Protein : Qrob_P0612720.2 Q. robur
Protein Identifier  ? Qrob_P0612720.2 Organism . Name  Quercus robur
Score  100.0 Score Type  egn
Protein Description  (M=3) K15338 - flap endonuclease GEN [EC:3.1.-.-] Gene Prediction Quality  validated
Protein length 

Sequence

Length: 402  
Kegg Orthology  K15338
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0 Synonyms

2 GO Terms

Identifier Name Description
GO:0006281 DNA repair The process of restoring DNA after damage. Genomes are subject to damage by chemical and physical agents in the environment (e.g. UV and ionizing radiations, chemical mutagens, fungal and bacterial toxins, etc.) and by free radicals or alkylating agents endogenously generated in metabolism. DNA is also damaged because of errors during its replication. A variety of different DNA repair pathways have been reported that include direct reversal, base excision repair, nucleotide excision repair, photoreactivation, bypass, double-strand break repair pathway, and mismatch repair pathway.
GO:0004518 nuclease activity Catalysis of the hydrolysis of ester linkages within nucleic acids.

28 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|rcu:RCOM_1496430 93 397 + 305 Gaps:5 52.90 586 62.58 4e-121 hypothetical protein
blastp_kegg lcl|gmx:100806919 1 400 + 400 Gaps:10 71.45 571 67.65 1e-114 flap endonuclease GEN-like 2-like
blastp_kegg lcl|pvu:PHAVU_004G117400g 1 400 + 400 Gaps:12 71.95 574 65.86 2e-110 hypothetical protein
blastp_kegg lcl|cic:CICLE_v10004614mg 1 401 + 401 Gaps:14 69.81 583 66.34 1e-108 hypothetical protein
blastp_kegg lcl|cit:102631209 1 401 + 401 Gaps:14 69.81 583 66.09 6e-108 flap endonuclease GEN-like 2-like
blastp_kegg lcl|vvi:100256642 1 373 + 373 Gaps:12 69.03 565 66.92 2e-107 flap endonuclease GEN-like 2-like
blastp_kegg lcl|mtr:MTR_6g055360 1 400 + 400 Gaps:11 71.80 571 67.32 2e-106 Flap endonuclease GEN-like protein
blastp_kegg lcl|tcc:TCM_015153 1 400 + 400 Gaps:19 68.08 589 67.08 1e-104 Single-stranded DNA endonuclease family protein
blastp_kegg lcl|cmo:103484071 1 399 + 399 Gaps:15 72.04 565 62.65 2e-103 flap endonuclease GEN-like 2
blastp_kegg lcl|csv:101214962 1 399 + 399 Gaps:15 69.98 563 63.45 2e-101 flap endonuclease GEN-like 2-like
blastp_uniprot_sprot sp|Q9M2Z3|GENL2_ARATH 1 400 + 400 Gaps:32 68.83 600 54.24 2e-75 Flap endonuclease GEN-like 2 OS Arabidopsis thaliana GN GEN2 PE 2 SV 2
blastp_uniprot_sprot sp|Q8W5R1|GENL2_ORYSJ 1 349 + 349 Gaps:35 50.70 641 59.38 9e-62 Flap endonuclease GEN-like 2 OS Oryza sativa subsp. japonica GN SEND1 PE 2 SV 1
blastp_uniprot_sprot sp|Q17RS7|GEN_HUMAN 1 90 + 90 Gaps:1 9.80 908 38.20 1e-11 Flap endonuclease GEN homolog 1 OS Homo sapiens GN GEN1 PE 1 SV 2
blastp_uniprot_sprot sp|Q8BMI4|GEN_MOUSE 1 90 + 90 Gaps:1 9.80 908 39.33 2e-11 Flap endonuclease GEN homolog 1 OS Mus musculus GN Gen1 PE 2 SV 2
blastp_uniprot_sprot sp|Q9ATY5|UVH3_ARATH 1 90 + 90 Gaps:3 6.29 1479 37.63 6e-11 DNA repair protein UVH3 OS Arabidopsis thaliana GN UVH3 PE 2 SV 1
blastp_uniprot_sprot sp|P28706|RAD13_SCHPO 1 90 + 90 Gaps:1 8.18 1112 38.46 7e-11 DNA repair protein rad13 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN rad13 PE 2 SV 2
blastp_uniprot_sprot sp|P07276|RAD2_YEAST 1 90 + 90 Gaps:1 8.83 1031 32.97 3e-09 DNA repair protein RAD2 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN RAD2 PE 1 SV 2
blastp_uniprot_sprot sp|P35689|ERCC5_MOUSE 1 90 + 90 Gaps:1 7.78 1170 34.07 3e-08 DNA repair protein complementing XP-G cells homolog OS Mus musculus GN Ercc5 PE 1 SV 4
blastp_uniprot_sprot sp|P28715|ERCC5_HUMAN 1 90 + 90 Gaps:1 7.67 1186 34.07 6e-08 DNA repair protein complementing XP-G cells OS Homo sapiens GN ERCC5 PE 1 SV 3
blastp_uniprot_sprot sp|P14629|ERCC5_XENLA 1 162 + 162 Gaps:17 12.79 1196 28.10 2e-07 DNA repair protein complementing XP-G cells homolog OS Xenopus laevis GN ercc5 PE 2 SV 1
rpsblast_cdd gnl|CDD|189039 1 105 + 105 Gaps:2 44.21 233 48.54 3e-35 cd09869 PIN_GEN1 PIN domain of Gap Endonuclease 1 a structure-specific divalent-metal-ion dependent 5' nuclease and homologs. Gap Endonuclease 1 (GEN1) is a Holliday junction resolvase reported to symmetrically cleave Holliday junctions and allow religation without additional processing. GEN1 is a member of the structure-specific 5' nuclease family that catalyzes hydrolysis of DNA duplex-containing nucleic acid structures during DNA replication repair and recombination. These nucleases contain a PIN (PilT N terminus) domain with a helical arch/clamp region (I domain) of variable length (approximately 30 - 50 residues in GEN1 PIN domains) and a H3TH (helix-3-turn-helix) domain an atypical helix-hairpin-helix-2-like region. Both the H3TH domain (not included here) and the helical arch/clamp region are involved in DNA binding. Nucleases within this group also have a carboxylate-rich active site that is involved in binding essential divalent metal ion cofactors (Mg2+/Mn2+).
