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Entry version 34 (13 Nov 2019)
Sequence version 1 (16 Apr 2014)
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Protein

Lysylphosphatidylglycerol biosynthesis bifunctional protein LysX

Gene

lysX

Organism
Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
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 protein 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

Catalyzes the production of L-lysyl-tRNA(Lys)transfer and the transfer of a lysyl group from L-lysyl-tRNA(Lys) to membrane-bound phosphatidylglycerol (PG), which produces lysylphosphatidylglycerol (LPG), one of the components of the bacterial membrane with a positive net charge. LPG synthesis contributes to the resistance to cationic antimicrobial peptides (CAMPs) and likely protects M.tuberculosis against the CAMPs produced by competiting microorganisms (bacteriocins). In fact, the modification of anionic phosphatidylglycerol with positively charged L-lysine results in repulsion of the peptides.1 Publication

Miscellaneous

There are two lysyl-tRNA ligases in M.tuberculosis.

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the ‘Function’ section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Mg2+By similarityNote: Binds 3 Mg2+ ions per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the ‘Description’ field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi1084Magnesium 1By similarity1
Metal bindingi1091Magnesium 1By similarity1
Metal bindingi1091Magnesium 2By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section specifies the position and type of each DNA-binding domain present within the protein.<p><a href='/help/dna_bind' target='_top'>More...</a></p>DNA bindingi726 – 804OBAdd BLAST79

<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 functionAminoacyl-tRNA synthetase, DNA-binding, Ligase, Multifunctional enzyme, Transferase
Biological processAntibiotic resistance, Lipid metabolism, Virulence
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MTBH37RV:G185E-5830-MONOMER

<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:
Lysylphosphatidylglycerol biosynthesis bifunctional protein LysX
Including the following 2 domains:
Lysine--tRNA ligase (EC:6.1.1.6)
Alternative name(s):
Lysyl-tRNA synthetase
Short name:
LysRS
Phosphatidylglycerol lysyltransferase (EC:2.3.2.3)
Alternative name(s):
Lysylphosphatidylglycerol synthetase
Short name:
LPG synthetase
<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:lysX
Synonyms:lysS2, lysU, mprF
Ordered Locus Names:Rv1640c
ORF Names:MTCY06H11.04c
<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>OrganismiMycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
<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 identifieri83332 [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 lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium tuberculosis complex
<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
  • UP000001584 <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

Organism-specific databases

Mycobacterium tuberculosis strain H37Rv genome database

More...
TubercuListi
Rv1640c

<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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei80 – 100HelicalSequence analysisAdd BLAST21
Transmembranei122 – 142HelicalSequence analysisAdd BLAST21
Transmembranei146 – 166HelicalSequence analysisAdd BLAST21
Transmembranei177 – 197HelicalSequence analysisAdd BLAST21
Transmembranei214 – 234HelicalSequence analysisAdd BLAST21
Transmembranei272 – 292HelicalSequence analysisAdd BLAST21
Transmembranei497 – 517HelicalSequence analysisAdd BLAST21
Transmembranei612 – 632HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Keywords - Cellular componenti

Cell membrane, Membrane

<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_00001526571 – 1172Lysylphosphatidylglycerol biosynthesis bifunctional protein LysXAdd BLAST1172

Proteomic databases

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

More...
PaxDbi
P9WFU7

PRoteomics IDEntifications database

More...
PRIDEi
P9WFU7

<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
83332.Rv1640c

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P9WFU7

Database of comparative protein structure models

More...
ModBasei
Search...

<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

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 663Phosphatidylglycerol lysyltransferaseAdd BLAST663
Regioni664 – 1172Lysine--tRNA ligaseAdd BLAST509

<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

In the N-terminal section; belongs to the LPG synthetase family.Curated
In the C-terminal section; belongs to the class-II aminoacyl-tRNA synthetase family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG1190 LUCA
COG2898 LUCA

KEGG Orthology (KO)

More...
KOi
K04567

Identification of Orthologs from Complete Genome Data

More...
OMAi
WDLVAFG

Family and domain databases

HAMAP database of protein families

More...
HAMAPi
MF_00252 Lys_tRNA_synth_class2, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR004364 Aa-tRNA-synt_II
IPR006195 aa-tRNA-synth_II
IPR024320 LPG_synthase_C
IPR002313 Lys-tRNA-ligase_II
IPR018149 Lys-tRNA-synth_II_C
IPR012340 NA-bd_OB-fold
IPR004365 NA-bd_OB_tRNA
IPR031553 tRNA-synt_2_TM

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF09924 DUF2156, 1 hit
PF00152 tRNA-synt_2, 1 hit
PF16995 tRNA-synt_2_TM, 1 hit
PF01336 tRNA_anti-codon, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00982 TRNASYNTHLYS

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF50249 SSF50249, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00499 lysS_bact, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50862 AA_TRNA_LIGASE_II, 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>Sequencei

<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.

