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Protein

Shikimate kinase 2, chloroplastic

Gene

SK2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the specific phosphorylation of the 3-hydroxyl group of shikimic acid using ATP as a cosubstrate.2 Publications

Catalytic activityi

ATP + shikimate = ADP + shikimate 3-phosphate.1 Publication

Cofactori

Mg2+By similarityNote: Binds 1 Mg2+ ion per subunit.By similarity

Enzyme regulationi

Inactivated by heat (37 degrees Celsius).1 Publication

Kineticsi

  1. KM=422 µM for shikimate1 Publication
  2. KM=246 µM for ATP1 Publication

    Pathwayi: chorismate biosynthesis

    This protein is involved in step 5 of the subpathway that synthesizes chorismate from D-erythrose 4-phosphate and phosphoenolpyruvate.
    Proteins known to be involved in the 7 steps of the subpathway in this organism are:
    1. Phospho-2-dehydro-3-deoxyheptonate aldolase, Phospho-2-dehydro-3-deoxyheptonate aldolase 2, chloroplastic (DHS2), Phospho-2-dehydro-3-deoxyheptonate aldolase (At4g33510), Phospho-2-dehydro-3-deoxyheptonate aldolase (At4g33510), Phospho-2-dehydro-3-deoxyheptonate aldolase (F12K8.24), Phospho-2-dehydro-3-deoxyheptonate aldolase (AXX17_At1g23540), Phospho-2-dehydro-3-deoxyheptonate aldolase, Phospho-2-dehydro-3-deoxyheptonate aldolase (DHS2), Phospho-2-dehydro-3-deoxyheptonate aldolase (AXX17_At4g38330), Phospho-2-dehydro-3-deoxyheptonate aldolase (AXX17_At4g45420), Phospho-2-dehydro-3-deoxyheptonate aldolase 1, chloroplastic (DHS1)
    2. 3-dehydroquinate synthase, chloroplastic (DHQS)
    3. Bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase, chloroplastic (EMB3004)
    4. Bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase, chloroplastic (EMB3004)
    5. Shikimate kinase 2, chloroplastic (SK2), Shikimate kinase 1, chloroplastic (SK1)
    6. 3-phosphoshikimate 1-carboxyvinyltransferase (F27K7.11), 3-phosphoshikimate 1-carboxyvinyltransferase, 3-phosphoshikimate 1-carboxyvinyltransferase (AXX17_At2g42890), 3-phosphoshikimate 1-carboxyvinyltransferase (AXX17_At1g42980), 3-phosphoshikimate 1-carboxyvinyltransferase, chloroplastic (At2g45300)
    7. Chorismate synthase (At1g48850), Chorismate synthase, chloroplastic (EMB1144), Chorismate synthase (AXX17_At1g42970), Chorismate synthase (EMB1144), Chorismate synthase (EMB1144)
    This subpathway is part of the pathway chorismate biosynthesis, which is itself part of Metabolic intermediate biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes chorismate from D-erythrose 4-phosphate and phosphoenolpyruvate, the pathway chorismate biosynthesis and in Metabolic intermediate biosynthesis.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Metal bindingi112MagnesiumBy similarity1
    Binding sitei130SubstrateBy similarity1
    Binding sitei155SubstrateBy similarity1
    Binding sitei178Substrate; via amide nitrogenBy similarity1
    Binding sitei217ATPBy similarity1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi105 – 112ATPBy similarity8

    GO - Molecular functioni

    • ATP binding Source: UniProtKB-KW
    • magnesium ion binding Source: GO_Central
    • shikimate kinase activity Source: UniProtKB

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Kinase, Transferase

    Keywords - Biological processi

    Amino-acid biosynthesis, Aromatic amino acid biosynthesis

    Keywords - Ligandi

    ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciARA:AT4G39540-MONOMER.
    MetaCyc:AT4G39540-MONOMER.
    BRENDAi2.7.1.71. 399.
    UniPathwayiUPA00053; UER00088.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Shikimate kinase 2, chloroplastic (EC:2.7.1.71)
    Short name:
    AtSK2
    Gene namesi
    Name:SK2
    Ordered Locus Names:At4g39540
    ORF Names:F23K16.170
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    Proteomesi
    • UP000006548 Componenti: Chromosome 4

    Organism-specific databases

    TAIRiAT4G39540.

