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Protein

Ornithine decarboxylase

Gene

ODC1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the first and rate-limiting step of polyamine biosynthesis that converts ornithine into putrescine, which is the precursor for the polyamines, spermidine and spermine. Polyamines are essential for cell proliferation and are implicated in cellular processes, ranging from DNA replication to apoptosis.1 Publication

Catalytic activityi

L-ornithine = putrescine + CO2.1 Publication

Cofactori

pyridoxal 5'-phosphate2 Publications

Activity regulationi

Inhibited by S-nitrosylation (PubMed:10462479, PubMed:11461922). Inhibited by antizymes (AZs) OAZ1, OAZ2 and OAZ3 in response to polyamine levels. AZs inhibit the assembly of the functional homodimer by binding to ODC monomers. Additionally, OAZ1 targets ODC monomers for ubiquitin-independent proteolytic destruction by the 26S proteasome (PubMed:17900240). Inhibited by 1-amino-oxy-3-aminopropane (APA, an isosteric analog of putrescine) (PubMed:17407445). Irreversibly inhibited by alpha-difluoromethylornithine (DFMO) (PubMed:17407445).4 Publications

Kineticsi

kcat is 3.3 sec(-1) with L-ornithine as substrate.1 Publication
  1. KM=0.08 mM for L-ornithine1 Publication

    Pathwayi: putrescine biosynthesis via L-ornithine pathway

    This protein is involved in step 1 of the subpathway that synthesizes putrescine from L-ornithine.
    Proteins known to be involved in this subpathway in this organism are:
    1. Ornithine decarboxylase (ODC1)
    This subpathway is part of the pathway putrescine biosynthesis via L-ornithine pathway, which is itself part of Amine and polyamine biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes putrescine from L-ornithine, the pathway putrescine biosynthesis via L-ornithine pathway and in Amine and polyamine biosynthesis.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sitei197Stacks against the aromatic ring of pyridoxal phosphate and stabilizes reaction intermediatesBy similarity1
    Binding sitei200Pyridoxal phosphateCombined sources1 Publication1
    Binding sitei237Pyridoxal phosphate; via amino nitrogenCombined sources1 Publication1
    Active sitei360Proton donor; shared with dimeric partner1 Publication1
    Binding sitei361Substrate; shared with dimeric partnerBy similarity1
    Binding sitei389Pyridoxal phosphateCombined sources3 Publications1

    GO - Molecular functioni

    • ornithine decarboxylase activity Source: UniProtKB
    • protein homodimerization activity Source: UniProtKB

    GO - Biological processi

    Keywordsi

    Molecular functionDecarboxylase, Lyase
    Biological processPolyamine biosynthesis
    LigandPyridoxal phosphate

    Enzyme and pathway databases

    BioCyciMetaCyc:HS03935-MONOMER
    BRENDAi4.1.1.17 2681
    ReactomeiR-HSA-350562 Regulation of ornithine decarboxylase (ODC)
    R-HSA-351202 Metabolism of polyamines
    SABIO-RKiP11926
    SIGNORiP11926
    UniPathwayi
    UPA00535;UER00288

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ornithine decarboxylase (EC:4.1.1.171 Publication)
    Short name:
    ODC
    Gene namesi
    Name:ODC1
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    Proteomesi
    • UP000005640 Componenti: Chromosome 2

    Organism-specific databases

    EuPathDBiHostDB:ENSG00000115758.12
    HGNCiHGNC:8109 ODC1
    MIMi165640 gene
    neXtProtiNX_P11926

    Subcellular locationi

    Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi360C → A: 25% decrease of in vitro nitrosylation level. 1 Publication1

    Organism-specific databases

    DisGeNETi4953
    MalaCardsiODC1
    OpenTargetsiENSG00000115758
    PharmGKBiPA31897

    Chemistry databases

    ChEMBLiCHEMBL1869
    DrugBankiDB03856 Alpha-Difluoromethylornithine
    DB06243 Eflornithine
    DB04263 Geneticin
    DB04083 N'-Pyridoxyl-Lysine-5'-Monophosphate
    DB02824 N-Pyridoxyl-Glycine-5-Monophosphate
    DB01917 Putrescine
    DB00114 Pyridoxal Phosphate
    DB02209 Pyridoxine-5'-Phosphate
    DB00127 Spermine
    GuidetoPHARMACOLOGYi1276

    Polymorphism and mutation databases

    BioMutaiODC1
    DMDMi118377

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001498911 – 461Ornithine decarboxylaseAdd BLAST461

