Protein : Qrob_P0460840.2 Q. robur
Protein Identifier  ? Qrob_P0460840.2 Organism . Name  Quercus robur
Score  95.1 Score Type  egn
Protein Description  (M=1) K14570 - RNA exonuclease 1 [EC:3.1.-.-] Code Enzyme  EC:3.1.13.1
Gene Prediction Quality  validated Protein length 

Sequence

Length: 625  
Kegg Orthology  K14570
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0 Synonyms

4 GO Terms

Identifier Name Description
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
GO:0008152 metabolic process The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
GO:0003824 catalytic activity Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
GO:0004527 exonuclease activity Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.

32 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|vvi:100242014 14 624 + 611 Gaps:51 97.90 572 78.39 0.0 small RNA degrading nuclease 5-like
blastp_kegg lcl|rcu:RCOM_0559410 3 624 + 622 Gaps:60 98.95 572 76.50 0.0 rnase h putative (EC:3.1.13.1)
blastp_kegg lcl|tcc:TCM_035363 28 624 + 597 Gaps:55 95.93 565 79.34 0.0 Polynucleotidyl transferase ribonuclease H-like superfamily protein isoform 1
blastp_kegg lcl|pper:PRUPE_ppa003497mg 25 624 + 600 Gaps:58 95.25 569 76.57 0.0 hypothetical protein
blastp_kegg lcl|pmum:103336445 25 624 + 600 Gaps:87 95.59 612 71.62 0.0 small RNA degrading nuclease 5
blastp_kegg lcl|gmx:100796963 13 624 + 612 Gaps:58 97.71 567 74.01 0.0 small RNA degrading nuclease 5-like
blastp_kegg lcl|pop:POPTR_0005s20900g 20 624 + 605 Gaps:81 96.51 545 79.85 0.0 POPTRDRAFT_801307 exonuclease family protein
blastp_kegg lcl|pxb:103951127 28 624 + 597 Gaps:58 94.73 569 75.51 0.0 small RNA degrading nuclease 5-like
blastp_kegg lcl|pxb:103957896 28 624 + 597 Gaps:58 94.73 569 75.32 0.0 small RNA degrading nuclease 5-like
blastp_kegg lcl|mdm:103407433 28 624 + 597 Gaps:58 94.73 569 75.51 0.0 small RNA degrading nuclease 5
blastp_pdb 1wlj_A 251 406 + 156 Gaps:10 85.71 189 37.04 5e-20 mol:protein length:189 interferon stimulated gene 20kDa
blastp_uniprot_sprot sp|Q8L7M4|SDN5_ARATH 1 623 + 623 Gaps:61 99.82 567 66.78 0.0 Small RNA degrading nuclease 5 OS Arabidopsis thaliana GN SDN5 PE 2 SV 2
blastp_uniprot_sprot sp|O94443|YFE9_SCHPO 51 608 + 558 Gaps:114 80.82 631 34.71 1e-51 Uncharacterized exonuclease C637.09 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN SPAC637.09 PE 3 SV 2
blastp_uniprot_sprot sp|Q8IX06|GOR_HUMAN 248 406 + 159 none 23.56 675 51.57 5e-43 Putative exonuclease GOR OS Homo sapiens GN REXO1L1 PE 5 SV 2
blastp_uniprot_sprot sp|P48778|GOR_PANTR 248 406 + 159 none 23.04 690 51.57 9e-43 Exonuclease GOR OS Pan troglodytes GN REXO1L1 PE 2 SV 3
blastp_uniprot_sprot sp|P53331|REXO1_YEAST 220 579 + 360 Gaps:64 57.50 553 38.36 2e-42 RNA exonuclease 1 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN RNH70 PE 1 SV 1
blastp_uniprot_sprot sp|Q7TT28|REXO1_MOUSE 252 406 + 155 none 12.78 1213 52.26 3e-40 RNA exonuclease 1 homolog OS Mus musculus GN Rexo1 PE 2 SV 1
blastp_uniprot_sprot sp|Q2T9U5|REXON_BOVIN 215 408 + 194 Gaps:11 25.16 783 45.69 9e-37 Putative RNA exonuclease NEF-sp OS Bos taurus PE 2 SV 1
blastp_uniprot_sprot sp|Q4R9F7|REXON_MACFA 252 419 + 168 Gaps:6 22.02 772 48.24 1e-35 Putative RNA exonuclease NEF-sp OS Macaca fascicularis GN QtsA-10054 PE 2 SV 1
blastp_uniprot_sprot sp|A1A5R7|REXON_RAT 252 525 + 274 Gaps:15 35.68 754 38.66 1e-35 Putative RNA exonuclease NEF-sp OS Rattus norvegicus PE 2 SV 1
blastp_uniprot_sprot sp|Q8N1G1|REXO1_HUMAN 245 406 + 162 none 13.27 1221 50.62 1e-35 RNA exonuclease 1 homolog OS Homo sapiens GN REXO1 PE 1 SV 3
rpsblast_cdd gnl|CDD|99848 253 402 + 150 none 100.00 150 62.00 1e-70 cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1 -3 and similar eukaryotic proteins. This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p) REX3 (or Rex3p) and similar eukaryotic proteins. In yeast REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species similar to the function of Escherichia coli RNase T.
rpsblast_cdd gnl|CDD|99840 254 402 + 149 Gaps:11 99.38 161 42.50 2e-41 cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2 RNA exonuclease (REX)-1 -3 and -4 ISG20 and similar proteins. This group is composed of eukaryotic exoribonucleases that include PAN2 RNA exonuclease 1 (REX1 or Rex1p) REX3 (Rex3p) REX4 (or Rex4p) ISG20 and similar proteins. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PAN2 is the catalytic subunit of poly(A) nuclease (PAN) a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. REX proteins are required for the processing and maturation of many RNA species and ISG20 is an interferon-induced antiviral exonuclease with a strong preference for single-stranded RNA.
rpsblast_cdd gnl|CDD|99847 253 400 + 148 Gaps:14 98.68 152 42.67 6e-31 cd06144 REX4_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 4 XPMC2 Interferon Stimulated Gene product of 20 kDa and similar proteins. This subfamily is composed of RNA exonuclease 4 (REX4 or Rex4p) XPMC2 Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) and similar proteins. REX4 is involved in pre-rRNA processing. It controls the ratio between the two forms of 5.8S rRNA in yeast. XPMC2 is a Xenopus gene which was identified through its ability to correct a mitotic defect in fission yeast. The human homolog of XPMC2 (hPMC2) may be involved in angiotensin II-induced adrenal cell cycle progression and cell proliferation. ISG20 is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. These proteins are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. REX proteins function in the processing and maturation of many RNA species similar to the function of Escherchia coli RNase T.
rpsblast_cdd gnl|CDD|197752 252 409 + 158 Gaps:18 99.41 169 29.76 5e-29 smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain ribonuclease T and other exonucleases.
rpsblast_cdd gnl|CDD|99852 253 400 + 148 Gaps:11 98.73 157 38.71 3e-26 cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa and similar proteins. Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. It was also independently identified by its response to estrogen and was called HEM45 (human estrogen regulated transcript). ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease containing three conserved sequence motifs termed ExoI ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ISG20 may be a major effector of innate immunity against pathogens including viruses bacteria and parasites. It is located in promyelocytic leukemia (PML) nuclear bodies sites for oncogenic DNA viral transcription and replication. It may carry out its function by degrading viral RNAs as part of the IFN-regulated antiviral response.
rpsblast_cdd gnl|CDD|201510 253 400 + 148 Gaps:18 99.38 161 28.75 2e-19 pfam00929 RNase_T Exonuclease. This family includes a variety of exonuclease proteins such as ribonuclease T and the epsilon subunit of DNA polymerase III. .
rpsblast_cdd gnl|CDD|99846 268 400 + 133 Gaps:21 80.46 174 37.14 1e-17 cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2. PAN2 is the catalytic subunit of poly(A) nuclease (PAN) a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. PAN catalyzes the deadenylation of poly(A) tails which are initially synthesized to default lengths of 70 to 90 to mRNA-specific lengths of 55 to 71. Pab1p and PAN also play a role in the export and decay of mRNA. PAN2 contains a DEDDh-type DnaQ-like 3'-5' exonuclease domain with three conserved sequence motifs termed ExoI ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
rpsblast_cdd gnl|CDD|176648 275 402 + 128 Gaps:20 83.02 159 27.27 3e-10 cd06127 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh exonucleases part of the DnaQ-like (or DEDD) exonuclease superfamily catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI ExoII and ExoIII. DEDDh exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III the main replicating enzyme in bacteria which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T Oligoribonuclease and RNA exonuclease (REX) among others.
rpsblast_kog gnl|CDD|37459 9 408 + 400 Gaps:50 94.21 380 34.36 5e-63 KOG2248 KOG2248 KOG2248 3'-5' exonuclease [Replication recombination and repair].

