Protein : Qrob_P0626670.2 Q. robur
Protein Identifier  ? Qrob_P0626670.2 Organism . Name  Quercus robur
Score  0.0 Score Type  egn
Protein Description  (M=4) K03681 - exosome complex component RRP40 Gene Prediction Quality  validated
Protein length 

Sequence

Length: 268  
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|pper:PRUPE_ppa010609mg 1 258 + 258 Gaps:17 100.00 243 85.19 7e-145 hypothetical protein
blastp_kegg lcl|pmum:103338342 1 258 + 258 Gaps:17 100.00 243 84.36 2e-143 putative exosome complex component rrp40
blastp_kegg lcl|gmx:100791930 1 254 + 254 Gaps:17 99.58 240 84.52 2e-143 putative exosome complex component rrp40-like
blastp_kegg lcl|pop:POPTR_0012s08180g 1 255 + 255 Gaps:17 99.17 242 84.17 2e-141 POPTRDRAFT_728586 exonuclease-related family protein
blastp_kegg lcl|mdm:103428292 1 258 + 258 Gaps:17 100.00 243 81.48 2e-138 putative exosome complex component rrp40
blastp_kegg lcl|csv:101208208 1 258 + 258 Gaps:17 100.00 243 83.13 4e-138 putative exosome complex component rrp40-like
blastp_kegg lcl|cmo:103502403 1 258 + 258 Gaps:17 100.00 243 82.72 7e-138 putative exosome complex component rrp40
blastp_kegg lcl|mdm:103409717 1 258 + 258 Gaps:17 100.00 243 81.48 9e-138 putative exosome complex component rrp40
blastp_kegg lcl|mdm:103437720 1 258 + 258 Gaps:17 100.00 243 81.48 9e-138 putative exosome complex component rrp40
blastp_kegg lcl|vvi:100241656 1 255 + 255 Gaps:20 100.00 237 86.08 1e-137 putative exosome complex component rrp40-like
blastp_pdb 2nn6_G 37 253 + 217 Gaps:23 71.97 289 37.50 3e-38 mol:protein length:289 Exosome complex exonuclease RRP40
blastp_pdb 2ja9_A 70 200 + 131 Gaps:3 76.57 175 32.09 2e-20 mol:protein length:175 EXOSOME COMPLEX EXONUCLEASE RRP40
blastp_pdb 2ba0_C 71 200 + 130 Gaps:27 55.46 229 29.92 1e-05 mol:protein length:229 Archeal exosome RNA binding protein RRP4
blastp_pdb 2ba0_B 71 200 + 130 Gaps:27 55.46 229 29.92 1e-05 mol:protein length:229 Archeal exosome RNA binding protein RRP4
blastp_pdb 2ba0_A 71 200 + 130 Gaps:27 55.46 229 29.92 1e-05 mol:protein length:229 Archeal exosome RNA binding protein RRP4
blastp_uniprot_sprot sp|Q7KWX9|EXOS3_DICDI 14 242 + 229 Gaps:20 89.03 237 45.97 2e-53 Putative exosome complex component rrp40 OS Dictyostelium discoideum GN exosc3 PE 3 SV 1
blastp_uniprot_sprot sp|Q7TQK4|EXOS3_MOUSE 37 253 + 217 Gaps:22 75.55 274 38.65 2e-39 Exosome complex component RRP40 OS Mus musculus GN Exosc3 PE 1 SV 3
blastp_uniprot_sprot sp|Q3T0E1|EXOS3_BOVIN 37 253 + 217 Gaps:23 75.64 275 38.46 1e-38 Exosome complex component RRP40 OS Bos taurus GN EXOSC3 PE 2 SV 1
blastp_uniprot_sprot sp|O13903|RRP40_SCHPO 19 254 + 236 Gaps:28 94.17 240 39.38 4e-38 Exosome complex component rrp40 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN rrp40 PE 3 SV 1
blastp_uniprot_sprot sp|Q9NQT5|EXOS3_HUMAN 37 253 + 217 Gaps:23 75.64 275 37.50 7e-38 Exosome complex component RRP40 OS Homo sapiens GN EXOSC3 PE 1 SV 3
blastp_uniprot_sprot sp|Q08285|RRP40_YEAST 34 200 + 167 Gaps:10 73.75 240 29.94 2e-20 Exosome complex component RRP40 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN RRP40 PE 1 SV 2
blastp_uniprot_sprot sp|E3GZ90|RRP4_METFV 69 200 + 132 Gaps:6 57.66 222 29.69 4e-07 Exosome complex component Rrp4 OS Methanothermus fervidus (strain ATCC 43054 / DSM 2088 / JCM 10308 / V24 S) GN rrp4 PE 3 SV 1
blastp_uniprot_sprot sp|Q8U0L8|RRP4_PYRFU 72 201 + 130 Gaps:8 50.00 264 28.03 8e-06 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 56.98 3e-28 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 15 245 + 231 Gaps:35 88.70 239 29.25 1e-22 COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation ribosomal structure and biogenesis].
rpsblast_cdd gnl|CDD|88420 71 145 + 75 Gaps:1 92.68 82 26.32 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_cdd gnl|CDD|179758 71 200 + 130 Gaps:30 55.32 235 30.00 2e-08 PRK04163 PRK04163 exosome complex RNA-binding protein Rrp4 Provisional.
rpsblast_kog gnl|CDD|36222 19 254 + 236 Gaps:24 96.52 230 46.85 8e-59 KOG1004 KOG1004 KOG1004 Exosomal 3'-5' exoribonuclease complex subunit Rrp40 [Translation ribosomal structure and biogenesis].

