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Protein

1,25-dihydroxyvitamin D(3) 24-hydroxylase, mitochondrial

Gene

Cyp24a1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Has a role in maintaining calcium homeostasis. Catalyzes the NADPH-dependent 24-hydroxylation of calcidiol (25-hydroxyvitamin D3) and calcitriol (1-alpha,25-dihydroxyvitamin D3). The enzyme can perform up to 6 rounds of hydroxylation of calcitriol leading to calcitroic acid.

Catalytic activityi

Calcitriol + NADPH + O2 = calcitetrol + NADP+ + H2O.1 Publication
Calcidiol + NADPH + O2 = secalciferol + NADP+ + H2O.1 Publication

Cofactori

heme1 Publication

Kineticsi

  1. KM=2.8 µM for calcidiol1 Publication

    pH dependencei

    Optimum pH is 7.7.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi462 – 4621Iron (heme axial ligand)

    GO - Molecular functioni

    • 1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity Source: BHF-UCL
    • 25-hydroxycholecalciferol-24-hydroxylase activity Source: RGD
    • heme binding Source: InterPro
    • iron ion binding Source: InterPro

    GO - Biological processi

    • osteoblast differentiation Source: Ensembl
    • response to vitamin D Source: Ensembl
    • vitamin D catabolic process Source: RGD
    • vitamin D metabolic process Source: RGD
    Complete GO annotation...

    Keywords - Molecular functioni

    Monooxygenase, Oxidoreductase

    Keywords - Ligandi

    Heme, Iron, Metal-binding, NADP

    Enzyme and pathway databases

    BioCyciMetaCyc:MONOMER-14357.
    ReactomeiREACT_280298. Vitamin D (calciferol) metabolism.
    REACT_281616. Vitamins.
    SABIO-RKQ09128.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    1,25-dihydroxyvitamin D(3) 24-hydroxylase, mitochondrial (EC:1.14.13.126)
    Short name:
    24-OHase
    Short name:
    Vitamin D(3) 24-hydroxylase
    Alternative name(s):
    Cytochrome P450 24A1
    Cytochrome P450-CC24
    Gene namesi
    Name:Cyp24a1
    Synonyms:Cyp24
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494 Componenti: Chromosome 3

    Organism-specific databases

    RGDi2462. Cyp24a1.

    Subcellular locationi

    GO - Cellular componenti

    • mitochondrion Source: RGD
    Complete GO annotation...

    Keywords - Cellular componenti

    Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 3535Mitochondrion2 PublicationsAdd
    BLAST
    Chaini36 – 5144791,25-dihydroxyvitamin D(3) 24-hydroxylase, mitochondrialPRO_0000003617Add
    BLAST

    Proteomic databases

    PRIDEiQ09128.

    Interactioni

    Protein-protein interaction databases

    STRINGi10116.ENSRNOP00000043298.

    Structurei

    Secondary structure

    1
    514
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi55 – 573Combined sources
    Turni65 – 673Combined sources
    Helixi70 – 756Combined sources
    Helixi79 – 813Combined sources
    Helixi82 – 9312Combined sources
    Beta strandi95 – 1017Combined sources
    Beta strandi104 – 1096Combined sources
    Helixi112 – 1209Combined sources
    Helixi132 – 14110Combined sources
    Turni147 – 1493Combined sources
    Helixi152 – 16615Combined sources
    Helixi169 – 1724Combined sources
    Helixi173 – 1753Combined sources
    Helixi176 – 19318Combined sources
    Beta strandi196 – 1983Combined sources
    Helixi203 – 22018Combined sources
    Beta strandi226 – 2283Combined sources
    Helixi236 – 24611Combined sources
    Helixi249 – 2524Combined sources
    Beta strandi253 – 2553Combined sources
    Helixi257 – 2637Combined sources
    Helixi266 – 29227Combined sources
    Turni293 – 2953Combined sources
    Helixi301 – 3088Combined sources
    Helixi313 – 34331Combined sources
    Helixi346 – 35914Combined sources
    Helixi368 – 3736Combined sources
    Helixi375 – 38713Combined sources
    Beta strandi393 – 3975Combined sources
    Beta strandi402 – 4043Combined sources
    Beta strandi407 – 4093Combined sources
    Beta strandi414 – 4185Combined sources
    Helixi421 – 4244Combined sources
    Turni426 – 4283Combined sources
    Beta strandi432 – 4343Combined sources
    Helixi437 – 4404Combined sources
    Helixi449 – 4513Combined sources
    Helixi465 – 48218Combined sources
    Beta strandi483 – 4886Combined sources
    Beta strandi495 – 50612Combined sources
    Beta strandi509 – 5135Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3K9VX-ray2.50A/B34-514[»]
    3K9YX-ray2.80A/B34-514[»]
    ProteinModelPortaliQ09128.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ09128.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the cytochrome P450 family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG2124.
    GeneTreeiENSGT00760000119243.
    HOGENOMiHOG000276540.
    HOVERGENiHBG099053.
    InParanoidiQ09128.
    KOiK07436.
    OMAiVASPHIA.
    OrthoDBiEOG7ZGX4B.
    PhylomeDBiQ09128.
    TreeFamiTF105094.

