Gene

KWMTBOMO07887  Validated by peptides from experiments

Pre Gene Modal

BGIBMGA001188

Annotation

PREDICTED:_exosome_complex_component_RRP43-like_[Amyelois_transitella]

Location

Bomo_Chr13(-):9179803-9182249      View in EpiBrowser

Full name

Exosome complex component RRP43      

Alternative Name

Exosome component 8
Opa-interacting protein 2
Ribosomal RNA-processing protein 43
p9

Location in the cell

Cytoplasmic   Reliability : 2.284

CDS

ATGTCCGAAGTATATAAACTAATACATCCAGTAAAACATTTCAACGATTATATTTCTATCAAAACTAGACTAGACGGAAGAAACTTCGATGAACATCGGAACATAAAGTTAAATGTTAATTCCATAAAAACTGCAGATGCATCGGCCGTAGTTAAATGTGGTAATACAACAGTTGTATGTGGAATAAAACTGGAATTAGCAGTACCAAAAGCTGAAGAACCTGACTTAGGTTTTTTAATAACAAATGTGGAACTACCTGCTTTATGTTCTTCTAAGTATAGACCTGGCCCTCCTTCAGATTATGCACAAGTTATAAATAATATTGTATCAGAAATTATCAAAAATTCTAAATGCATTGATCTAAAAGATCTTTGCATTGTACCAGATAAATTAGCATGGGTTGTGTACTGTGATATGGTGTGTATTGACCATGACGGGAGCCTGGTTGATGCATGCATCATAGCACTGATAGCCAGCTTCAAAACATTACTATTACCATCTGTTAATTATGACACAGAAACAGAAGAAATAAAAGTAGAAACAAATGAGAGGATAAATCTCAAAATCCATGGACTACCGGTAGCTACAAGCTTTGCTGTGTACGAACATTTTCAAAGCCAAATAATATTATTAACTGATCCAACAAATTATGAAGAAGAGATGTGTGGAGGCAATGGATCAAATTTAATAATCTCCTACAACAAAGGCTTATTATGTGGCATTCAGAAATTGGGAGGTGGTAGTTTATCAACAGAAAATAATGAGGAAGCAATAAGATTAGCTGAACAACACACAATAGCAGTGGAGAAAGTAATCAATGCATGTTTAGAAGGAAAAGGAACAAATAAATAA

Protein

MSEVYKLIHPVKHFNDYISIKTRLDGRNFDEHRNIKLNVNSIKTADASAVVKCGNTTVVCGIKLELAVPKAEEPDLGFLITNVELPALCSSKYRPGPPSDYAQVINNIVSEIIKNSKCIDLKDLCIVPDKLAWVVYCDMVCIDHDGSLVDACIIALIASFKTLLLPSVNYDTETEEIKVETNERINLKIHGLPVATSFAVYEHFQSQIILLTDPTNYEEEMCGGNGSNLIISYNKGLLCGIQKLGGGSLSTENNEEAIRLAEQHTIAVEKVINACLEGKGTNK

Description

Non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. In the nucleus, the RNA exosome complex is involved in proper maturation of stable RNA species such as rRNA, snRNA and snoRNA, in the elimination of RNA processing by-products and non-coding 'pervasive' transcripts, such as antisense RNA species and promoter-upstream transcripts (PROMPTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. The RNA exosome may be involved in Ig class switch recombination (CSR) and/or Ig variable region somatic hypermutation (SHM) by targeting AICDA deamination activity to transcribed dsDNA substrates. In the cytoplasm, the RNA exosome complex is involved in general mRNA turnover and specifically degrades inherently unstable mRNAs containing AU-rich elements (AREs) within their 3' untranslated regions, and in RNA surveillance pathways, preventing translation of aberrant mRNAs. It seems to be involved in degradation of histone mRNA. The catalytic inactive RNA exosome core complex of 9 subunits (Exo-9) is proposed to play a pivotal role in the binding and presentation of RNA for ribonucleolysis, and to serve as a scaffold for the association with catalytic subunits and accessory proteins or complexes. EXOSC8 binds to ARE-containing RNAs.

