Protein : Qrob_P0419970.2 Q. robur
Protein Identifier  ? Qrob_P0419970.2 Organism . Name  Quercus robur
Score  100.0 Score Type  egn
Protein Description  (M=1) K18327 - RNA exonuclease 4 [EC:3.1.-.-] Code Enzyme  EC:3.1.13.1
Gene Prediction Quality  validated Protein length 

Sequence

Length: 275  
Kegg Orthology  K18327
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0 Synonyms

2 GO Terms

Identifier Name Description
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
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|tcc:TCM_031662 1 247 + 247 Gaps:13 90.98 266 82.64 9e-136 Polynucleotidyl transferase isoform 2
blastp_kegg lcl|pop:POPTR_0001s38250g 15 266 + 252 Gaps:3 90.88 274 74.30 4e-134 POPTRDRAFT_815795 exonuclease family protein
blastp_kegg lcl|cit:102624058 1 248 + 248 Gaps:2 90.18 275 75.40 2e-130 RNA exonuclease 4-like
blastp_kegg lcl|gmx:100819122 14 247 + 234 none 88.30 265 77.35 2e-129 RNA exonuclease 4-like
blastp_kegg lcl|pper:PRUPE_ppa010165mg 8 241 + 234 Gaps:14 86.59 261 80.53 3e-127 hypothetical protein
blastp_kegg lcl|pvu:PHAVU_005G068900g 14 247 + 234 Gaps:2 87.55 265 76.29 4e-126 hypothetical protein
blastp_kegg lcl|gmx:100811497 17 247 + 231 Gaps:1 87.22 266 76.29 2e-125 RNA exonuclease 4-like
blastp_kegg lcl|pmum:103326017 8 241 + 234 Gaps:15 86.64 262 79.30 3e-125 RNA exonuclease 4
blastp_kegg lcl|eus:EUTSA_v10021299mg 17 248 + 232 Gaps:2 84.48 277 74.79 5e-125 hypothetical protein
blastp_kegg lcl|rcu:RCOM_1742960 14 247 + 234 none 78.26 299 78.63 9e-125 RNA exonuclease putative (EC:3.1.13.1)
blastp_pdb 1wlj_A 81 235 + 155 Gaps:7 85.71 189 38.89 9e-30 mol:protein length:189 interferon stimulated gene 20kDa
blastp_uniprot_sprot sp|Q91560|REXO4_XENLA 79 242 + 164 Gaps:3 39.67 421 55.09 3e-61 RNA exonuclease 4 OS Xenopus laevis GN rexo4 PE 2 SV 2
blastp_uniprot_sprot sp|Q9GZR2|REXO4_HUMAN 79 244 + 166 Gaps:3 40.05 422 55.03 8e-61 RNA exonuclease 4 OS Homo sapiens GN REXO4 PE 1 SV 2
blastp_uniprot_sprot sp|Q6DEW6|REXO4_XENTR 79 258 + 180 Gaps:3 44.20 414 50.82 3e-59 RNA exonuclease 4 OS Xenopus tropicalis GN rexo4 PE 2 SV 1
blastp_uniprot_sprot sp|Q6PAQ4|REXO4_MOUSE 79 244 + 166 Gaps:3 39.12 432 52.66 5e-59 RNA exonuclease 4 OS Mus musculus GN Rexo4 PE 2 SV 2
blastp_uniprot_sprot sp|Q08237|REXO4_YEAST 62 239 + 178 Gaps:8 61.59 289 51.69 4e-55 RNA exonuclease 4 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN REX4 PE 1 SV 1
blastp_uniprot_sprot sp|Q6BIK6|REXO4_DEBHA 83 260 + 178 Gaps:11 63.60 272 49.13 5e-54 RNA exonuclease 4 OS Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN REX4 PE 3 SV 2
blastp_uniprot_sprot sp|Q4WHF8|REXO4_ASPFU 83 239 + 157 Gaps:4 51.94 310 54.04 2e-53 RNA exonuclease 4 OS Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN rex4 PE 3 SV 1
blastp_uniprot_sprot sp|Q6CMT3|REXO4_KLULA 79 239 + 161 Gaps:4 56.12 294 51.52 2e-49 RNA exonuclease 4 OS Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN REX4 PE 3 SV 1
blastp_uniprot_sprot sp|Q4IEV5|REXO4_GIBZE 41 238 + 198 Gaps:5 62.38 319 44.22 9e-49 RNA exonuclease 4 OS Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) GN REX4 PE 3 SV 1
blastp_uniprot_sprot sp|O94375|REXO4_SCHPO 18 236 + 219 Gaps:33 94.62 260 41.87 1e-47 RNA exonuclease 4 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN rex4 PE 3 SV 1
rpsblast_cdd gnl|CDD|99847 83 231 + 149 Gaps:3 100.00 152 61.18 7e-73 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|99852 83 231 + 149 Gaps:8 100.00 157 45.86 3e-40 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|99848 83 227 + 145 Gaps:13 97.33 150 40.41 2e-37 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|197752 82 238 + 157 Gaps:15 99.41 169 32.14 1e-33 smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain ribonuclease T and other exonucleases.
rpsblast_cdd gnl|CDD|99840 83 231 + 149 Gaps:20 100.00 161 37.27 9e-26 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|201510 83 230 + 148 Gaps:15 100.00 161 31.06 2e-23 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 83 231 + 149 Gaps:29 100.00 174 33.91 4e-22 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 114 231 + 118 Gaps:9 78.62 159 25.60 9e-12 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|37460 2 239 + 238 Gaps:5 86.79 280 41.56 4e-55 KOG2249 KOG2249 KOG2249 3'-5' exonuclease [Replication recombination and repair].

6 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
Pfam 83 230 148 PF00929 none Exonuclease IPR013520
Gene3D 80 249 170 G3DSA:3.30.420.10 none none IPR012337
PANTHER 59 264 206 PTHR12801:SF54 none none none
SUPERFAMILY 82 231 150 SSF53098 none none IPR012337
PANTHER 59 264 206 PTHR12801 none none none
SMART 81 239 159 SM00479 none none IPR006055

0 Localization

7 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran1_2004_QTL4_peak_Bud_burst_A4 Qrob_Chr09 9 s_1BY6BQ_440 s_1AOIKO_756 16,45 0 27,45 lod 4,5 10,6
Bourran_2000_2002_QTL7_Delta.F Qrob_Chr09 9 v_5944_442 s_1BA1PC_866 23.51 10,96 35,74 lod 4.1466 0.041
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_2003_QTL13_peak_Bud_burst_A4 Qrob_Chr09 9 s_1AP8MN_635 s_1A3QQ_692 18,18 10,88 25,88 lod 3,4 7,2
Bourran2_2004_QTL14_peak_Bud_burst_A4 Qrob_Chr09 9 s_1BY6BQ_440 s_1AOIKO_756 16,83 10,33 22,33 lod 3,8 9
Bourran2_2015_nEpis_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 34,94 34,88 37,45 lod 3.1 7
Bourran2_2015_nSecLBD_A4 Qrob_Chr09 9 v_15847_485 v_8329_369 35,81 34,88 37,45 lod 4.4 10.4

0 Targeting