Protein : Qrob_P0484030.2 Q. robur
Protein Identifier  ? Qrob_P0484030.2 Organism . Name  Quercus robur
Score  96.2 Score Type  egn
Protein Description  (M=6) 3.1.13.1 - Exoribonuclease II. Code Enzyme  EC:3.1.13.1
Gene Prediction Quality  validated Protein length 

Sequence

Length: 332  
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0 Synonyms

3 GO Terms

Identifier Name Description
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
GO:0046872 metal ion binding Interacting selectively and non-covalently with any metal ion.
GO:0004527 exonuclease activity Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.

30 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|pper:PRUPE_ppa008078mg 14 331 + 318 Gaps:21 96.82 346 81.49 0.0 hypothetical protein
blastp_kegg lcl|pmum:103329863 14 331 + 318 Gaps:29 96.89 354 79.59 0.0 RNA exonuclease 4
blastp_kegg lcl|tcc:TCM_016880 14 328 + 315 Gaps:28 97.72 351 77.84 0.0 C2H2L domain class transcription factor
blastp_kegg lcl|cit:102620126 14 327 + 314 Gaps:28 96.61 354 76.90 0.0 RNA exonuclease 4-like
blastp_kegg lcl|cic:CICLE_v10015764mg 14 327 + 314 Gaps:28 96.61 354 77.19 0.0 hypothetical protein
blastp_kegg lcl|pvu:PHAVU_008G155200g 13 328 + 316 Gaps:20 95.98 348 75.75 0.0 hypothetical protein
blastp_kegg lcl|mdm:103442255 14 328 + 315 Gaps:29 96.87 351 77.06 0.0 RNA exonuclease 4-like
blastp_kegg lcl|pxb:103926920 14 328 + 315 Gaps:31 96.85 349 77.51 0.0 RNA exonuclease 4
blastp_kegg lcl|gmx:100813973 13 328 + 316 Gaps:28 96.61 354 73.98 0.0 apoptosis-enhancing nuclease-like
blastp_kegg lcl|fve:101293812 14 330 + 317 Gaps:31 96.36 357 75.00 0.0 apoptosis-enhancing nuclease-like
blastp_pdb 1wlj_A 128 256 + 129 Gaps:18 58.73 189 31.53 8e-08 mol:protein length:189 interferon stimulated gene 20kDa
blastp_uniprot_sprot sp|Q9GZR2|REXO4_HUMAN 134 278 + 145 Gaps:17 30.33 422 38.28 9e-17 RNA exonuclease 4 OS Homo sapiens GN REXO4 PE 1 SV 2
blastp_uniprot_sprot sp|Q08237|REXO4_YEAST 136 281 + 146 Gaps:43 55.71 289 27.33 7e-16 RNA exonuclease 4 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN REX4 PE 1 SV 1
blastp_uniprot_sprot sp|Q4IEV5|REXO4_GIBZE 106 277 + 172 Gaps:53 61.76 319 30.96 7e-16 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|Q757I9|REXO4_ASHGO 134 264 + 131 Gaps:17 40.00 285 35.96 7e-16 RNA exonuclease 4 OS Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN REX4 PE 3 SV 1
blastp_uniprot_sprot sp|Q6FQA0|REXO4_CANGA 136 297 + 162 Gaps:53 63.50 263 29.34 3e-15 RNA exonuclease 4 OS Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN REX4 PE 3 SV 1
blastp_uniprot_sprot sp|Q6PAQ4|REXO4_MOUSE 134 251 + 118 Gaps:14 24.07 432 39.42 6e-15 RNA exonuclease 4 OS Mus musculus GN Rexo4 PE 2 SV 2
blastp_uniprot_sprot sp|Q6CMT3|REXO4_KLULA 136 272 + 137 Gaps:43 51.70 294 30.26 2e-14 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|Q91560|REXO4_XENLA 134 275 + 142 Gaps:17 29.69 421 34.40 1e-13 RNA exonuclease 4 OS Xenopus laevis GN rexo4 PE 2 SV 2
blastp_uniprot_sprot sp|Q4PER6|REXO4_USTMA 136 268 + 133 Gaps:17 30.93 375 34.48 1e-13 RNA exonuclease 4 OS Ustilago maydis (strain 521 / FGSC 9021) GN REX4 PE 3 SV 1
blastp_uniprot_sprot sp|Q5A3Q0|REXO4_CANAL 136 281 + 146 Gaps:42 56.14 285 29.38 1e-13 RNA exonuclease 4 OS Candida albicans (strain SC5314 / ATCC MYA-2876) GN REX4 PE 3 SV 1
rpsblast_cdd gnl|CDD|99847 136 272 + 137 Gaps:42 99.34 152 39.07 2e-43 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|99848 136 271 + 136 Gaps:44 98.67 150 29.05 8e-17 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 134 280 + 147 Gaps:54 100.00 169 23.08 5e-16 smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain ribonuclease T and other exonucleases.
rpsblast_cdd gnl|CDD|99852 136 251 + 116 Gaps:14 64.97 157 34.31 5e-15 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 136 274 + 139 Gaps:14 80.12 161 31.01 1e-09 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|99840 136 248 + 113 Gaps:11 65.84 161 30.19 4e-08 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|176648 157 277 + 121 Gaps:24 66.04 159 29.52 2e-07 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 15 293 + 279 Gaps:57 100.00 280 42.14 2e-69 KOG2249 KOG2249 KOG2249 3'-5' exonuclease [Replication recombination and repair].
rpsblast_kog gnl|CDD|37459 130 271 + 142 Gaps:45 40.79 380 28.39 3e-09 KOG2248 KOG2248 KOG2248 3'-5' exonuclease [Replication recombination and repair].

8 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
Gene3D 134 247 114 G3DSA:3.30.420.10 none none IPR012337
ProSitePatterns 17 39 23 PS00028 none Zinc finger C2H2 type domain signature. IPR007087
ProSiteProfiles 15 44 30 PS50157 none Zinc finger C2H2 type domain profile. IPR007087
Pfam 155 258 104 PF00929 none Exonuclease IPR013520
PANTHER 27 331 305 PTHR12801 none none none
SUPERFAMILY 148 277 130 SSF53098 none none IPR012337
PANTHER 27 331 305 PTHR12801:SF56 none none none
SMART 134 281 148 SM00479 none none IPR006055

0 Localization

3 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran1_2003_QTL2_peak_Bud_burst_A4 Qrob_Chr02 2 s_1B0H8U_259 s_1CB1VL_554 17 0 87 lod 3,3 8,7
Bourran2_2004_QTL9_peak_Bud_burst_3P Qrob_Chr02 2 s_1C34E9_788 v_12238_322 50 25 75 lod 4,4 10,1
NancyGreenhouseCO2_2001_ambient_elevated_leaf_cellulose_QTL2_d13Cf Qrob_Chr02 2 s_1AQA4Z_1644 s_1AK5QX_947 53.67 14,01 79,68 lod 5.6594 0.03

0 Targeting