Protein : Qrob_P0595290.2 Q. robur
Protein Identifier  ? Qrob_P0595290.2 Organism . Name  Quercus robur
Score  94.1 Score Type  egn
Protein Description  (M=1) PTHR19306:SF1 - STRUCTURAL MAINTENANCE OF CHROMOSOMES 5 SMC5 Gene Prediction Quality  validated
Protein length 

Sequence

Length: 1051  
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0 Synonyms

3 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:0000724 double-strand break repair via homologous recombination The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule.
GO:0030915 Smc5-Smc6 complex A conserved complex that contains a heterodimer of SMC proteins (Smc5p and Smc6p, or homologs thereof) and several other proteins, and is involved in DNA repair and maintaining cell cycle arrest following DNA damage. In S. cerevisiae, this is an octameric complex called Mms21-Smc5-Smc6 complex, with at least five of its subunits conserved in fission yeast and humans.

37 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|vvi:100249983 1 1050 + 1050 Gaps:53 94.86 1051 76.23 0.0 structural maintenance of chromosomes protein 5-like
blastp_kegg lcl|pmum:103330660 1 1050 + 1050 Gaps:53 94.86 1051 76.13 0.0 structural maintenance of chromosomes protein 5
blastp_kegg lcl|pper:PRUPE_ppa000655mg 1 1050 + 1050 Gaps:53 94.86 1051 75.83 0.0 hypothetical protein
blastp_kegg lcl|csv:101210248 2 1050 + 1049 Gaps:53 94.59 1053 75.60 0.0 structural maintenance of chromosomes protein 5-like
blastp_kegg lcl|rcu:RCOM_0963890 6 1050 + 1045 Gaps:53 93.85 1057 74.29 0.0 structural maintenance of chromosomes 5 smc5 putative
blastp_kegg lcl|csv:101229517 2 1050 + 1049 Gaps:53 94.59 1053 75.30 0.0 structural maintenance of chromosomes protein 5-like
blastp_kegg lcl|cmo:103499955 2 1050 + 1049 Gaps:53 94.59 1053 75.10 0.0 structural maintenance of chromosomes protein 5
blastp_kegg lcl|cit:102630865 1 1050 + 1050 Gaps:49 94.88 1055 73.83 0.0 structural maintenance of chromosomes protein 5-like
blastp_kegg lcl|cic:CICLE_v10030582mg 1 1050 + 1050 Gaps:53 94.86 1051 74.02 0.0 hypothetical protein
blastp_kegg lcl|tcc:TCM_025515 1 1050 + 1050 Gaps:53 94.86 1051 73.32 0.0 Structural maintenance of chromosomes 5 smc5 putative
blastp_uniprot_sprot sp|Q9LFS8|SMC5_ARATH 1 1050 + 1050 Gaps:53 94.68 1053 69.51 0.0 Structural maintenance of chromosomes protein 5 OS Arabidopsis thaliana GN SMC5 PE 2 SV 1
blastp_uniprot_sprot sp|Q8CG46|SMC5_MOUSE 11 1050 + 1040 Gaps:124 91.55 1101 29.96 5e-124 Structural maintenance of chromosomes protein 5 OS Mus musculus GN Smc5 PE 2 SV 1
blastp_uniprot_sprot sp|Q8IY18|SMC5_HUMAN 18 1050 + 1033 Gaps:126 90.92 1101 30.67 1e-121 Structural maintenance of chromosomes protein 5 OS Homo sapiens GN SMC5 PE 1 SV 2
blastp_uniprot_sprot sp|Q802R9|SMC5_TAKRU 19 1050 + 1032 Gaps:154 91.76 1092 31.44 5e-112 Structural maintenance of chromosomes protein 5 OS Takifugu rubripes GN smc5 PE 2 SV 1
blastp_uniprot_sprot sp|Q5ZJY5|SMC5_CHICK 14 1050 + 1037 Gaps:149 92.96 1065 30.81 8e-110 Structural maintenance of chromosomes protein 5 OS Gallus gallus GN SMC5 PE 2 SV 1
blastp_uniprot_sprot sp|Q805A1|SMC5_XENLA 21 1050 + 1030 Gaps:131 92.49 1065 29.54 1e-109 Structural maintenance of chromosomes protein 5 OS Xenopus laevis GN smc5 PE 2 SV 1
blastp_uniprot_sprot sp|O13710|SMC5_SCHPO 17 1043 + 1027 Gaps:134 92.84 1076 27.73 9e-72 Structural maintenance of chromosomes protein 5 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN smc5 PE 1 SV 3
blastp_uniprot_sprot sp|Q08204|SMC5_YEAST 2 1050 + 1049 Gaps:52 57.82 1093 31.49 3e-38 Structural maintenance of chromosomes protein 5 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN SMC5 PE 1 SV 1
blastp_uniprot_sprot sp|Q924W5|SMC6_MOUSE 21 422 + 402 Gaps:52 35.00 1097 28.39 1e-18 Structural maintenance of chromosomes protein 6 OS Mus musculus GN Smc6 PE 2 SV 1
blastp_uniprot_sprot sp|Q96SB8|SMC6_HUMAN 21 422 + 402 Gaps:52 35.20 1091 28.91 5e-17 Structural maintenance of chromosomes protein 6 OS Homo sapiens GN SMC6 PE 1 SV 2
rpsblast_cdd gnl|CDD|73036 21 1050 + 1030 Gaps:37 86.38 213 66.30 6e-40 cd03277 ABC_SMC5_euk Eukaryotic SMC5 proteins SMC proteins are large (approximately 110 to 170 kDa) and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T in the single-letter amino-acid code) which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells the proteins are found as heterodimers of SMC1 paired with SMC3 SMC2 with SMC4 and SMC5 with SMC6 (formerly known as Rad18)..
rpsblast_cdd gnl|CDD|31389 23 1045 + 1023 Gaps:170 96.04 1163 37.51 6e-29 COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning].
rpsblast_cdd gnl|CDD|73035 23 98 + 76 none 38.38 198 40.79 5e-16 cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins SMC proteins are large (approximately 110 to 170 kDa) and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T in the single-letter amino-acid code) which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells the proteins are found as heterodimers of SMC1 paired with SMC3 SMC2 with SMC4 and SMC5 with SMC6 (formerly known as Rad18)..
rpsblast_cdd gnl|CDD|202246 23 425 + 403 Gaps:31 33.91 1162 19.54 7e-14 pfam02463 SMC_N RecF/RecN/SMC N terminal domain. This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.
rpsblast_cdd gnl|CDD|72998 23 1043 + 1021 Gaps:4 73.60 178 37.40 6e-13 cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms. SMCs are generally present as single proteins in bacteria and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa and each has five distinct domains: amino- and carboxy-terminal globular domains which contain sequences characteristic of ATPases two coiled-coil regions separating the terminal domains and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions including chromosome condensation sister-chromatid cohesion recombination DNA repair and epigenetic silencing of gene expression..
rpsblast_cdd gnl|CDD|162740 23 415 + 393 Gaps:43 35.40 1164 22.09 6e-12 TIGR02169 SMC_prok_A chromosome segregation protein SMC primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria archaea and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes but six paralogs (excluded from this family) are found in eukarotes where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex Synechocystis etc) the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved but the central hinge region is skewed in composition and highly divergent.
rpsblast_cdd gnl|CDD|30768 23 824 + 802 Gaps:73 87.11 908 18.71 1e-11 COG0419 SbcC ATPase involved in DNA repair [DNA replication recombination and repair].
rpsblast_cdd gnl|CDD|205654 25 241 + 217 Gaps:28 99.51 204 20.20 2e-10 pfam13476 AAA_23 AAA domain.
rpsblast_cdd gnl|CDD|73034 23 143 + 121 Gaps:10 50.61 247 30.40 1e-09 cd03275 ABC_SMC1_euk Eukaryotic SMC1 proteins SMC proteins are large (approximately 110 to 170 kDa) and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T in the single-letter amino-acid code) which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells the proteins are found as heterodimers of SMC1 paired with SMC3 SMC2 with SMC4 and SMC5 with SMC6 (formerly known as Rad18)..
rpsblast_cdd gnl|CDD|162739 48 910 + 863 Gaps:108 61.66 1179 36.86 2e-08 TIGR02168 SMC_prok_B chromosome segregation protein SMC common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria archaea and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

