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    PCCA propionyl CoA carboxylase, alpha polypeptide [ Homo sapiens (human) ]

    Gene ID: 5095, updated on 22-May-2013
    Official Symbol
    PCCAprovided by HGNC
    Official Full Name
    propionyl CoA carboxylase, alpha polypeptideprovided by HGNC
    Primary source
    HGNC:8653
    Locus tag
    RP11-151A6.1
    See related
    Ensembl:ENSG00000175198; HPRD:01981; MIM:232000; Vega:OTTHUMG00000017284
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    The protein encoded by this gene is the alpha subunit of the heterodimeric mitochondrial enzyme Propionyl-CoA carboxylase. PCCA encodes the biotin-binding region of this enzyme. Mutations in either PCCA or PCCB (encoding the beta subunit) lead to an enzyme deficiency resulting in propionic acidemia. Multiple transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, May 2010]
    Location :
    13q32
    Sequence :
    Chromosome: 13; NC_000013.10 (100741269..101182691)
    See PCCA in Epigenomics, MapViewer

    Chromosome 13 - NC_000013.10Genomic Context describing neighboring genes Neighboring gene NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12 pseudogene 1 Neighboring gene asparagine synthetase pseudogene 3 Neighboring gene ribosomal protein L15 pseudogene 18 Neighboring gene PCCA antisense RNA 1 Neighboring gene ribosomal protein L7-like 1 pseudogene 6 Neighboring gene uncharacterized LOC100507654 Neighboring gene ribosomal protein S26 pseudogene 47 Neighboring gene gamma-glutamylamine cyclotransferase Neighboring gene uncharacterized LOC100996276 Neighboring gene transmembrane and tetratricopeptide repeat containing 4

    Related articles in PubMed

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Propionic acidemia

    Summary from GeneReviews: Propionic Acidemia Go to GeneReviews

    Disease Characteristics
    The spectrum of propionic acidemia (PA) ranges from neonatal-onset to late-onset disease. Neonatal-onset PA, the most common form, is characterized by poor feeding, vomiting, and somnolence in the first days of life in a previously healthy infant, followed by lethargy, seizures, coma, and death. It is frequently accompanied by metabolic acidosis with anion gap, ketonuria, hypoglycemia, hyperammonemia, and cytopenias. Late-onset PA includes developmental regression, chronic vomiting, protein intolerance, failure to thrive, hypotonia, and occasionally basal ganglia infarction (resulting in dystonia and choreoathetosis) and cardiomyopathy. Affected children can have an acute decompensation that resembles the neonatal presentation and is precipitated by a catabolic stress such as infection, injury, or surgery. Isolated cardiomyopathy and arrhythmia can be observed on rare occasion in the absence of clinical metabolic decompensation or neurocognitive deficits. Manifestations of neonatal and late-onset PA over time can include growth impairment, intellectual disability, seizures, basal ganglia lesions, pancreatitis, and cardiomyopathy. Other rarely reported complications include optic atrophy, hearing loss, premature ovarian insufficiency (POI), and chronic renal failure.
    Diagnosis Testing
    PA is caused by deficiency of propionyl-CoA carboxylase (PCC), the enzyme that catalyzes the conversion of propionyl-CoA to methylmalonyl-CoA. Newborns with PA tested by expanded newborn screening have elevated C3 (propionylcarnitine). Testing of urine organic acids in persons who are symptomatic or those detected by newborn screening reveals elevated 3-hydroxypropionate and the presence of methylcitrate, tiglylglycine, and propionylglycine, which are normally not observed in the urine. Testing of plasma amino acids reveals elevated glycine. Confirmation of the diagnosis relies on detection of either deficient PCC enzymatic activity or biallelic mutations in PCCA or PCCB.
    Genetic Counseling
    Propionic acidemia is inherited in an autosomal recessive manner. At conception, each sib of an affected individual has a 25% chance of being affected, a 50% chance of being an asymptomatic carrier, and a 25% chance of being unaffected and not a carrier. Carrier testing for at-risk relatives and prenatal diagnosis for pregnancies at increased risk are possible if the disease-causing mutations in the family are known.
    References