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Modified residuei69N6-(pyridoxal phosphate)lysine1 Publication1 Publication1
    Modified residuei303Phosphoserine; by CK2By similarity1
    Modified residuei360S-nitrosocysteine; in inhibited form1 Publication1

    Post-translational modificationi

    S-Nitrosylation inhibits the enzyme. S-Nitrosylated in vitro on 4 cysteine residues.2 Publications

    Keywords - PTMi

    Phosphoprotein, S-nitrosylation

    Proteomic databases

    EPDiP11926
    PaxDbiP11926
    PeptideAtlasiP11926
    PRIDEiP11926
    ProteomicsDBi52813

    PTM databases

    iPTMnetiP11926
    PhosphoSitePlusiP11926

    Expressioni

    Inductioni

    Down-regulated in response to enterovirus 71 (EV71) infection (at protein level).1 Publication

    Gene expression databases

    BgeeiENSG00000115758 Expressed in 228 organ(s), highest expression level in secondary oocyte
    CleanExiHS_ODC1
    ExpressionAtlasiP11926 baseline and differential
    GenevisibleiP11926 HS

    Organism-specific databases

    HPAiCAB035996
    HPA001536

    Interactioni

    Subunit structurei

    Homodimer. Only the dimer is catalytically active, as the active sites are constructed of residues from both monomers (Probable). Does not form a heterodimer with AZIN2 (By similarity).By similarity1 Publication

    Binary interactionsi

    GO - Molecular functioni

    Protein-protein interaction databases

    BioGridi111007, 10 interactors
    CORUMiP11926
    IntActiP11926, 16 interactors
    MINTiP11926
    STRINGi9606.ENSP00000234111

    Chemistry databases

    BindingDBiP11926

    Structurei

    Secondary structure

    1461
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details

    3D structure databases

    ProteinModelPortaliP11926
    SMRiP11926
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP11926

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni274 – 277Pyridoxal phosphate bindingCombined sources3 Publications4
    Regioni331 – 332Substrate bindingBy similarity2

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiKOG0622 Eukaryota
    COG0019 LUCA
    GeneTreeiENSGT00390000011560
    HOGENOMiHOG000274133
    HOVERGENiHBG005456
    InParanoidiP11926
    KOiK01581
    OMAiVVGYICE
    OrthoDBiEOG091G0AJV
    PhylomeDBiP11926
    TreeFamiTF300760

    Family and domain databases

    Gene3Di2.40.37.10, 1 hit
    3.20.20.10, 1 hit
    InterProiView protein in InterPro
    IPR009006 Ala_racemase/Decarboxylase_C
    IPR022643 De-COase2_C
    IPR022657 De-COase2_CS
    IPR022644 De-COase2_N
    IPR022653 De-COase2_pyr-phos_BS
    IPR000183 Orn/DAP/Arg_de-COase
    IPR002433 Orn_de-COase
    IPR029066 PLP-binding_barrel
    PANTHERiPTHR11482 PTHR11482, 1 hit
    PfamiView protein in Pfam
    PF02784 Orn_Arg_deC_N, 1 hit
    PF00278 Orn_DAP_Arg_deC, 1 hit
    PRINTSiPR01179 ODADCRBXLASE
    PR01182 ORNDCRBXLASE
    SUPFAMiSSF50621 SSF50621, 1 hit
    SSF51419 SSF51419, 1 hit
    PROSITEiView protein in PROSITE
    PS00878 ODR_DC_2_1, 1 hit
    PS00879 ODR_DC_2_2, 1 hit

    Sequence (1+)i

    Sequence statusi: Complete.

    This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

    P11926-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MNNFGNEEFD CHFLDEGFTA KDILDQKINE VSSSDDKDAF YVADLGDILK
    60 70 80 90 100
    KHLRWLKALP RVTPFYAVKC NDSKAIVKTL AATGTGFDCA SKTEIQLVQS
    110 120 130 140 150
    LGVPPERIIY ANPCKQVSQI KYAANNGVQM MTFDSEVELM KVARAHPKAK
    160 170 180 190 200
    LVLRIATDDS KAVCRLSVKF GATLRTSRLL LERAKELNID VVGVSFHVGS
    210 220 230 240 250
    GCTDPETFVQ AISDARCVFD MGAEVGFSMY LLDIGGGFPG SEDVKLKFEE
    260 270 280 290 300
    ITGVINPALD KYFPSDSGVR IIAEPGRYYV ASAFTLAVNI IAKKIVLKEQ
    310 320 330 340 350
    TGSDDEDESS EQTFMYYVND GVYGSFNCIL YDHAHVKPLL QKRPKPDEKY
    360 370 380 390 400
    YSSSIWGPTC DGLDRIVERC DLPEMHVGDW MLFENMGAYT VAAASTFNGF
    410 420 430 440 450
    QRPTIYYVMS GPAWQLMQQF QNPDFPPEVE EQDASTLPVS CAWESGMKRH
    460
    RAACASASIN V
    Length:461
    Mass (Da):51,148
    Last modified:April 1, 1990 - v2
    Checksum:i8CCB88CE80E823C5
    GO

