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Entry version 152 (12 Aug 2020)
Sequence version 1 (01 Nov 1996)
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Protein

Sphingoid long chain base kinase 5

Gene

LCB5

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
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 phosphorylation of the sphingoid long chain bases dihydrosphingosine (DHS or sphinganine) and phytosphingosine (PHS) to form dihydrosphingosine 1-phosphate (DHS-1P) and phytosphingosine 1-phosphate (PHS-1P) respectively (PubMed:9677363, PubMed:11102354, PubMed:12493772, PubMed:25345524). Redundant to LCB4, is only responsible for few percent of the total activity (PubMed:9677363). Involved in the biosynthesis of sphingolipids and ceramides (PubMed:9677363, PubMed:25345524). Involved in heat-induced transient cell cycle arrest (PubMed:11056159). Accumulation of phosphorylated sphingoid long chain bases (LCBPs) stimulates calcium influx and activates calcineurin signaling (PubMed:11102354, PubMed:11278643). Involved in heat-stress resistance (PubMed:11056159).6 Publications

Miscellaneous

Present with 1760 molecules/cell in log phase SD medium.1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

  1. KM=2 µM for dihydrosphingosine1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei308ATPPROSITE-ProRule annotation1
    <p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei335Proton donor/acceptorBy similarity1
    Binding sitei340ATPPROSITE-ProRule annotation1
    Binding sitei434ATPPROSITE-ProRule annotation1
    Binding sitei440ATPPROSITE-ProRule annotation1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 bindingi276 – 278ATPPROSITE-ProRule annotation3
    Nucleotide bindingi366 – 368ATPPROSITE-ProRule annotation3
    Nucleotide bindingi652 – 654ATPPROSITE-ProRule annotation3

    <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 functionKinase, Transferase
    Biological processLipid metabolism, Sphingolipid metabolism
    LigandATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyc Collection of Pathway/Genome Databases

    More...
    BioCyci
    MetaCyc:YLR260W-MONOMER
    YEAST:YLR260W-MONOMER

    Reactome - a knowledgebase of biological pathways and processes

    More...
    Reactomei
    R-SCE-1660661, Sphingolipid de novo biosynthesis
    R-SCE-390471, Association of TriC/CCT with target proteins during biosynthesis
    R-SCE-5218921, VEGFR2 mediated cell proliferation
    R-SCE-9009391, Extra-nuclear estrogen signaling

    Chemistry databases

    SwissLipids knowledge resource for lipid biology

    More...
    SwissLipidsi
    SLP:000000110

    <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%5Fand%5Ftaxonomy%5Fsection">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:
    Sphingoid long chain base kinase 5 (EC:2.7.1.911 Publication)
    Short name:
    LCB kinase 5
    Alternative name(s):
    Sphinganine kinase 5
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:LCB5
    Ordered Locus Names:YLR260W
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri559292 [NCBI]
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
    • UP000002311 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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 XII

    Organism-specific databases

    Eukaryotic Pathogen Database Resources

    More...
    EuPathDBi
    FungiDB:YLR260W

    Saccharomyces Genome Database

    More...
    SGDi
    S000004250, LCB5

    <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 Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

    Keywords - Cellular componenti

    Golgi apparatus, 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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002559571 – 687Sphingoid long chain base kinase 5Add BLAST687

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section specifies the position(s) and the type of covalently attached lipid group(s).<p><a href='/help/lipid' target='_top'>More...</a></p>Lipidationi91S-palmitoyl cysteineBy similarity1
    Lipidationi94S-palmitoyl cysteineBy similarity1

    Keywords - PTMi

    Lipoprotein, Palmitate

    Proteomic databases

    MaxQB - The MaxQuant DataBase

    More...
    MaxQBi
    Q06147

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

    More...
    PaxDbi
    Q06147

    PRoteomics IDEntifications database

    More...
    PRIDEi
    Q06147

    PTM databases

    iPTMnet integrated resource for PTMs in systems biology context

    More...
    iPTMneti
    Q06147

    <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

    The Biological General Repository for Interaction Datasets (BioGRID)

    More...
    BioGRIDi
    31528, 166 interactors

    Protein interaction database and analysis system

    More...
    IntActi
    Q06147, 1 interactor

    Molecular INTeraction database

    More...
    MINTi
    Q06147

    STRING: functional protein association networks

    More...
    STRINGi
    4932.YLR260W

    Miscellaneous databases

    RNAct, Protein-RNA interaction predictions for model organisms.