    Summary from GeneReviews: Organic Acidemias Overview Go to GeneReviews

    Disease Characteristics
    The term "organic acidemia" or "organic aciduria" (OA) applies to a group of disorders characterized by the excretion of non-amino organic acids in urine. Most organic acidemias result from dysfunction of a specific step in amino acid catabolism, usually the result of deficient enzyme activity. The majority of the classic organic acid disorders are caused by abnormal amino acid catabolism of branched-chain amino acids or lysine. They include maple syrup urine disease (MSUD), propionic acidemia, methylmalonic acidemia (MMA), methylmalonic aciduria and homocystinuria, isovaleric acidemia, biotin-unresponsive 3-methylcrotonyl-CoA carboxylase deficiency, 3-hydroxy-3-methylglutaryl-CoA (HMG-CoA) lyase deficiency, ketothiolase deficiency, and glutaricacidemia type I (GA I). A neonate affected with an OA is usually well at birth and for the first few days of life. The usual clinical presentation is that of toxic encephalopathy and includes vomiting, poor feeding, neurologic symptoms such as seizures and abnormal tone, and lethargy progressing to coma. Outcome is enhanced by diagnosis and treatment in the first ten days of life. In the older child or adolescent, variant forms of the OAs can present as loss of intellectual function, ataxia or other focal neurologic signs, Reye syndrome, recurrent ketoacidosis, or psychiatric symptoms.
    Diagnosis Testing
    Clinical laboratory findings that suggest an organic acidemia include acidosis, ketosis, hyperammonemia, abnormal liver function tests, hypoglycemia, and neutropenia. First-line diagnosis in the organic acidemias is urine organic acid analysis using gas chromatography with mass spectrometry (GC/MS), utilizing a capillary column. The urinary organic acid profile is nearly always abnormal in the face of acute illness with decompensation; however, in some disorders diagnostic analytes may be present only in small or barely detectable amounts when the affected individual is not acutely ill. Depending on the specific disorder, plasma amino acid analysis using a quantitative method such as column chromatography, high-performance liquid chromatography (HPLC), or GC/MS can also be helpful. A plasma or serum acylcarnitine profile can also provide a rapid clue to the diagnosis. Urine acylcarnitine profiling is more complex and interpretation can be difficult. Confirmatory testing involves assay of the activity of the deficient enzyme in lymphocytes or cultured fibroblasts and/or molecular genetic testing.
    Genetic Counseling
    The organic acidemias considered in this overview are inherited in an autosomal recessive manner. At conception, each sib of a proband has a 25% chance of being affected, a 50% chance of being an asymptomatic carrier, and a 25% chance of being unaffected and not a carrier. Carrier testing for at-risk family members is possible if the disease-causing mutations in the family are known. Prenatal diagnosis for pregnancies at increased risk varies by disorder and may include measurement of analytes in amniotic fluid, measurement of enzyme activity, or molecular genetic testing in cells obtained by CVS or amniocentesis.
    References
    Products Interactant Other Gene Complex Source Pubs Description
    P05165 P05166 PCCB    HPRD  PubMed  
    BioGRID:111128 BioGRID:971788 EBNA-LP    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:111128 BioGRID:109659 IFIT1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:111128 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:111128 BioGRID:113182 UBE2N    BioGRID  PubMed Affinity Capture-MS 

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    biotin binding TAS
    Traceable Author Statement
    more info
    PubMed 
    biotin carboxylase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    propionyl-CoA carboxylase activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    cellular lipid metabolic process TAS
    Traceable Author Statement
    more info
     
    fatty acid beta-oxidation TAS
    Traceable Author Statement
    more info
     
    short-chain fatty acid catabolic process TAS
    Traceable Author Statement
    more info
     
    small molecule metabolic process TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    mitochondrial matrix TAS
    Traceable Author Statement
    more info
     