    Computationally mapped potential isoform sequencesi

    There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
    EntryEntry nameProtein names
    Gene namesLengthAnnotation
    C9JG30C9JG30_HUMAN
    Ornithine decarboxylase
    ODC1
    68Annotation score:

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    M16650 mRNA Translation: AAA59966.2
    M31061 Genomic DNA Translation: AAA60563.1
    X16277 Genomic DNA Translation: CAA34353.1
    M33764 Genomic DNA Translation: AAA60564.1
    M34158 Genomic DNA Translation: AAA59969.1
    M81740 Genomic DNA Translation: AAA59967.1
    X55362 mRNA Translation: CAA39047.1
    AK292352 mRNA Translation: BAF85041.1
    AK312766 mRNA Translation: BAG35632.1
    AY841870 Genomic DNA Translation: AAV88093.1
    AC007249 Genomic DNA Translation: AAY15034.1
    CH471053 Genomic DNA Translation: EAX00958.1
    CH471053 Genomic DNA Translation: EAX00959.1
    BC025296 mRNA Translation: AAH25296.1
    X53271 mRNA Translation: CAA37369.1
    M20372 mRNA Translation: AAA59968.1
    CCDSiCCDS1672.1
    PIRiS06900 DCHUO
    RefSeqiNP_001274118.1, NM_001287189.1
    NP_001274119.1, NM_001287190.1
    NP_002530.1, NM_002539.2
    UniGeneiHs.467701

    Genome annotation databases

    EnsembliENST00000234111; ENSP00000234111; ENSG00000115758
    ENST00000405333; ENSP00000385333; ENSG00000115758
    GeneIDi4953
    KEGGihsa:4953
    UCSCiuc002rao.3 human

    Similar proteinsi

    Cross-referencesi

    Web resourcesi

    NIEHS-SNPs
    Wikipedia

    Ornithine decarboxylase entry

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    M16650 mRNA Translation: AAA59966.2
    M31061 Genomic DNA Translation: AAA60563.1
    X16277 Genomic DNA Translation: CAA34353.1
    M33764 Genomic DNA Translation: AAA60564.1
    M34158 Genomic DNA Translation: AAA59969.1
    M81740 Genomic DNA Translation: AAA59967.1
    X55362 mRNA Translation: CAA39047.1
    AK292352 mRNA Translation: BAF85041.1
    AK312766 mRNA Translation: BAG35632.1
    AY841870 Genomic DNA Translation: AAV88093.1
    AC007249 Genomic DNA Translation: AAY15034.1
    CH471053 Genomic DNA Translation: EAX00958.1
    CH471053 Genomic DNA Translation: EAX00959.1
    BC025296 mRNA Translation: AAH25296.1
    X53271 mRNA Translation: CAA37369.1
    M20372 mRNA Translation: AAA59968.1
    CCDSiCCDS1672.1
    PIRiS06900 DCHUO
    RefSeqiNP_001274118.1, NM_001287189.1
    NP_001274119.1, NM_001287190.1
    NP_002530.1, NM_002539.2
    UniGeneiHs.467701

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1D7KX-ray2.10A/B7-427[»]
    2ON3X-ray3.00A/B1-461[»]
    2OO0X-ray1.90A/B1-461[»]
    4ZGYX-ray2.63A2-421[»]
    5BWAX-ray3.20A1-461[»]
    ProteinModelPortaliP11926
    SMRiP11926
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi111007, 10 interactors
    CORUMiP11926
    IntActiP11926, 16 interactors
    MINTiP11926
    STRINGi9606.ENSP00000234111