    More...
    RNActi
    Q06147, protein

    <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

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini266 – 405DAGKcPROSITE-ProRule annotationAdd BLAST140

    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>Regioni333 – 336Substrate bindingBy similarity4

    Phylogenomic databases

    evolutionary genealogy of genes: Non-supervised Orthologous Groups

    More...
    eggNOGi
    KOG1116, Eukaryota

    Ensembl GeneTree

    More...
    GeneTreei
    ENSGT00940000167991

    The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

    More...
    HOGENOMi
    CLU_013399_0_2_1

    InParanoid: Eukaryotic Ortholog Groups

    More...
    InParanoidi
    Q06147

    KEGG Orthology (KO)

    More...
    KOi
    K04718

    Identification of Orthologs from Complete Genome Data

    More...
    OMAi
    FAKPRRH

    Family and domain databases

    Gene3D Structural and Functional Annotation of Protein Families

    More...
    Gene3Di
    3.40.50.10330, 1 hit

    Integrated resource of protein families, domains and functional sites

    More...
    InterProi
    View protein in InterPro
    IPR017438, ATP-NAD_kinase_N
    IPR001206, Diacylglycerol_kinase_cat_dom
    IPR016064, NAD/diacylglycerol_kinase_sf

    Pfam protein domain database

    More...
    Pfami
    View protein in Pfam
    PF00781, DAGK_cat, 1 hit

    Simple Modular Architecture Research Tool; a protein domain database

    More...
    SMARTi
    View protein in SMART
    SM00046, DAGKc, 1 hit

    Superfamily database of structural and functional annotation

    More...
    SUPFAMi
    SSF111331, SSF111331, 1 hit

    PROSITE; a protein domain and family database

    More...
    PROSITEi
    View protein in PROSITE
    PS50146, DAGK, 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%5Flength">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

    Q06147-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MTLKPSKRRK GRSRHSRKKQ ITSAILTEEG IMIKAKPSSP YTYANRMADK
    60 70 80 90 100
    RSRSSIDNIS RTSFQSNISR TSFQSNSDNN SIFETASLIS CVTCLSDTDT
    110 120 130 140 150
    IDRSETSTTD TSKDDLSANP KLHYPSVNGQ LPANTVIPYG RILDARYIEK
    160 170 180 190 200
    EPLHYYDANS SPSSPLSSSM SNISEKCDLD ELESSQKKER KGNSLSRGSN
    210 220 230 240 250
    SSSSLLTSRS PFTKLVEVIF ARPRRHDVVP KRVSLYIDYK PHSSSHLKEE
    260 270 280 290 300
    DDLVEEILKR SYKNTRRNKS IFVIINPFGG KGKAKKLFMT KAKPLLLASR
    310 320 330 340 350
    CSIEVVYTKY PGHAIEIARE MDIDKYDTIA CASGDGIPHE VINGLYQRPD
    360 370 380 390 400
    HVKAFNNIAI TEIPCGSGNA MSVSCHWTNN PSYSTLCLIK SIETRIDLMC
    410 420 430 440 450
    CSQPSYAREH PKLSFLSQTY GLIAETDINT EFIRWMGPAR FELGVAFNII
    460 470 480 490 500
    QKKKYPCEIY VKYAAKSKNE LKNHYLEHKN KGSLEFQHIT MNKDNEDCDN
    510 520 530 540 550
    YNYENEYETE NEDEDEDADA DDEDSHLISR DLADSSADQI KEEDFKIKYP
    560 570 580 590 600
    LDEGIPSDWE RLDPNISNNL GIFYTGKMPY VAADTKFFPA ALPSDGTMDM
    610 620 630 640 650
    VITDARTSLT RMAPILLGLD KGSHVLQPEV LHSKILAYKI IPKLGNGLFS
    660 670 680
    VDGEKFPLEP LQVEIMPRLC KTLLRNGRYV DTDFDSM
    Length:687
    Mass (Da):77,566
    Last modified:November 1, 1996 - 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:i205C32F3570042FA
    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
    U17244 Genomic DNA Translation: AAB67377.1
    BK006945 Genomic DNA Translation: DAA09573.1