    Preferred Names
    propionyl-CoA carboxylase alpha chain, mitochondrial
    Names
    propionyl-CoA carboxylase alpha chain, mitochondrial
    PCCase alpha subunit
    pccA complementation group
    propanoyl-CoA:carbon dioxide ligase alpha subunit
    propionyl Coenzyme A carboxylase, alpha polypeptide
    NP_000273.2
    NP_001121164.1
    NP_001171475.1

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_008768.1 RefSeqGene

      Range
      4933..446355
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_000282.3NP_000273.2  propionyl-CoA carboxylase alpha chain, mitochondrial isoform a precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AF385926, AL355338, BC000140, CB851764
      Consensus CDS
      CCDS9496.2
      UniProtKB/Swiss-Prot
      P05165
      Related
      ENSP00000365462, OTTHUMP00000018635, ENST00000376285, OTTHUMT00000045627
      Conserved Domains (5) summary
      COG4770
      Location:63728
      Blast Score: 2032
      COG4770; Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
      cd06850
      Location:661727
      Blast Score: 265
      biotinyl_domain; The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, ...
      smart00878
      Location:397504
      Blast Score: 420
      Biotin_carb_C; Biotin carboxylase C-terminal domain
      pfam00289
      Location:63170
      Blast Score: 457
      CPSase_L_chain; Carbamoyl-phosphate synthase L chain, N-terminal domain
      cl03087
      Location:176354
      Blast Score: 155
      ATP-grasp_4; ATP-grasp domain
    2. NM_001127692.2NP_001121164.1  propionyl-CoA carboxylase alpha chain, mitochondrial isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to NM_000282.3.
      Source sequence(s)
      AF385926, AL355338, BC000140, CB851764, DA781564
      Consensus CDS
      CCDS45065.1
      UniProtKB/Swiss-Prot
      P05165
      Related
      ENSP00000365463, ENST00000376286
      Conserved Domains (5) summary
      COG4770
      Location:37702
      Blast Score: 2021
      COG4770; Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
      cd06850
      Location:635701
      Blast Score: 263
      biotinyl_domain; The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, ...
      smart00878
      Location:371478
      Blast Score: 420
      Biotin_carb_C; Biotin carboxylase C-terminal domain
      pfam00289
      Location:37144
      Blast Score: 456
      CPSase_L_chain; Carbamoyl-phosphate synthase L chain, N-terminal domain
      cl03087
      Location:150328
      Blast Score: 155
      ATP-grasp_4; ATP-grasp domain
    3. NM_001178004.1NP_001171475.1  propionyl-CoA carboxylase alpha chain, mitochondrial isoform c precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the 3' coding region compared to variant 1. The resulting protein (isoform c) is shorter compared to isoform a.
      Source sequence(s)
      AK298318, AL355338, AL356575, CB851764
      Consensus CDS
      CCDS53878.1
      UniProtKB/Swiss-Prot
      P05165
      Related
      ENSP00000365456, ENST00000376279
      Conserved Domains (5) summary
      COG4770
      Location:63681
      Blast Score: 1918
      COG4770; Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
      cd06850
      Location:631680
      Blast Score: 189
      biotinyl_domain; The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, ...
      smart00878
      Location:397504
      Blast Score: 420
      Biotin_carb_C; Biotin carboxylase C-terminal domain
      pfam00289
      Location:63170
      Blast Score: 457
      CPSase_L_chain; Carbamoyl-phosphate synthase L chain, N-terminal domain
      cl03087
      Location:176354
      Blast Score: 155
      ATP-grasp_4; ATP-grasp domain

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 104

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh37.p10 Primary Assembly

    Genomic

    1. NC_000013.10 Reference GRCh37.p10 Primary Assembly

      Range
      100741269..101182691
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000145.1 Alternate HuRef

      Range
      81336606..81778760
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.0

    Genomic

    1. NC_018924.1 Alternate CHM1_1.0

      Range
      81667519..82108717
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

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