P9WFU7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MGLHLTVPGL RRDGRGVQSN SHDTSSKTTA DISRCPQHTD AGLQRAATPG
60 70 80 90 100
ISRLLGISSR SVTLTKPRSA TRGNSRYHWV PAAAGWTVGV IATLSLLASV
110 120 130 140 150
SPLIRWIIKV PREFINDYLF NFPDTNFAWS FVLALLAAAL TARKRIAWLV
160 170 180 190 200
LLANMVLAAV VNAAEIAAGG NTAAESFGEN LGFAVHVVAI VVLVLGYREF
210 220 230 240 250
WAKVRRGALF RAAAVWLAGA VVGIVASWGL VELFPGSLAP DERLGYAANR
260 270 280 290 300
VVGFALADPD LFTGRPHVFL NAIFGLFGAF ALIGAAIVLF LSQRADNALT
310 320 330 340 350
GEDESAIRGL LDLYGKDDSL GYFATRRDKS VVFASSGRAC ITYRVEVGVC
360 370 380 390 400
LASGDPVGDH RAWPQAVDAW LRLCQTYGWA PGVMGASSQG AQTYREAGLT
410 420 430 440 450
ALELGDEAIL RPADFKLSGP EMRGVRQAVT RARRAGLTVR IRRHRDIAED
460 470 480 490 500
EMAQTITRAD SWRDTETERG FSMALGRLGD PADSDCLLVE AIDPHNQVLA
510 520 530 540 550
MLSLVPWGTT GVSLDLMRRS PQSPNGTIEL MVSELALHAE SLGITRISLN
560 570 580 590 600
FAVFRAAFEQ GAQLGAGPVA RLWRGLLVFF SRWWQLETLY RSNMKYQPEW
610 620 630 640 650
VPRYACYEDA RVIPRVGVAS VIAEGFLVLP FSRRNRVHTG HHPAVPERLA
660 670 680 690 700
ATGLLHHDGS APDVSGLRQV GLTNGDGVER RLPEQVRVRF DKLEKLRSSG
710 720 730 740 750
IDAFPVGRPP SHTVAQALAA DHQASVSVSG RIMRIRNYGG VLFAQLRDWS
760 770 780 790 800
GEMQVLLDNS RLDQGCAADF NAATDLGDLV EMTGHMGASK TGTPSLIVSG
810 820 830 840 850
WRLIGKCLRP LPNKWKGLLD PEARVRTRYL DLAVNAESRA LITARSSVLR
860 870 880 890 900
AVRETLFAKG FVEVETPILQ QLHGGATARP FVTHINTYSM DLFLRIAPEL
910 920 930 940 950
YLKRLCVGGV ERVFELGRAF RNEGVDFSHN PEFTLLEAYQ AHADYLEWID
960 970 980 990 1000
GCRELIQNAA QAANGAPIAM RPRTDKGSDG TRHHLEPVDI SGIWPVRTVH
1010 1020 1030 1040 1050
DAISEALGER IDADTGLTTL RKLCDAAGVP YRTQWDAGAV VLELYEHLVE
1060 1070 1080 1090 1100
CRTEQPTFYI DFPTSVSPLT RPHRSKRGVA ERWDLVAWGI ELGTAYSELT
1110 1120 1130 1140 1150
DPVEQRRRLQ EQSLLAAGGD PEAMELDEDF LQAMEYAMPP TGGLGMGIDR
1160 1170
VVMLITGRSI RETLPFPLAK PH
Length:1,172
Mass (Da):128,240
Last modified:April 16, 2014 - 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:i97E91546A1ACCAEB
GO

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
AL123456 Genomic DNA Translation: CCP44405.1

Protein sequence database of the Protein Information Resource

More...
PIRi
C70619

NCBI Reference Sequences

More...
RefSeqi
NP_216156.1, NC_000962.3
WP_003408102.1, NZ_NVQJ01000016.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
CCP44405; CCP44405; Rv1640c

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
885428

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
mtu:Rv1640c
mtv:RVBD_1640c

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|83332.111.peg.1825

<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
AL123456 Genomic DNA Translation: CCP44405.1
PIRiC70619
RefSeqiNP_216156.1, NC_000962.3
WP_003408102.1, NZ_NVQJ01000016.1

3D structure databases

SMRiP9WFU7
ModBaseiSearch...

Protein-protein interaction databases

STRINGi83332.Rv1640c

Proteomic databases

PaxDbiP9WFU7
PRIDEiP9WFU7

Genome annotation databases

EnsemblBacteriaiCCP44405; CCP44405; Rv1640c
GeneIDi885428
KEGGimtu:Rv1640c
mtv:RVBD_1640c
PATRICifig|83332.111.peg.1825

Organism-specific databases

TubercuListiRv1640c

Phylogenomic databases

eggNOGiCOG1190 LUCA
COG2898 LUCA
KOiK04567
OMAiWDLVAFG

Enzyme and pathway databases

BioCyciMTBH37RV:G185E-5830-MONOMER

Family and domain databases

HAMAPiMF_00252 Lys_tRNA_synth_class2, 1 hit
InterProiView protein in InterPro
IPR004364 Aa-tRNA-synt_II
IPR006195 aa-tRNA-synth_II
IPR024320 LPG_synthase_C
IPR002313 Lys-tRNA-ligase_II
IPR018149 Lys-tRNA-synth_II_C
IPR012340 NA-bd_OB-fold
IPR004365 NA-bd_OB_tRNA
IPR031553 tRNA-synt_2_TM
PfamiView protein in Pfam
PF09924 DUF2156, 1 hit
PF00152 tRNA-synt_2, 1 hit
PF16995 tRNA-synt_2_TM, 1 hit
PF01336 tRNA_anti-codon, 1 hit
PRINTSiPR00982 TRNASYNTHLYS
SUPFAMiSSF50249 SSF50249, 1 hit
TIGRFAMsiTIGR00499 lysS_bact, 1 hit
PROSITEiView protein in PROSITE
PS50862 AA_TRNA_LIGASE_II, 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 nameiLYSX_MYCTU
<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: P9WFU7
Secondary accession number(s): L0T8V2, P94974
<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: April 16, 2014
Last sequence update: April 16, 2014
Last modified: November 13, 2019
This is version 34 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 programProkaryotic 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. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. SIMILARITY comments
    Index of protein domains and families
  3. Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh
    Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh: entries and gene names
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