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Chloroplast, Plastid

    Pathology & Biotechi

    Disruption phenotypei

    No visible phenotype under normal growth conditions.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Transit peptidei1 – 58ChloroplastSequence analysisAdd BLAST58
    ChainiPRO_000042111059 – 300Shikimate kinase 2, chloroplasticAdd BLAST242

    Proteomic databases

    PaxDbiQ8GY88.
    PRIDEiQ8GY88.

    Expressioni

    Gene expression databases

    ExpressionAtlasiQ8GY88. baseline and differential.
    GenevisibleiQ8GY88. AT.

    Interactioni

    Subunit structurei

    Monomer.1 Publication

    Protein-protein interaction databases

    IntActiQ8GY88. 7 interactors.
    STRINGi3702.AT4G39540.3.

    Structurei

    Secondary structure

    1300
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Helixi83 – 90Combined sources8
    Helixi93 – 96Combined sources4
    Beta strandi101 – 104Combined sources4
    Helixi111 – 122Combined sources12
    Beta strandi125 – 128Combined sources4
    Helixi129 – 136Combined sources8
    Helixi142 – 149Combined sources8
    Helixi151 – 168Combined sources18
    Beta strandi170 – 175Combined sources6
    Helixi178 – 182Combined sources5
    Helixi184 – 190Combined sources7
    Beta strandi193 – 199Combined sources7
    Helixi202 – 210Combined sources9
    Helixi229 – 247Combined sources19
    Beta strandi250 – 255Combined sources6
    Helixi256 – 263Combined sources8
    Helixi268 – 270Combined sources3
    Helixi273 – 289Combined sources17

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3NWJX-ray2.35A/B55-300[»]
    ProteinModelPortaliQ8GY88.
    SMRiQ8GY88.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the shikimate kinase family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiENOG410IHYX. Eukaryota.
    COG0703. LUCA.
    HOGENOMiHOG000032570.
    InParanoidiQ8GY88.
    KOiK00891.
    PhylomeDBiQ8GY88.

    Family and domain databases

    CDDicd00464. SK. 1 hit.
    Gene3Di3.40.50.300. 1 hit.
    HAMAPiMF_00109. Shikimate_kinase. 1 hit.
    InterProiIPR027417. P-loop_NTPase.
    IPR031322. Shikimate/glucono_kinase.
    IPR000623. Shikimate_kinase/TSH1.
    IPR023000. Shikimate_kinase_CS.
    [Graphical view]
    PfamiPF01202. SKI. 1 hit.
    [Graphical view]
    SUPFAMiSSF52540. SSF52540. 2 hits.
    PROSITEiPS01128. SHIKIMATE_KINASE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

    Note: A number of isoforms are produced. According to EST sequences.
    Isoform 1 (identifier: Q8GY88-1) [UniParc]FASTAAdd to basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

            10         20         30         40         50
    MEAATVQRFQ YSSWNDLRNF EGKPRGSLRY NTQRIKEDKR FRVVALTLDK
    60 70 80 90 100
    RRDHRLRSVS DKNSSALLET GSLLHSPFDE EQQILKKKAE EVKPYLNGRS
    110 120 130 140 150
    MYLVGMMGSG KTTVGKIMAR SLGYTFFDCD TLIEQAMKGT SVAEIFEHFG
    160 170 180 190 200
    ESVFREKETE ALKKLSLMYH QVVVSTGGGA VIRPINWKYM HKGISIWLDV
    210 220 230 240 250
    PLEALAHRIA AVGTGSRPLL HDDESGDTYT AALNRLSTIW DARGEAYTKA
    260 270 280 290 300
    SARVSLENIT LKLGYRSVSD LTPAEIAIEA FEQVQSYLEK EDGMARPDGL
    Length:300
    Mass (Da):33,777
    Last modified:March 1, 2003 - v1
    Checksum:i8868B7DF6FF7D492
    GO

    Sequence cautioni

    The sequence CAB44689 differs from that shown. Reason: Erroneous gene model prediction.Curated
    The sequence CAB80617 differs from that shown. Reason: Erroneous gene model prediction.Curated

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AL078620 Genomic DNA. Translation: CAB44689.1. Sequence problems.
    AL161595 Genomic DNA. Translation: CAB80617.1. Sequence problems.
    CP002687 Genomic DNA. Translation: AEE87083.1.
    CP002687 Genomic DNA. Translation: AEE87084.1.
    AK117791 mRNA. Translation: BAC42436.1.
    BT005291 mRNA. Translation: AAO63355.1.
    PIRiT09370.
    RefSeqiNP_195664.2. NM_120114.2. [Q8GY88-1]
    NP_974715.1. NM_202986.2. [Q8GY88-1]
    UniGeneiAt.43917.