Subunit

Component of the RNA exosome complex. Specifically part of the catalytically inactive RNA exosome core (Exo-9) complex which is believed to associate with catalytic subunits EXOSC10, and DIS3 or DIS3L in cytoplasmic- and nuclear-specific RNA exosome complex forms. Exo-9 is formed by a hexameric ring of RNase PH domain-containing subunits specifically containing the heterodimers EXOSC4-EXOSC9, EXOSC5-EXOSC8 and EXOSC6-EXOSC7, and peripheral S1 domain-containing components EXOSC1, EXOSC2 and EXOSC3 located on the top of the ring structure. Binds outer membrane protein opap from Neisseria gonorrhoeae.

Similarity

Belongs to the RNase PH family.

Keywords

3D-structure   Acetylation   Complete proteome   Cytoplasm   Disease mutation   Exosome   Neurodegeneration   Nucleus   Reference proteome   RNA-binding   rRNA processing  

Feature

chain  Exosome complex component RRP43
sequence variant  In PCH1C; dbSNP:rs606231285.

Uniprot

H9IVA8   A0A2A4JXZ4   A0A3S2NV38   S4P3V4   A0A0N1I9Y5   A0A2H1X1V6   + More
A0A0L7LDK9   A0A194QAD1   A0A212FHC8   I4DPA4   A0A2J7PNN7   A0A067RJ27   A0A194RGK8   A0A2P8ZAR4   D2A0W4   A0A1B6CB03   A0A1B6L851   K7J7Z8   A0A1L8DXY1   A0A158NWG7   A0A1B6FP22   A0A151I515   A0A1L8DXS8   A0A232FEW2   A0A2A3E7S5   A0A151WYP5   E2BFG5   A0A088AJ30   F4WQ24   U4U0H3   A0A026W4F8   A0A1Y1NDX8   E2A2H2   A0A182P5V7   S4RI20   A0A1Y1NDI9   A0A182JYU8   A0A0L8I2M4   K4G0P6   Q17NN4   A0A195ECK5   A0A154PGF9   A0A0L7RBM2   A0A182HBH1   D1MLN6   A0A182WZT4   Q7Q0D9   A0A1C7CZL1   A0A2C9GQY7   A0A182MYT3   A0A2U9B735   A0A3B4ZRT8   A0A182GFJ4   M4A2F0   A0A3B3WC23   G1ST44   A0A096M6U8   A0A087YDH9   A0A2K6FK66   A0A2K6S131   A0A1S3HTH6   A0A3B5QAV1   A0A3P8WX33   A0A1S3HS39   A0A096M429   C1C521   A0A2K6C310   A0A2K5UL24   A0A0D9RZ48   A0A096MWY6   A0A2K5NCM6   A0A2K5JWE8   F7EN38   A0A2K5Q6L9   A0A3B3VZ85   F6R171   G1QMJ8   G1KU91   A0A1Y9IVZ7   A0A182Y1H2   F6QUU0   H0V367   A0A061IL24   A0A1S2ZYJ2   A0A2J8R637   A0A3Q3M6Q7   M3W110   G3TCV5   Q96B26   G1MB91   A0A2K6FK61   A0A2K5DMW5   V4AZC8   A0A2R8ZU31   A0A2J8MLI8   A0A151IJC0   A0A384C7M9   A0A3Q7W2N8   A0A2K6S132  

Pubmed

19121390    23622113    26354079    26227816    22118469    22651552    + More
24845553    29403074    18362917    19820115    20075255    21347285    28648823    20798317    21719571    23537049    24508170    28004739    23056606    17510324    26483478    20920202    12364791    14747013    17210077    20966253    23542700    21993624    24487278    17431167    25319552    25243066    25244985    19892987    23929341    29704459    17975172    15057823    15489334    9466265    11719186    12419256    15231747    16912217    17545563    20531389    21269460    22814378    24989451    17174896    20010809    23254933    22722832    16136131    24813606   