20 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
Gene3D 23 159 137 G3DSA:3.40.50.300 none none IPR027417
PANTHER 967 1050 84 PTHR19306 none none none
PANTHER 7 913 907 PTHR19306 none none none
SUPERFAMILY 771 921 151 SSF52540 none none IPR027417
SUPERFAMILY 976 1045 70 SSF52540 none none IPR027417
PANTHER 967 1050 84 PTHR19306:SF1 none none IPR027131
PANTHER 7 913 907 PTHR19306:SF1 none none IPR027131
Coils 207 235 29 Coil none none none
Coils 371 397 27 Coil none none none
Coils 246 288 43 Coil none none none
Coils 773 794 22 Coil none none none
SUPERFAMILY 23 175 153 SSF52540 none none IPR027417
SUPERFAMILY 251 282 32 SSF52540 none none IPR027417
SUPERFAMILY 965 1043 79 SSF52540 none none IPR027417
Pfam 23 1041 1019 PF02463 none RecF/RecN/SMC N terminal domain IPR003395
Gene3D 850 859 10 G3DSA:3.40.50.300 none none IPR027417
Gene3D 649 689 41 G3DSA:3.40.50.300 none none IPR027417
Gene3D 972 1043 72 G3DSA:3.40.50.300 none none IPR027417
Coils 836 878 43 Coil none none none
Coils 676 697 22 Coil none none none

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_2014_vSeqBC_3P Qrob_Chr10 10 s_1A6CK6_610 v_7092_29 4,28 0 23,27 lod 2,8619 7
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_nFork*_3P Qrob_Chr06 6 v_12930_125 s_1AMZEI_909 34,28 7,43 41,48 lod 2,4044 5,5
Bourran1_2004_QTL4_peak_Bud_burst_3P Qrob_Chr04 4 s_1AHUWN_1101 s_1BRNG7_1618 30,55 0 47,55 lod 2,8 7,4
Bourran2_2002_QTL10_peak_Bud_burst_A4 Qrob_Chr04 4 s_1B59MJ_737 s_1BGLSD_999 15,86 0 41,66 lod 2,8 4

0 Targeting