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Entry version 64 (13 Nov 2019)
Sequence version 1 (28 Jun 2011)
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Protein

DNA mismatch repair protein MSH5

Gene

MSH5

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at transcript leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Involved in meiotic recombination in association with MSH4. Required for reciprocal recombination and proper segregation of homologous chromosomes at meiosis. Promotes homologous recombination through facilitating chiasma formation during prophase I. Involved in the control of class I crossovers formation.4 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi569 – 576ATPSequence analysis8

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionDNA-binding
Biological processMeiosis
LigandATP-binding, Nucleotide-binding

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
DNA mismatch repair protein MSH5
Short name:
AtMSH5
Alternative name(s):
MutS protein homolog 5
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:MSH5
Ordered Locus Names:At3g20475
ORF Names:MQC12.27
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiArabidopsis thaliana (Mouse-ear cress)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri3702 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000006548 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 3

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT3G20475

The Arabidopsis Information Resource

More...
TAIRi
locus:2092404 AT3G20475

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Chromosome, Nucleus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Normal vegetative growth but severe reduction in fertility due to a decrease in chiasma frequency at metaphase I of meiosis.4 Publications

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004183681 – 807DNA mismatch repair protein MSH5Add BLAST807

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
F4JEP5

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified ‘at protein level’. <br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Specifically expressed in flowers.2 Publications

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
F4JEP5 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
F4JEP5 AT

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
3702.AT3G20475.1

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the DNA mismatch repair MutS family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0219 Eukaryota
KOG0221 Eukaryota
COG0249 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000006649

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
F4JEP5

KEGG Orthology (KO)

More...
KOi
K08741

Identification of Orthologs from Complete Genome Data

More...
OMAi
LLTGPNY

Database of Orthologous Groups

More...
OrthoDBi
138168at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR011184 DNA_mismatch_repair_Msh2
IPR000432 DNA_mismatch_repair_MutS_C
IPR007696 DNA_mismatch_repair_MutS_core
IPR036187 DNA_mismatch_repair_MutS_sf
IPR027417 P-loop_NTPase

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF05192 MutS_III, 1 hit
PF00488 MutS_V, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF005813 MSH2, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00534 MUTSac, 1 hit
SM00533 MUTSd, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48334 SSF48334, 1 hit
SSF52540 SSF52540, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00486 DNA_MISMATCH_REPAIR_2, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

F4JEP5-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEEMEDTETE PQVYMACIQH GRRVGVSYYD CSVRQLHVLE FWEEDCSDFT
60 70 80 90 100
LINMVKYQAK PSIIYASTKS EESFVAALQQ NDGTDETTMV KLVKSSTFSY
110 120 130 140 150
EQAWHRLVYL RVTGMDDGLN IKERICYLSS MMDVGSEVQV RVSGGLLAIL
160 170 180 190 200
ESERIVETLE QNESGSASIA IDSVMEVPLN KFLKLDAAAH EALQIFQTDK
210 220 230 240 250
HPSHMGIGRA KEGFSVFGMM NKCATPMGRR LLRSWFMRPI LDLEVLDRRL
260 270 280 290 300
NAISFFISSV ELMASLRETL KSVKDISHLL KKFNSPTSLC TSNDWTAFLK
310 320 330 340 350
SISALLHVNK IFEVGVSESL REHMRRFNLD IIEKAGLCIS TELDYVYELV
360 370 380 390 400
IGVIDVTRSK ERGYQTLVKE GFCAELDELR QIYEELPEFL QEVSAMELEH
410 420 430 440 450
FPHLHKEKLP PCIVYIQQIG YLMCIFGEKL DETALNRLTE FEFAFSDMDG
460 470 480 490 500
ETQRFFYHTS KTRELDNLLG DIYHKILDME RAIIRDLLSH TLLFSAHLLK
510 520 530 540 550
AVNFVAELDC ILSLACVAHQ NNYVRPVLTV ESLLDIRNGR HVLQEMAVDT
560 570 580 590 600
FIPNDTEIND NGRIHIITGP NYSGKSIYVK QVALIVFLSH IGSFVPADAA
610 620 630 640 650
TVGLTDRIFC AMGSKFMTAE QSTFMIDLHQ VGMMLRQATS RSLCLLDEFG
660 670 680 690 700
KGTLTEDGIG LLGGTISHFA TCAEPPRVVV CTHLTELLNE SCLPVSEKIK
710 720 730 740 750
FYTMSVLRPD TESANMEEIV FLYRLIPGQT LLSYGLHCAL LAGVPEEVVK
760 770 780 790 800
RAAIVLDAFE SNNNVDKLSL DKISSQDQAF KDAVDKFAEL DISKGDIHAF