18 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
Phobius 136 146 11 NON_CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. none
Phobius 169 624 456 CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. none
Gene3D 436 504 69 G3DSA:3.40.720.10 none none IPR017849
Gene3D 537 579 43 G3DSA:3.40.720.10 none none IPR017849
SMART 251 410 160 SM00479 none none IPR006055
Phobius 118 135 18 TRANSMEMBRANE none Region of a membrane-bound protein predicted to be embedded in the membrane. none
PANTHER 51 90 40 PTHR12801 none none none
Phobius 99 117 19 CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. none
PANTHER 121 596 476 PTHR12801:SF51 none none none
SUPERFAMILY 252 405 154 SSF53098 none none IPR012337
PANTHER 51 90 40 PTHR12801:SF51 none none none
Phobius 80 98 19 TRANSMEMBRANE none Region of a membrane-bound protein predicted to be embedded in the membrane. none
Coils 172 193 22 Coil none none none
Pfam 253 400 148 PF00929 none Exonuclease IPR013520
Phobius 147 168 22 TRANSMEMBRANE none Region of a membrane-bound protein predicted to be embedded in the membrane. none
Phobius 1 79 79 NON_CYTOPLASMIC_DOMAIN none Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. none
PANTHER 121 596 476 PTHR12801 none none none
Gene3D 251 407 157 G3DSA:3.30.420.10 none none IPR012337

0 Localization

5 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2003_QTL11_peak_Bud_burst_3P Qrob_Chr09 9 s_1CGP2H_273 v_15801_330 27,16 4,16 48,16 lod 2,3 5,1
Bourran2_2004_QTL12_peak_Bud_burst_3P Qrob_Chr09 9 s_1BDO6G_250 s_1A83AM_496 34,31 9,31 44,31 lod 3,6 7,6
Bourran2_2015_nSecLBD_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 35,81 34,88 37,45 lod 4.4 10.4
PM_1999_QTL15_peak_Bud_burst_3P Qrob_Chr09 9 s_1CGP2H_273 v_15801_330 27,16 9,16 47,16 lod 3,6 6,5
Bourran1_2003_QTL5_peak_Bud_burst_3P Qrob_Chr09 9 s_1ATM17_504 s_1AYZFM_899 29,81 19,81 41,81 lod 3,3 8,9

0 Targeting