    Family and domain databases

    Gene3Di1.10.630.10. 1 hit.
    InterProiIPR001128. Cyt_P450.
    IPR017972. Cyt_P450_CS.
    IPR002949. Cyt_P450_E_CYP24A_mit.
    [Graphical view]
    PfamiPF00067. p450. 1 hit.
    [Graphical view]
    PRINTSiPR01238. MITP450CC24.
    PR00385. P450.
    SUPFAMiSSF48264. SSF48264. 1 hit.
    PROSITEiPS00086. CYTOCHROME_P450. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    Q09128-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MSCPIDKRRT LIAFLRRLRD LGQPPRSVTS KASASRAPKE VPLCPLMTDG
    60 70 80 90 100
    ETRNVTSLPG PTNWPLLGSL LEIFWKGGLK KQHDTLAEYH KKYGQIFRMK
    110 120 130 140 150
    LGSFDSVHLG SPSLLEALYR TESAHPQRLE IKPWKAYRDH RNEAYGLMIL
    160 170 180 190 200
    EGQEWQRVRS AFQKKLMKPV EIMKLDKKIN EVLADFLERM DELCDERGRI
    210 220 230 240 250
    PDLYSELNKW SFESICLVLY EKRFGLLQKE TEEEALTFIT AIKTMMSTFG
    260 270 280 290 300
    KMMVTPVELH KRLNTKVWQA HTLAWDTIFK SVKPCIDNRL QRYSQQPGAD
    310 320 330 340 350
    FLCDIYQQDH LSKKELYAAV TELQLAAVET TANSLMWILY NLSRNPQAQR
    360 370 380 390 400
    RLLQEVQSVL PDNQTPRAED LRNMPYLKAC LKESMRLTPS VPFTTRTLDK
    410 420 430 440 450
    PTVLGEYALP KGTVLTLNTQ VLGSSEDNFE DSHKFRPERW LQKEKKINPF
    460 470 480 490 500
    AHLPFGIGKR MCIGRRLAEL QLHLALCWII QKYDIVATDN EPVEMLHLGI
    510
    LVPSRELPIA FRPR
    Length:514
    Mass (Da):59,448
    Last modified:October 1, 1996 - v1
    Checksum:i2E5CC1CCBA3C2B91
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X59506 mRNA. Translation: CAA42093.1.
    L04618
    , L04608, L04609, L04610, L04611, L04612, L04613, L04614, L04615, L04616, L04617 Genomic DNA. Translation: AAA42340.1.
    BC100059 mRNA. Translation: AAI00060.1.
    Z28351 Genomic DNA. Translation: CAA82206.1.
    PIRiA45228.
    RefSeqiNP_963966.1. NM_201635.2.
    XP_006235734.1. XM_006235672.2.
    UniGeneiRn.100353.

    Genome annotation databases

    EnsembliENSRNOT00000046011; ENSRNOP00000043298; ENSRNOG00000013062.
    GeneIDi25279.
    KEGGirno:25279.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X59506 mRNA. Translation: CAA42093.1.
    L04618
    , L04608, L04609, L04610, L04611, L04612, L04613, L04614, L04615, L04616, L04617 Genomic DNA. Translation: AAA42340.1.
    BC100059 mRNA. Translation: AAI00060.1.
    Z28351 Genomic DNA. Translation: CAA82206.1.
    PIRiA45228.
    RefSeqiNP_963966.1. NM_201635.2.
    XP_006235734.1. XM_006235672.2.
    UniGeneiRn.100353.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    3K9VX-ray2.50A/B34-514[»]
    3K9YX-ray2.80A/B34-514[»]
    ProteinModelPortaliQ09128.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi10116.ENSRNOP00000043298.