    Protein sequence database of the Protein Information Resource

    More...
    PIRi
    S51398

    NCBI Reference Sequences

    More...
    RefSeqi
    NP_013361.1, NM_001182147.1

    Genome annotation databases

    Ensembl fungal genome annotation project

    More...
    EnsemblFungii
    YLR260W_mRNA; YLR260W; YLR260W

    Database of genes from NCBI RefSeq genomes

    More...
    GeneIDi
    850964

    KEGG: Kyoto Encyclopedia of Genes and Genomes

    More...
    KEGGi
    sce:YLR260W

    <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
    U17244 Genomic DNA Translation: AAB67377.1
    BK006945 Genomic DNA Translation: DAA09573.1
    PIRiS51398
    RefSeqiNP_013361.1, NM_001182147.1

    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

    BioGRIDi31528, 166 interactors
    IntActiQ06147, 1 interactor
    MINTiQ06147
    STRINGi4932.YLR260W

    Chemistry databases

    SwissLipidsiSLP:000000110

    PTM databases

    iPTMnetiQ06147

    Proteomic databases

    MaxQBiQ06147
    PaxDbiQ06147
    PRIDEiQ06147

    Genome annotation databases

    EnsemblFungiiYLR260W_mRNA; YLR260W; YLR260W
    GeneIDi850964
    KEGGisce:YLR260W

    Organism-specific databases

    EuPathDBiFungiDB:YLR260W
    SGDiS000004250, LCB5

    Phylogenomic databases

    eggNOGiKOG1116, Eukaryota
    GeneTreeiENSGT00940000167991
    HOGENOMiCLU_013399_0_2_1
    InParanoidiQ06147
    KOiK04718
    OMAiFAKPRRH

    Enzyme and pathway databases

    BioCyciMetaCyc:YLR260W-MONOMER
    YEAST:YLR260W-MONOMER
    ReactomeiR-SCE-1660661, Sphingolipid de novo biosynthesis
    R-SCE-390471, Association of TriC/CCT with target proteins during biosynthesis
    R-SCE-5218921, VEGFR2 mediated cell proliferation
    R-SCE-9009391, Extra-nuclear estrogen signaling

    Miscellaneous databases

    Protein Ontology

    More...
    PROi
    PR:Q06147
    RNActiQ06147, protein

    Family and domain databases

    Gene3Di3.40.50.10330, 1 hit
    InterProiView protein in InterPro
    IPR017438, ATP-NAD_kinase_N
    IPR001206, Diacylglycerol_kinase_cat_dom
    IPR016064, NAD/diacylglycerol_kinase_sf
    PfamiView protein in Pfam
    PF00781, DAGK_cat, 1 hit
    SMARTiView protein in SMART
    SM00046, DAGKc, 1 hit
    SUPFAMiSSF111331, SSF111331, 1 hit
    PROSITEiView protein in PROSITE
    PS50146, DAGK, 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 nameiLCB5_YEAST
    <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: Q06147
    Secondary accession number(s): D6VYQ7
    <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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 31, 2006
    Last sequence update: November 1, 1996
    Last modified: August 12, 2020
    This is version 152 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 programFungal 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

    Reference proteome

    Documents

    1. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    2. Yeast chromosome XII
      Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names
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