KEGG   PATHWAY: myd03018
Entry
myd03018                    Pathway                                
Name
RNA degradation - Myotis davidii (David's myotis)
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
myd03018  RNA degradation
myd03018

Other DBs
GO: 0006401
Organism
Myotis davidii (David's myotis) [GN:myd]
Gene
102751594  LSM4; LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12623]
102751671  BTG4; BTG anti-proliferation factor 4 [KO:K14443]
102751899  CNOT8; CCR4-NOT transcription complex subunit 8 [KO:K12581]
102751988  [KO:K13126]
102752659  SKIV2L2; Ski2 like RNA helicase 2 [KO:K12598] [EC:3.6.4.13]
102752725  [KO:K12625]
102753256  DCP1B; decapping mRNA 1B [KO:K12611] [EC:3.-.-.-]
102753287  PFKP; phosphofructokinase, platelet [KO:K00850] [EC:2.7.1.11]
102753627  LSM7; LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12626]
102753712  CNOT1; CCR4-NOT transcription complex subunit 1 [KO:K12604]
102753760  PARN; poly(A)-specific ribonuclease [KO:K01148] [EC:3.1.13.4]
102754133  ZCCHC7; zinc finger CCHC-type containing 7 [KO:K12597]
102754325  CNOT10; CCR4-NOT transcription complex subunit 10 [KO:K12607]
102755542  BTG1; BTG anti-proliferation factor 1 [KO:K14443]
102756082  CNOT6; CCR4-NOT transcription complex subunit 6 [KO:K12603] [EC:3.1.13.4]
102756541  ENO2; enolase 2 [KO:K01689] [EC:4.2.1.11]
102756543  PNLDC1; PARN like, ribonuclease domain containing 1 [KO:K01148] [EC:3.1.13.4]
102757208  [KO:K13126]
102757518  CNOT9; CCR4-NOT transcription complex subunit 9 [KO:K12606]
102757826  CNOT2; CCR4-NOT transcription complex subunit 2 [KO:K12605]
102757940  DHX36; DEAH-box helicase 36 [KO:K14442] [EC:3.6.4.13]
102757968  PFKL; phosphofructokinase, liver type [KO:K00850] [EC:2.7.1.11]
102758019  ENO3; enolase 3 [KO:K01689] [EC:4.2.1.11]
102758071  LSM3; LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12622]
102758307  EXOSC2; exosome component 2 [KO:K03679]
102758616  TOB2; transducer of ERBB2, 2 [KO:K14443]
102758701  [KO:K03681]
102758758  WDR61; WD repeat domain 61 [KO:K12602]
102759114  EXOSC9; exosome component 9 [KO:K03678]
102759246  PAN3; PAN3 poly(A) specific ribonuclease subunit [KO:K12572]
102759737  DDX6; DEAD-box helicase 6 [KO:K12614] [EC:3.6.4.13]
102759792  XRN2; 5'-3' exoribonuclease 2 [KO:K12619] [EC:3.1.13.-]
102759881  HSPD1; heat shock protein family D (Hsp60) member 1 [KO:K04077] [EC:5.6.1.7]
102760124  PAPD5; poly(A) RNA polymerase D5, non-canonical [KO:K03514] [EC:2.7.7.19]
102760982  CNOT6L; CCR4-NOT transcription complex subunit 6 like [KO:K12603] [EC:3.1.13.4]
102761157  DCP1A; decapping mRNA 1A [KO:K12610] [EC:3.-.-.-]
102762483  EDC3; enhancer of mRNA decapping 3 [KO:K12615]
102762740  LSM1; LSM1 homolog, mRNA degradation associated [KO:K12620]
102763509  EXOSC7; exosome component 7 [KO:K12589]
102763599  PABPC1L; poly(A) binding protein cytoplasmic 1 like [KO:K13126]
102763779  CNOT3; CCR4-NOT transcription complex subunit 3 [KO:K12580]
102764279  DIS3L; DIS3 like exosome 3'-5' exoribonuclease [KO:K18681] [EC:3.1.13.-]
102764748  PABPC4; poly(A) binding protein cytoplasmic 4 [KO:K13126]
102764972  CNOT7; CCR4-NOT transcription complex subunit 7 [KO:K12581]
102765099  PAN2; PAN2 poly(A) specific ribonuclease subunit [KO:K12571] [EC:3.1.13.4]
102765959  PABPC1; poly(A) binding protein cytoplasmic 1 [KO:K13126]
102766568  SKIV2L; Ski2 like RNA helicase [KO:K12599] [EC:3.6.4.13]
102767025  PATL1; PAT1 homolog 1, processing body mRNA decay factor [KO:K12617]
102767260  LSM5; LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12624]
102767401  EXOSC10; exosome component 10 [KO:K12591] [EC:3.1.13.-]
102767619  BTG2; BTG anti-proliferation factor 2 [KO:K14443]
102767746  EXOSC3; exosome component 3 [KO:K03681]
102768013  PFKM; phosphofructokinase, muscle [KO:K00850] [EC:2.7.1.11]
102768117  XRN1; 5'-3' exoribonuclease 1 [KO:K12618] [EC:3.1.13.-]
102768689  LSM6; LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12625]
102768869  BTG3; BTG anti-proliferation factor 3 [KO:K14443]
102769337  EDC4; enhancer of mRNA decapping 4 [KO:K12616]
102769387  PNPT1; polyribonucleotide nucleotidyltransferase 1 [KO:K00962] [EC:2.7.7.8]
102769718  NUDT16; nudix hydrolase 16 [KO:K16855] [EC:3.6.1.62 3.6.1.64]
102769834  PABPC5; poly(A) binding protein cytoplasmic 5 [KO:K13126]
102769951  TTC37; tetratricopeptide repeat domain 37 [KO:K12600]
102770423  HSPA9; heat shock protein family A (Hsp70) member 9 [KO:K04043]
102770714  DIS3; DIS3 homolog, exosome endoribonuclease and 3'-5' exoribonuclease [KO:K12585] [EC:3.1.13.-]
102771688  EXOSC4; exosome component 4 [KO:K11600]
102771725  LSM8; LSM8 homolog, U6 small nuclear RNA associated [KO:K12627]
102771873  TOB1; transducer of ERBB2, 1 [KO:K14443]
102772409  PABPC4L; poly(A) binding protein cytoplasmic 4 like [KO:K13126]
102772715  LSM2; LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated [KO:K12621]
102773125  EXOSC1; exosome component 1 [KO:K07573]
102773524  PAPD7; poly(A) RNA polymerase D7, non-canonical [KO:K03514] [EC:2.7.7.19]
102773849  EXOSC5; exosome component 5 [KO:K12590]
102774067  EXOSC8; exosome component 8 [KO:K12586]
102774183  [KO:K12622]
102774242  DCPS; decapping enzyme, scavenger [KO:K12584] [EC:3.6.1.59]
102774407  ENO1; enolase 1 [KO:K01689] [EC:4.2.1.11]
102774826  CNOT4; CCR4-NOT transcription complex subunit 4 [KO:K10643] [EC:2.3.2.27]
102775177  MPHOSPH6; M-phase phosphoprotein 6 [KO:K12593]
102775416  C1D; C1D nuclear receptor corepressor [KO:K12592]
102775483  DCP2; decapping mRNA 2 [KO:K12613] [EC:3.6.1.62]
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
myd03015  mRNA surveillance pathway
KO pathway
ko03018   

DBGET integrated database retrieval system