EMBL

BABH01000812    NWSH01000371    PCG76887.1    RSAL01000063    RVE49526.1    GAIX01006279    + More
JAA86281.1    KQ460462    KPJ14630.1    ODYU01012731    SOQ59186.1    JTDY01001539    KOB73613.1    KQ459299    KPJ01955.1    AGBW02008504    OWR53145.1    AK403495    BAM19744.1    NEVH01023380    PNF17952.1    KK852444    KDR23812.1    KQ460205    KPJ16953.1    PYGN01000121    PSN53587.1    KQ971338    EFA02571.1    GEDC01026652    JAS10646.1    GEBQ01020099    JAT19878.1    GFDF01002832    JAV11252.1    ADTU01002971    GECZ01017827    JAS51942.1    KQ976434    KYM87187.1    GFDF01002831    JAV11253.1    NNAY01000312    OXU29296.1    KZ288338    PBC27813.1    KQ982651    KYQ52821.1    GL448037    EFN85487.1    GL888262    EGI63647.1    KB630337    ERL83540.1    KK107429    EZA50937.1    GEZM01005767    JAV95929.1    GL436038    EFN72375.1    GEZM01005765    JAV95931.1    KQ416694    KOF95713.1    JX053323    AFK11551.1    CH477198    EAT48279.1    KQ979074    KYN22841.1    KQ434899    KZC10945.1    KQ414617    KOC68332.1    JXUM01124915    KQ566885    KXJ69755.1    GU196316    ACZ26287.1    AAAB01008986    EAA00202.3    APCN01003308    CP026246    AWO99782.1    JXUM01059638    KQ562064    KXJ76762.1    AYCK01000544    AYCK01000545    BT081950    ACO52081.1    AQIA01029677    AQIB01113704    AHZZ02011068    JSUE03017956    JV046098    AFI36169.1    GAMQ01006417    GAMP01009468    JAB35434.1    JAB43287.1    ADFV01054698    ADFV01054699    AAKN02010618    KE664604    RAZU01000067    ERE89686.1    RLQ76315.1    ABGA01267752    NDHI03003746    PNJ03984.1    PNJ03985.1    AANG04001781    AL138706    CH471075    BC020773    AF025438    ACTA01100680    KB201166    ESO99081.1    AJFE02094469    AACZ04071734    NBAG03000252    PNI60372.1    PNI60373.1    KQ977362    KYN03301.1   

Proteomes

UP000005204    UP000218220    UP000283053    UP000053240    UP000037510    UP000053268    + More
UP000007151    UP000235965    UP000027135    UP000245037    UP000007266    UP000002358    UP000005205    UP000078540    UP000215335    UP000242457    UP000075809    UP000008237    UP000005203    UP000007755    UP000030742    UP000053097    UP000000311    UP000075885    UP000245300    UP000075881    UP000053454    UP000008820    UP000078492    UP000076502    UP000053825    UP000069940    UP000249989    UP000076407    UP000007062    UP000075882    UP000075840    UP000075884    UP000246464    UP000261400    UP000002852    UP000261480    UP000001811    UP000028760    UP000233160    UP000233220    UP000085678    UP000265120    UP000233120    UP000233100    UP000029965    UP000028761    UP000233060    UP000233080    UP000006718    UP000233040    UP000261500    UP000008225    UP000001073    UP000001646    UP000075920    UP000076408    UP000002281    UP000005447    UP000030759    UP000273346    UP000079721    UP000001595    UP000261640    UP000011712    UP000007646    UP000005640    UP000008912    UP000233020    UP000030746    UP000240080    UP000002277    UP000078542    UP000261680    UP000291021    UP000286642   

PRIDE

H9IVA8    Q96B26   

Pfam

PF01138   RNase_PH        + More
PF07910   Peptidase_C78
PF03725   RNase_PH_C
PF15717   PCM1_C

