD [EC:5.6.2.7] K03654 ATP-dependent DNA helicase RecQ [EC:5.6.2.4] K03628 transcription termination factor Rho K18682 ribonucrease Y [EC:3.1.-.-] K12574 ribonuclease J [EC:3.1.-.-] K00850 6-phosphofructokinase 1 [EC:2.7.1.11] K04043 molecular chaperone DnaK K04077 chaperonin GroEL [EC:5.6.1.7] K03666 host factor-I protein K00937 polyphosphate kinase [EC:2.7.4.1] K22468 polyphosphate kinase [EC:2.7.4.34] K00970 poly(A) polymerase [EC:2.7.7.19] REFERENCE PMID:19239894 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 PMID:16968219 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 PMID:16939780 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 PMID:17471261 AUTHORS Hartung S, Hopfner KP TITLE The exosome, plugged. JOURNAL EMBO Rep 8:456-7 (2007) DOI:10.1038/sj.embor.7400961 REFERENCE PMID:17447862 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 PMID:16766188 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 PMID:17560162 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 REL_PATHWAY ko03015 mRNA surveillance pathway ///