FQDIFTS
Length:807
Mass (Da):91,123
Last modified:June 28, 2011 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iC9EB2394FBB1D7AC
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1I9LLC6A0A1I9LLC6_ARATH
MUTS-homologue 5
MSH5 ATMSH5, MUTS-HOMOLOGUE 5, MUTS-homologue 5, At3g20475
768Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A1I9LLC7A0A1I9LLC7_ARATH
MUTS-homologue 5
MSH5 ATMSH5, MUTS-HOMOLOGUE 5, MUTS-homologue 5, At3g20475
777Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence BAB02831 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence BAD95388 differs from that shown. Reason: Frameshift.Curated
The sequence BAF02028 differs from that shown. Reason: Frameshift.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti75V → I in ABO69626 (PubMed:18318687).Curated1
Sequence conflicti658G → D in AAS76767 (Ref. 5) Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
EF471448 mRNA Translation: ABO69626.1
AB024036 Genomic DNA Translation: BAB02831.1 Sequence problems.
CP002686 Genomic DNA Translation: AEE76384.1
AK221687 mRNA Translation: BAD95388.1 Frameshift.
AK230222 mRNA Translation: BAF02028.1 Frameshift.
BT012280 mRNA Translation: AAS76767.1

NCBI Reference Sequences

More...
RefSeqi
NP_188683.3, NM_112939.4

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT3G20475.1; AT3G20475.1; AT3G20475

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
821593

Gramene; a comparative resource for plants

More...
Gramenei
AT3G20475.1; AT3G20475.1; AT3G20475

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT3G20475

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EF471448 mRNA Translation: ABO69626.1
AB024036 Genomic DNA Translation: BAB02831.1 Sequence problems.
CP002686 Genomic DNA Translation: AEE76384.1
AK221687 mRNA Translation: BAD95388.1 Frameshift.
AK230222 mRNA Translation: BAF02028.1 Frameshift.
BT012280 mRNA Translation: AAS76767.1
RefSeqiNP_188683.3, NM_112939.4

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Protein-protein interaction databases

STRINGi3702.AT3G20475.1

Proteomic databases

PaxDbiF4JEP5

Genome annotation databases

EnsemblPlantsiAT3G20475.1; AT3G20475.1; AT3G20475
GeneIDi821593
GrameneiAT3G20475.1; AT3G20475.1; AT3G20475
KEGGiath:AT3G20475

Organism-specific databases

AraportiAT3G20475
TAIRilocus:2092404 AT3G20475

Phylogenomic databases

eggNOGiKOG0219 Eukaryota
KOG0221 Eukaryota
COG0249 LUCA
HOGENOMiHOG000006649
InParanoidiF4JEP5
KOiK08741
OMAiLLTGPNY
OrthoDBi138168at2759

Miscellaneous databases

Protein Ontology

More...
PROi
PR:F4JEP5

Gene expression databases

ExpressionAtlasiF4JEP5 baseline and differential
GenevisibleiF4JEP5 AT

Family and domain databases

InterProiView protein in InterPro
IPR011184 DNA_mismatch_repair_Msh2
IPR000432 DNA_mismatch_repair_MutS_C
IPR007696 DNA_mismatch_repair_MutS_core
IPR036187 DNA_mismatch_repair_MutS_sf
IPR027417 P-loop_NTPase
PfamiView protein in Pfam
PF05192 MutS_III, 1 hit
PF00488 MutS_V, 1 hit
PIRSFiPIRSF005813 MSH2, 1 hit
SMARTiView protein in SMART
SM00534 MUTSac, 1 hit
SM00533 MUTSd, 1 hit
SUPFAMiSSF48334 SSF48334, 1 hit
SSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS00486 DNA_MISMATCH_REPAIR_2, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiMSH5_ARATH
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: F4JEP5
Secondary accession number(s): A4URL6
, Q56XI7, Q6NLQ0, Q9LTP4
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 11, 2012
Last sequence update: June 28, 2011
Last modified: November 13, 2019
This is version 64 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
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