rpsblast_cdd gnl|CDD|128761 1 90 + 90 Gaps:2 92.93 99 33.70 7e-14 smart00485 XPGN Xeroderma pigmentosum G N-region. domain in nucleases.
rpsblast_cdd gnl|CDD|189038 1 90 + 90 Gaps:1 36.55 249 35.16 8e-14 cd09868 PIN_XPG PIN domain of Xeroderma pigmentosum complementation group G (XPG) nuclease a structure-specific divalent-metal-ion dependent 5' nuclease and homologs. The Xeroderma pigmentosum complementation group G (XPG) nuclease plays a central role in nucleotide excision repair (NER) in cleaving DNA bubble structures or loops. XPG is a member of the structure-specific 5' nuclease family that catalyzes hydrolysis of DNA duplex-containing nucleic acid structures during DNA replication repair and recombination. These nucleases contain a PIN (PilT N terminus) domain with a helical arch/clamp region (I domain). In XPG PIN domains this arch region can be quite variable and extensive (400 - 800 residues) in length and is required for NER activity and for efficient processing of bubble substrates. Inserted within the PIN domain of these 5' nucleases is a H3TH (helix-3-turn-helix) domain an atypical helix-hairpin-helix-2-like region. Both the H3TH domain (not included here) and the helical arch/clamp region are involved in DNA binding. Nucleases within this group also have a carboxylate-rich active site that is involved in binding essential divalent metal ion cofactors (Mg2+/Mn2+).
rpsblast_cdd gnl|CDD|211590 1 90 + 90 Gaps:1 8.68 1048 36.26 3e-10 TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999 Ph.D. Thesis Stanford University).
rpsblast_cdd gnl|CDD|189040 1 112 + 112 Gaps:22 51.05 239 30.33 6e-09 cd09870 PIN_YEN1 PIN domain of Yeast Endonuclease 1 a structure-specific divalent-metal-ion dependent 5' nuclease and fungal homologs. Yeast Endonuclease 1 (YEN1) is a Holliday junction resolvase which promotes reciprocal exchange during mitotic recombination to maintain genome integrity in budding yeast. YEN1 is a member of the structure-specific 5' nuclease family that catalyzes hydrolysis of DNA duplex-containing nucleic acid structures during DNA replication repair and recombination. These nucleases contain a PIN (PilT N terminus) domain with a helical arch/clamp region (I domain) of variable length (approximately 15 - 50 residues in YEN1 PIN domains) and a H3TH (helix-3-turn-helix) domain an atypical helix-hairpin-helix-2-like region. Both the H3TH domain (not included here) and the helical arch/clamp region are involved in DNA binding. Nucleases within this group also have a carboxylate-rich active site that is involved in binding essential divalent metal ion cofactors (Mg2+/Mn2+).
rpsblast_cdd gnl|CDD|189026 6 86 + 81 Gaps:7 42.51 207 30.68 1e-08 cd09856 PIN_FEN1-like PIN domain of Flap Endonuclease-1 (FEN1)-like structure-specific divalent-metal-ion dependent 5' nucleases. PIN (PilT N terminus) domain of Flap Endonuclease-1 (FEN1)-like nucleases: FEN1 Gap endonuclease 1 (GEN1) and Xeroderma pigmentosum complementation group G (XPG) nuclease are members of the structure-specific 5' nuclease family that catalyzes hydrolysis of DNA duplex-containing nucleic acid structures during DNA replication repair and recombination. These nucleases contain a PIN domain with a helical arch/clamp region (I domain) of variable length (approximately 30 to 800 residues) and a H3TH (helix-3-turn-helix) domain an atypical helix-hairpin-helix-2-like region. Both the H3TH domain (not included here) and the helical arch/clamp region are involved in DNA binding. Most nucleases within this family also have a carboxylate rich active site that is involved in binding essential divalent metal ion cofactors (Mg2+/Mn2+). Some nucleases in this family have C-terminal extensions that act as interaction sites for other proteins.
rpsblast_cdd gnl|CDD|109795 2 90 + 89 Gaps:4 93.00 100 32.26 5e-07 pfam00752 XPG_N XPG N-terminal domain.
rpsblast_kog gnl|CDD|37730 1 126 + 126 Gaps:14 28.51 449 29.69 3e-18 KOG2519 KOG2519 KOG2519 5'-3' exonuclease [Replication recombination and repair].

8 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
PANTHER 2 279 278 PTHR11081:SF17 none none none
SMART 1 97 97 SM00485 none Xeroderma pigmentosum G N-region IPR006085
SUPERFAMILY 194 249 56 SSF54160 none none IPR016197
Pfam 1 92 92 PF00752 none XPG N-terminal domain IPR006085
Gene3D 195 254 60 G3DSA:2.40.50.40 none none none
Gene3D 1 106 106 G3DSA:3.40.50.1010 none none IPR029060
SUPERFAMILY 2 101 100 SSF88723 none none IPR029060
PANTHER 2 279 278 PTHR11081 none none IPR006084

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