    Chemistry

    BindingDBiQ09128.
    ChEMBLiCHEMBL3748.

    Proteomic databases

    PRIDEiQ09128.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsembliENSRNOT00000046011; ENSRNOP00000043298; ENSRNOG00000013062.
    GeneIDi25279.
    KEGGirno:25279.

    Organism-specific databases

    CTDi1591.
    RGDi2462. Cyp24a1.

    Phylogenomic databases

    eggNOGiCOG2124.
    GeneTreeiENSGT00760000119243.
    HOGENOMiHOG000276540.
    HOVERGENiHBG099053.
    InParanoidiQ09128.
    KOiK07436.
    OMAiVASPHIA.
    OrthoDBiEOG7ZGX4B.
    PhylomeDBiQ09128.
    TreeFamiTF105094.

    Enzyme and pathway databases

    BioCyciMetaCyc:MONOMER-14357.
    ReactomeiREACT_280298. Vitamin D (calciferol) metabolism.
    REACT_281616. Vitamins.
    SABIO-RKQ09128.

    Miscellaneous databases

    EvolutionaryTraceiQ09128.
    NextBioi605991.
    PROiQ09128.

    Family and domain databases

    Gene3Di1.10.630.10. 1 hit.
    InterProiIPR001128. Cyt_P450.
    IPR017972. Cyt_P450_CS.
    IPR002949. Cyt_P450_E_CYP24A_mit.
    [Graphical view]
    PfamiPF00067. p450. 1 hit.
    [Graphical view]
    PRINTSiPR01238. MITP450CC24.
    PR00385. P450.
    SUPFAMiSSF48264. SSF48264. 1 hit.
    PROSITEiPS00086. CYTOCHROME_P450. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Publicationsi

    « Hide 'large scale' publications
    1. "Cloning and expression of cDNA encoding 25-hydroxyvitamin D3 24-hydroxylase."
      Ohyama Y., Noshiro M., Okuda K.
      FEBS Lett. 278:195-198(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 36-43.
      Tissue: Kidney.
    2. "Structural characterization of the gene encoding rat 25-hydroxyvitamin D3 24-hydroxylase."
      Ohyama Y., Noshiro M., Eggertsen G., Gotoh O., Kato Y., Bjoerkhem I., Okuda K.
      Biochemistry 32:76-82(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Kidney.
    4. "Identification of a vitamin D responsive element in the promoter of the rat cytochrome P450(24) gene."
      Hahn C.N., Kerry D.M., Omdahl J.L., May B.K.
      Nucleic Acids Res. 22:2410-2416(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-86.
    5. "Isolation and characterization of a cytochrome P-450 from rat kidney mitochondria that catalyzes the 24-hydroxylation of 25-hydroxyvitamin D3."
      Ohyama Y., Okuda K.
      J. Biol. Chem. 266:8690-8695(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 36-43, CATALYTIC ACTIVITY, SUBSTRATE SPECIFICITY, BIOPHYSICOCHEMICAL PROPERTIES.
    6. "Metabolism of vitamin D3 by cytochromes P450."
      Sakaki T., Kagawa N., Yamamoto K., Inouye K.
      Front. Biosci. 10:119-134(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBSTRATE SPECIFICITY.
    7. "Crystal structure of CYP24A1, a mitochondrial cytochrome P450 involved in vitamin D metabolism."
      Annalora A.J., Goodin D.B., Hong W.X., Zhang Q., Johnson E.F., Stout C.D.
      J. Mol. Biol. 396:441-451(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) OF 34-514 IN COMPLEX WITH HEME, COFACTOR.

    Entry informationi

    Entry nameiCP24A_RAT
    AccessioniPrimary (citable) accession number: Q09128
    Secondary accession number(s): Q498V4, Q63685
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1996
    Last sequence update: October 1, 1996
    Last modified: June 24, 2015
    This is version 107 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3

    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 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.