Protein : Qrob_P0005830.2 Q. robur
Protein Identifier  ? Qrob_P0005830.2 Organism . Name  Quercus robur
Score  84.1 Score Type  egn
Protein Description  (M=4) K03681 - exosome complex component RRP40 Gene Prediction Quality  validated
Protein length 

Sequence

Length: 286  
Kegg Orthology  K03681
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0 Synonyms

2 GO Terms

Identifier Name Description
GO:0003723 RNA binding Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
GO:0000178 exosome (RNase complex) Complex of 3'-5' exoribonucleases.

28 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|pop:POPTR_0012s08180g 1 240 + 240 none 99.17 242 81.25 3e-141 POPTRDRAFT_728586 exonuclease-related family protein
blastp_kegg lcl|gmx:100791930 1 239 + 239 none 99.58 240 82.01 1e-139 putative exosome complex component rrp40-like
blastp_kegg lcl|pper:PRUPE_ppa010609mg 1 243 + 243 none 100.00 243 79.84 2e-139 hypothetical protein
blastp_kegg lcl|mtr:MTR_5g043110 1 240 + 240 none 100.00 240 80.42 2e-139 Exosome complex exonuclease RRP40
blastp_kegg lcl|pmum:103338342 1 243 + 243 none 100.00 243 79.01 5e-138 putative exosome complex component rrp40
blastp_kegg lcl|pvu:PHAVU_002G091200g 1 240 + 240 none 100.00 240 79.58 2e-136 hypothetical protein
blastp_kegg lcl|mdm:103428292 1 243 + 243 none 100.00 243 79.01 2e-136 putative exosome complex component rrp40
blastp_kegg lcl|pvu:PHAVU_003G111100g 1 240 + 240 none 100.00 240 78.75 1e-135 hypothetical protein
blastp_kegg lcl|mdm:103409717 1 243 + 243 none 100.00 243 78.60 2e-135 putative exosome complex component rrp40
blastp_kegg lcl|mdm:103437720 1 243 + 243 none 100.00 243 78.60 2e-135 putative exosome complex component rrp40
blastp_pdb 2nn6_G 11 238 + 228 Gaps:28 87.89 289 34.65 4e-42 mol:protein length:289 Exosome complex exonuclease RRP40
blastp_pdb 2ja9_A 70 218 + 149 Gaps:2 86.29 175 31.79 3e-23 mol:protein length:175 EXOSOME COMPLEX EXONUCLEASE RRP40
blastp_pdb 2ba0_C 71 204 + 134 Gaps:8 56.77 229 30.00 1e-07 mol:protein length:229 Archeal exosome RNA binding protein RRP4
blastp_pdb 2ba0_B 71 204 + 134 Gaps:8 56.77 229 30.00 1e-07 mol:protein length:229 Archeal exosome RNA binding protein RRP4
blastp_pdb 2ba0_A 71 204 + 134 Gaps:8 56.77 229 30.00 1e-07 mol:protein length:229 Archeal exosome RNA binding protein RRP4
blastp_uniprot_sprot sp|Q7KWX9|EXOS3_DICDI 11 222 + 212 Gaps:5 88.19 237 44.50 1e-53 Putative exosome complex component rrp40 OS Dictyostelium discoideum GN exosc3 PE 3 SV 1
blastp_uniprot_sprot sp|Q3T0E1|EXOS3_BOVIN 11 238 + 228 Gaps:28 92.36 275 35.83 2e-43 Exosome complex component RRP40 OS Bos taurus GN EXOSC3 PE 2 SV 1
blastp_uniprot_sprot sp|Q7TQK4|EXOS3_MOUSE 14 238 + 225 Gaps:20 88.69 274 37.04 3e-43 Exosome complex component RRP40 OS Mus musculus GN Exosc3 PE 1 SV 3
blastp_uniprot_sprot sp|Q9NQT5|EXOS3_HUMAN 11 238 + 228 Gaps:28 92.36 275 34.65 9e-42 Exosome complex component RRP40 OS Homo sapiens GN EXOSC3 PE 1 SV 3
blastp_uniprot_sprot sp|O13903|RRP40_SCHPO 16 239 + 224 Gaps:15 95.42 240 38.43 3e-40 Exosome complex component rrp40 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN rrp40 PE 3 SV 1
blastp_uniprot_sprot sp|Q08285|RRP40_YEAST 16 218 + 203 Gaps:14 87.08 240 29.67 6e-24 Exosome complex component RRP40 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN RRP40 PE 1 SV 2
blastp_uniprot_sprot sp|O29758|RRP4_ARCFU 71 204 + 134 Gaps:8 58.30 223 30.00 4e-07 Exosome complex component Rrp4 OS Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126) GN rrp4 PE 1 SV 1
blastp_uniprot_sprot sp|Q8U0L8|RRP4_PYRFU 72 242 + 171 Gaps:14 64.02 264 28.99 4e-07 Exosome complex component Rrp4 OS Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) GN rrp4 PE 3 SV 1
rpsblast_cdd gnl|CDD|88465 71 156 + 86 none 100.00 86 58.14 2e-29 cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA rRNA and a number of small RNA species. In Saccharomyces cerevisiae the exosome includes nine core components six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4 Rrp40 and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure"..
rpsblast_cdd gnl|CDD|31294 15 228 + 214 Gaps:17 86.61 239 26.57 3e-27 COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation ribosomal structure and biogenesis].
rpsblast_cdd gnl|CDD|179758 71 217 + 147 Gaps:37 62.13 235 26.03 6e-11 PRK04163 PRK04163 exosome complex RNA-binding protein Rrp4 Provisional.
rpsblast_cdd gnl|CDD|88420 71 145 + 75 Gaps:1 92.68 82 28.95 2e-09 cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein and Rrp40 and Csl4 proteins also represented in this group are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA rRNA and a number of small RNA species. In Saccharomyces cerevisiae the exosome includes nine core components six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4 Rrp40 and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure"..
rpsblast_kog gnl|CDD|36222 16 239 + 224 Gaps:9 97.83 230 48.44 7e-62 KOG1004 KOG1004 KOG1004 Exosomal 3'-5' exoribonuclease complex subunit Rrp40 [Translation ribosomal structure and biogenesis].