    Genome annotation databases

    EnsemblPlantsiAT4G39540.1; AT4G39540.1; AT4G39540. [Q8GY88-1]
    AT4G39540.2; AT4G39540.2; AT4G39540. [Q8GY88-1]
    GeneIDi830108.
    GrameneiAT4G39540.1; AT4G39540.1; AT4G39540.
    AT4G39540.2; AT4G39540.2; AT4G39540.
    KEGGiath:AT4G39540.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AL078620 Genomic DNA. Translation: CAB44689.1. Sequence problems.
    AL161595 Genomic DNA. Translation: CAB80617.1. Sequence problems.
    CP002687 Genomic DNA. Translation: AEE87083.1.
    CP002687 Genomic DNA. Translation: AEE87084.1.
    AK117791 mRNA. Translation: BAC42436.1.
    BT005291 mRNA. Translation: AAO63355.1.
    PIRiT09370.
    RefSeqiNP_195664.2. NM_120114.2. [Q8GY88-1]
    NP_974715.1. NM_202986.2. [Q8GY88-1]
    UniGeneiAt.43917.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3NWJX-ray2.35A/B55-300[»]
    ProteinModelPortaliQ8GY88.
    SMRiQ8GY88.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    IntActiQ8GY88. 7 interactors.
    STRINGi3702.AT4G39540.3.

    Proteomic databases

    PaxDbiQ8GY88.
    PRIDEiQ8GY88.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblPlantsiAT4G39540.1; AT4G39540.1; AT4G39540. [Q8GY88-1]
    AT4G39540.2; AT4G39540.2; AT4G39540. [Q8GY88-1]
    GeneIDi830108.
    GrameneiAT4G39540.1; AT4G39540.1; AT4G39540.
    AT4G39540.2; AT4G39540.2; AT4G39540.
    KEGGiath:AT4G39540.

    Organism-specific databases

    TAIRiAT4G39540.

    Phylogenomic databases

    eggNOGiENOG410IHYX. Eukaryota.
    COG0703. LUCA.
    HOGENOMiHOG000032570.
    InParanoidiQ8GY88.
    KOiK00891.
    PhylomeDBiQ8GY88.

    Enzyme and pathway databases

    UniPathwayiUPA00053; UER00088.
    BioCyciARA:AT4G39540-MONOMER.
    MetaCyc:AT4G39540-MONOMER.
    BRENDAi2.7.1.71. 399.

    Miscellaneous databases

    PROiQ8GY88.

    Gene expression databases

    ExpressionAtlasiQ8GY88. baseline and differential.
    GenevisibleiQ8GY88. AT.

    Family and domain databases

    CDDicd00464. SK. 1 hit.
    Gene3Di3.40.50.300. 1 hit.
    HAMAPiMF_00109. Shikimate_kinase. 1 hit.
    InterProiIPR027417. P-loop_NTPase.
    IPR031322. Shikimate/glucono_kinase.
    IPR000623. Shikimate_kinase/TSH1.
    IPR023000. Shikimate_kinase_CS.
    [Graphical view]
    PfamiPF01202. SKI. 1 hit.
    [Graphical view]
    SUPFAMiSSF52540. SSF52540. 2 hits.
    PROSITEiPS01128. SHIKIMATE_KINASE. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Entry informationi

    Entry nameiSK2_ARATH
    AccessioniPrimary (citable) accession number: Q8GY88
    Secondary accession number(s): Q9SVA4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 6, 2013
    Last sequence update: March 1, 2003
    Last modified: November 2, 2016
    This is version 108 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    4. SIMILARITY comments
      Index of protein domains and families

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.