    Chemistry databases

    BindingDBiP11926
    ChEMBLiCHEMBL1869
    DrugBankiDB03856 Alpha-Difluoromethylornithine
    DB06243 Eflornithine
    DB04263 Geneticin
    DB04083 N'-Pyridoxyl-Lysine-5'-Monophosphate
    DB02824 N-Pyridoxyl-Glycine-5-Monophosphate
    DB01917 Putrescine
    DB00114 Pyridoxal Phosphate
    DB02209 Pyridoxine-5'-Phosphate
    DB00127 Spermine
    GuidetoPHARMACOLOGYi1276

    PTM databases

    iPTMnetiP11926
    PhosphoSitePlusiP11926

    Polymorphism and mutation databases

    BioMutaiODC1
    DMDMi118377

    Proteomic databases

    EPDiP11926
    PaxDbiP11926
    PeptideAtlasiP11926
    PRIDEiP11926
    ProteomicsDBi52813

    Protocols and materials databases

    DNASUi4953
    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsembliENST00000234111; ENSP00000234111; ENSG00000115758
    ENST00000405333; ENSP00000385333; ENSG00000115758
    GeneIDi4953
    KEGGihsa:4953
    UCSCiuc002rao.3 human

    Organism-specific databases

    CTDi4953
    DisGeNETi4953
    EuPathDBiHostDB:ENSG00000115758.12
    GeneCardsiODC1
    HGNCiHGNC:8109 ODC1
    HPAiCAB035996
    HPA001536
    MalaCardsiODC1
    MIMi165640 gene
    neXtProtiNX_P11926
    OpenTargetsiENSG00000115758
    PharmGKBiPA31897
    GenAtlasiSearch...

    Phylogenomic databases

    eggNOGiKOG0622 Eukaryota
    COG0019 LUCA
    GeneTreeiENSGT00390000011560
    HOGENOMiHOG000274133
    HOVERGENiHBG005456
    InParanoidiP11926
    KOiK01581
    OMAiVVGYICE
    OrthoDBiEOG091G0AJV
    PhylomeDBiP11926
    TreeFamiTF300760

    Enzyme and pathway databases

    UniPathwayi
    UPA00535;UER00288

    BioCyciMetaCyc:HS03935-MONOMER
    BRENDAi4.1.1.17 2681
    ReactomeiR-HSA-350562 Regulation of ornithine decarboxylase (ODC)
    R-HSA-351202 Metabolism of polyamines
    SABIO-RKiP11926
    SIGNORiP11926

    Miscellaneous databases

    ChiTaRSiODC1 human
    EvolutionaryTraceiP11926
    GeneWikiiODC1
    GenomeRNAii4953
    PROiPR:P11926
    SOURCEiSearch...

    Gene expression databases

    BgeeiENSG00000115758 Expressed in 228 organ(s), highest expression level in secondary oocyte
    CleanExiHS_ODC1
    ExpressionAtlasiP11926 baseline and differential
    GenevisibleiP11926 HS

    Family and domain databases

    Gene3Di2.40.37.10, 1 hit
    3.20.20.10, 1 hit
    InterProiView protein in InterPro
    IPR009006 Ala_racemase/Decarboxylase_C
    IPR022643 De-COase2_C
    IPR022657 De-COase2_CS
    IPR022644 De-COase2_N
    IPR022653 De-COase2_pyr-phos_BS
    IPR000183 Orn/DAP/Arg_de-COase
    IPR002433 Orn_de-COase
    IPR029066 PLP-binding_barrel
    PANTHERiPTHR11482 PTHR11482, 1 hit
    PfamiView protein in Pfam
    PF02784 Orn_Arg_deC_N, 1 hit
    PF00278 Orn_DAP_Arg_deC, 1 hit
    PRINTSiPR01179 ODADCRBXLASE
    PR01182 ORNDCRBXLASE
    SUPFAMiSSF50621 SSF50621, 1 hit
    SSF51419 SSF51419, 1 hit
    PROSITEiView protein in PROSITE
    PS00878 ODR_DC_2_1, 1 hit
    PS00879 ODR_DC_2_2, 1 hit
    ProtoNetiSearch...

    Entry informationi

    Entry nameiDCOR_HUMAN
    AccessioniPrimary (citable) accession number: P11926
    Secondary accession number(s): Q53TU3, Q6LDS9
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1989
    Last sequence update: April 1, 1990
    Last modified: November 7, 2018
    This is version 201 of the entry and version 2 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Human chromosome 2
      Human chromosome 2: entries, gene names and cross-references to MIM
    3. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    4. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    5. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    UniProt is an ELIXIR core data resource
    Main funding by: National Institutes of Health

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