Interpro

IPR001247   ExoRNase_PH_dom1        + More
IPR027408   PNPase/RNase_PH_dom_sf       
IPR033196   Rrp43       
IPR020568   Ribosomal_S5_D2-typ_fold       
IPR038765   Papain-like_cys_pep_sf       
IPR036345   ExoRNase_PH_dom2_sf       
IPR012462   Peptidase_C78_UfSP1/2       
IPR015847   ExoRNase_PH_dom2       
IPR031446   PCM1_C       

SUPFAM

SSF54211   SSF54211        + More
SSF55666   SSF55666       
SSF54001   SSF54001       

Gene 3D

3.30.230.70    

ProteinModelPortal

H9IVA8   A0A2A4JXZ4   A0A3S2NV38   S4P3V4   A0A0N1I9Y5   A0A2H1X1V6   + More
A0A0L7LDK9   A0A194QAD1   A0A212FHC8   I4DPA4   A0A2J7PNN7   A0A067RJ27   A0A194RGK8   A0A2P8ZAR4   D2A0W4   A0A1B6CB03   A0A1B6L851   K7J7Z8   A0A1L8DXY1   A0A158NWG7   A0A1B6FP22   A0A151I515   A0A1L8DXS8   A0A232FEW2   A0A2A3E7S5   A0A151WYP5   E2BFG5   A0A088AJ30   F4WQ24   U4U0H3   A0A026W4F8   A0A1Y1NDX8   E2A2H2   A0A182P5V7   S4RI20   A0A1Y1NDI9   A0A182JYU8   A0A0L8I2M4   K4G0P6   Q17NN4   A0A195ECK5   A0A154PGF9   A0A0L7RBM2   A0A182HBH1   D1MLN6   A0A182WZT4   Q7Q0D9   A0A1C7CZL1   A0A2C9GQY7   A0A182MYT3   A0A2U9B735   A0A3B4ZRT8   A0A182GFJ4   M4A2F0   A0A3B3WC23   G1ST44   A0A096M6U8   A0A087YDH9   A0A2K6FK66   A0A2K6S131   A0A1S3HTH6   A0A3B5QAV1   A0A3P8WX33   A0A1S3HS39   A0A096M429   C1C521   A0A2K6C310   A0A2K5UL24   A0A0D9RZ48   A0A096MWY6   A0A2K5NCM6   A0A2K5JWE8   F7EN38   A0A2K5Q6L9   A0A3B3VZ85   F6R171   G1QMJ8   G1KU91   A0A1Y9IVZ7   A0A182Y1H2   F6QUU0   H0V367   A0A061IL24   A0A1S2ZYJ2   A0A2J8R637   A0A3Q3M6Q7   M3W110   G3TCV5   Q96B26   G1MB91   A0A2K6FK61   A0A2K5DMW5   V4AZC8   A0A2R8ZU31   A0A2J8MLI8   A0A151IJC0   A0A384C7M9   A0A3Q7W2N8   A0A2K6S132  

PDB

6H25     E-value=1.85339e-58,     Score=570

KEGG

101738613    K12586 exosome complex component RRP43 | (RefSeq) exosome complex component RRP43-like

PATHWAY

03018    RNA degradation - Bombyx mori (domestic silkworm)

GO

GO:0006401   GO:0000178   GO:0006396   GO:0004527   GO:0017091   GO:0034475   GO:0034476   GO:0000177   GO:0071042   GO:0000176   GO:0071035   GO:0016075   GO:0000467   GO:0043928   GO:0071028   GO:0034473   GO:0071038   GO:0034427   GO:0021693   GO:0007409   GO:0042552   GO:0042802   GO:0005737   GO:0035925   GO:0005634   GO:0016787   GO:0005829   GO:0006364   GO:0005654   GO:0043488   GO:0005730  

PANTHER

PTHR11097:SF9  

Subcellular location

Cytoplasm  
Nucleus  
Nucleolus  

Length:

283

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.05035

Exp number, first 60 AAs:

0.00041

Total prob of N-in:

0.02139

outside

1  -  283

 

 

Pi

138.765954

Theta

133.040195

Tajima's D

-0.196703

CLR

0.583037

CSRT

0.32048397580121

Interpretation

Possibly Positive selection