8 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
Phobius 248 267 20 TRANSMEMBRANE none Region of a membrane-bound protein predicted to be embedded in the membrane. none
SUPERFAMILY 10 70 61 SSF110324 none none none
Phobius 1 247 247 NON_CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. none
PANTHER 9 272 264 PTHR21321:SF3 none none none
PANTHER 9 272 264 PTHR21321 none none IPR026699
SUPERFAMILY 70 162 93 SSF50249 none none IPR012340
SUPERFAMILY 158 240 83 SSF54791 none none IPR004088
Phobius 268 285 18 CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. none

1 Localization

Analysis Start End Length
TMHMM 245 267 22

17 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Champenoux_2015_nPriLBD_3P Qrob_Chr10 10 v_15000_157 v_15000_310 15,68 15,9 15,91 lod 2.4 5.5
Bourran2_2014_nSecLBD_3P Qrob_Chr08 8 s_1BN2OD_551 s_1B5AYF_599 17,17 0 43,51 lod 1,9229 4,4
Bourran2_2014_nLBD*_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,25 0 35,55 lod 2,5951 6
Bourran2_2014_nP*_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,19 0 31,97 lod 2,8472 6
Bourran2_2002_QTL11_peak_Bud_burst_A4 Qrob_Chr06 6 s_1C41PA_791 s_1AM1AV_1141 19,17 0 34,57 lod 2,3 2,9
Bourran2_2014_aSeqBC_3P Qrob_Chr06 6 v_506_189 v_686_77 30,72 13,58 43,48 lod 2,2746 6,3
Bourran2_2014_aSeqBC*_A4 Qrob_Chr06 6 s_2F5MK3_712 v_444_355 27,13 14,86 39,46 lod 3,7847 9,8
Bourran2_2014_nEpis*_3P Qrob_Chr08 8 s_1DA4QW_688 s_1DNI7D_820 17,96 0 37,75 lod 2,9745 7,5
Bourran2_2014_nEpis*_A4 Qrob_Chr07 7 v_12400_446 s_1BPEBU_1211 6,93 0 15,13 lod 4,7411 11
Bourran2_2014_nFork*_3P Qrob_Chr06 6 v_12930_125 s_1AMZEI_909 34,28 7,43 41,48 lod 2,4044 5,5
Bourran2_2014_nLBD_A4 Qrob_Chr06 6 v_12930_125 s_1AMZEI_909 37,41 9,8 50,1 lod 1,9524 4,1
Bourran2_2014_nPriBD_A4 Qrob_Chr06 6 v_12930_125 s_1AMZEI_909 34,51 3,36 51,86 lod 1,6747 3,9
Bourran2_2014_nPriLBD*_3P Qrob_Chr11 11 v_12066_307 s_1B15GJ_447 3,37 0,57 16,17 lod 3,4299 6,9
Bourran2_2014_nSecLBD_A4 Qrob_Chr07 7 v_8327_222 s_1A4WGY_363 16,04 0 44,69 lod 2,6373 6,5
Bourran2_2014_vEpiBC_A4 Qrob_Chr06 6 v_12930_125 s_1AMZEI_909 37,55 14,41 50,01 lod 1,7882 4,8
Champenoux_2015_nEpis_3P Qrob_Chr11 11 s_1DG9PM_867 s_1BZ083_1312 26,53 25,47 27,72 lod 4.4 8.9
Champenoux_2015_nP_3P Qrob_Chr06 6 s_1A386O_228 s_1AYZFS_603 27,03 26,47 27,34 lod 2.8 7.2

0 Targeting