Protein : Qrob_P0048850.2 Q. robur
Protein Identifier  ? Qrob_P0048850.2 Organism . Name  Quercus robur
Score  92.4 Score Type  egn
Protein Description  (M=18) KOG1990 - Poly(A)-specific exoribonuclease PARN [Replication recombination and repair]. Gene Prediction Quality  validated
Protein length 

Sequence

Length: 305  
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0 Synonyms

1 GO Terms

Identifier Name Description
GO:0003723 RNA binding Interacting selectively and non-covalently with an RNA molecule or a portion thereof.

17 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|pmum:103338946 13 294 + 282 Gaps:12 81.11 360 69.18 2e-137 uncharacterized CRM domain-containing protein At3g25440 chloroplastic
blastp_kegg lcl|pper:PRUPE_ppa007871mg 13 294 + 282 Gaps:12 82.72 353 69.52 9e-137 hypothetical protein
blastp_kegg lcl|gmx:100809589 13 294 + 282 Gaps:15 74.23 392 68.38 6e-133 uncharacterized LOC100809589
blastp_kegg lcl|tcc:TCM_007507 13 294 + 282 Gaps:4 80.91 351 69.72 5e-132 RNA-binding CRS1 / YhbY domain protein isoform 1
blastp_kegg lcl|mdm:103444861 13 294 + 282 Gaps:14 79.55 352 71.43 9e-131 uncharacterized CRM domain-containing protein At3g25440 chloroplastic-like
blastp_kegg lcl|pxb:103930281 13 294 + 282 Gaps:14 79.77 351 71.07 1e-130 uncharacterized CRM domain-containing protein At3g25440 chloroplastic
blastp_kegg lcl|fve:101303554 13 294 + 282 Gaps:22 81.76 318 75.38 1e-126 uncharacterized CRM domain-containing protein At3g25440 chloroplastic-like
blastp_kegg lcl|cam:101504725 21 294 + 274 Gaps:11 71.68 392 66.90 2e-125 uncharacterized LOC101504725
blastp_kegg lcl|gmx:100817882 64 294 + 231 Gaps:3 79.04 291 77.83 4e-124 uncharacterized LOC100817882
blastp_kegg lcl|csv:101217805 11 294 + 284 Gaps:12 82.95 352 64.73 8e-122 uncharacterized LOC101217805
blastp_uniprot_sprot sp|Q67XL4|Y3544_ARATH 133 294 + 162 Gaps:2 36.94 444 51.22 6e-47 Uncharacterized CRM domain-containing protein At3g25440 chloroplastic OS Arabidopsis thaliana GN At3g25440 PE 2 SV 1
blastp_uniprot_sprot sp|Q6YYA3|CRS1_ORYSJ 185 291 + 107 Gaps:3 15.17 725 41.82 4e-16 Chloroplastic group IIA intron splicing facilitator CRS1 chloroplastic OS Oryza sativa subsp. japonica GN Os08g0360100 PE 2 SV 1
blastp_uniprot_sprot sp|Q9FYT6|CRS1_MAIZE 154 291 + 138 Gaps:15 21.40 715 35.95 5e-16 Chloroplastic group IIA intron splicing facilitator CRS1 chloroplastic OS Zea mays GN CRS1 PE 1 SV 1
blastp_uniprot_sprot sp|Q9LF10|CRS1_ARATH 180 280 + 101 Gaps:4 14.58 720 42.86 3e-14 Chloroplastic group IIA intron splicing facilitator CRS1 chloroplastic OS Arabidopsis thaliana GN At5g16180 PE 3 SV 2
rpsblast_cdd gnl|CDD|198171 189 273 + 85 Gaps:1 100.00 84 29.76 4e-17 smart01103 CRS1_YhbY Escherichia coli YhbY is associated with pre-50S ribosomal subunits which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus suggesting that an analogous activity may have been retained in plants. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria that this function has been maintained in extant prokaryotes and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C) which binds to 16S rRNA in the 30S ribosome.
rpsblast_cdd gnl|CDD|190184 189 273 + 85 Gaps:1 100.00 84 32.14 1e-15 pfam01985 CRS1_YhbY CRS1 / YhbY (CRM) domain. Escherichia coli YhbY is associated with pre-50S ribosomal subunits which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus suggesting that an analogous activity may have been retained in plants. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria that this function has been maintained in extant prokaryotes and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C) which binds to 16S rRNA in the 30S ribosome.
rpsblast_kog gnl|CDD|37201 80 302 + 223 Gaps:16 73.58 564 31.33 1e-38 KOG1990 KOG1990 KOG1990 Poly(A)-specific exoribonuclease PARN [Replication recombination and repair].

7 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
SUPERFAMILY 188 283 96 SSF75471 none none IPR001890
SMART 189 273 85 SM01103 none none IPR001890
Pfam 189 273 85 PF01985 none CRS1 / YhbY (CRM) domain IPR001890
PANTHER 37 293 257 PTHR31426:SF3 none none none
Gene3D 189 283 95 G3DSA:3.30.110.60 none none IPR001890
PANTHER 37 293 257 PTHR31426 none none none
ProSiteProfiles 187 284 98 PS51295 none CRM domain profile. IPR001890

0 Localization

8 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2015_nEpis_3P Qrob_Chr12 12 s_1AOES6_1466 s_1B0DDG_1094 28,97 28,55 30,1 lod 3.6 8.4
Bourran2_2014_nP_A4 Qrob_Chr11 11 s_1B58GB_1413 s_1A5BYY_1671 11,15 0 42,38 lod 1,8913 4,5
Bourran2_2002_QTL16_peak_Bud_burst_A4 Qrob_Chr11 11 s_A9OIA_166 s_1C6WBF_114 21,23 2,83 42,83 lod 5,1 7,2
Bourran2_2015_nSeqBC_3P Qrob_Chr11 11 s_1DG9PM_867 s_1BZ083_1312 26,06 25,47 27,72 lod 3.6 7.1
Champenoux_2015_nSecLBD_3P Qrob_Chr11 11 s_1DG9PM_867 s_1BZ083_1312 25,78 25,47 27,72 lod 6.3 16.6
Bourran2_2014_nP_3P Qrob_Chr11 11 v_11486_194 s_1AT3E_2335 7,9 0,09 30,09 lod 2,3636 5
Bourran1_2003_QTL6_peak_Bud_burst_A4 Qrob_Chr11 11 v_12066_307 s_1A9FKZ_348 3,59 0 20,89 lod 3,4 9,4
PM_1999_QTL17_peak_Bud_burst_3P Qrob_Chr11 11 s_1A9FKZ_348 v_11486_883 4,8 0 24,8 lod 3,5 6,2

0 Targeting