7 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
SUPERFAMILY 9 70 62 SSF110324 none none none
PANTHER 218 266 49 PTHR21321:SF3 none none none
PANTHER 218 266 49 PTHR21321 none none IPR026699
PANTHER 9 201 193 PTHR21321 none none IPR026699
PANTHER 9 201 193 PTHR21321:SF3 none none none
SUPERFAMILY 70 162 93 SSF50249 none none IPR012340
SUPERFAMILY 158 252 95 SSF54791 none none IPR004088

0 Localization

15 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2014_nLBD*_A4 Qrob_Chr08 8 v_12498_318 v_12364_308 34,91 16,12 53,62 lod 2,4961 5,2
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_rEpiBC*_A4 Qrob_Chr08 8 v_12498_318 v_12364_308 35,77 14,11 55,31 lod 2,9413 6,2
Bourran2_2015_nEpiBC_3P Qrob_Chr12 12 s_1B73S5_217 v_7050_211 28,31 26,37 28,45 lod 4.5 11.6
Bourran2_2014_aSeqBC_A4 Qrob_Chr08 8 v_15999_278 v_AP13YL15_395 32,52 4,22 57,22 lod 2,7561 6,7
Bourran2_2014_nFork*_A4 Qrob_Chr08 8 PIE175 s_1CD7GJ_1398 31,22 5,24 57,24 lod 2,6724 6,8
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_2014_nPriLBD_3P Qrob_Chr08 8 v_5216_549 v_11837_70 12,36 0 30,43 lod 2,5806 5,1
Bourran2_2014_nPriLBD_A4 Qrob_Chr08 8 PIE175 v_9164_159 31,85 15,39 48,29 lod 2,8308 6,8
Bourran2_2015_rEpiBC_3P Qrob_Chr08 8 s_A9TNV_543 v_11837_70 9,93 9,83 11,15 lod 3.3 7.3
Champenoux_2015_nSeqBC_A4 Qrob_Chr08 8 v_AD7YD13_501 s_1A7IED_780 43,44 43,42 43,99 lod 3.7 8.9
NancyGreenhouseCO2_2001_ambient_elevated_leaf_cellulose_QTL3_d13Cf Qrob_Chr08 8 v_5216_549 v_11625_20 37.08 12,26 54,9 lod 6.5888 0.04
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_nPriBD_3P Qrob_Chr11 11 v_11486_194 s_1AT3E_2335 5,54 0,4 20,6 lod 2,6345 5,9

0 Targeting