Human Gene CPA4 (uc011kpe.2)
  Description: Homo sapiens carboxypeptidase A4 (CPA4), transcript variant 1, mRNA.
RefSeq Summary (NM_016352): This gene is a member of the carboxypeptidase A/B subfamily, and it is located in a cluster with three other family members on chromosome 7. Carboxypeptidases are zinc-containing exopeptidases that catalyze the release of carboxy-terminal amino acids, and are synthesized as zymogens that are activated by proteolytic cleavage. This gene could be involved in the histone hyperacetylation pathway. It is imprinted and may be a strong candidate gene for prostate cancer aggressiveness. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr7:129,932,974-129,964,020 Size: 31,047 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr7:129,940,683-129,962,516 Size: 21,834 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:129,932,974-129,964,020)mRNA (may differ from genome)Protein (317 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMalacardsMGIneXtProt
PubMedTreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: CBPA4_HUMAN
DESCRIPTION: RecName: Full=Carboxypeptidase A4; EC=3.4.17.-; AltName: Full=Carboxypeptidase A3; Flags: Precursor;
FUNCTION: Metalloprotease that could be involved in the histone hyperacetylation pathway.
COFACTOR: Binds 1 zinc ion per subunit.
SUBUNIT: Interacts with LXN.
SUBCELLULAR LOCATION: Secreted (By similarity).
TISSUE SPECIFICITY: Fetal expression in the adrenal gland, brain, heart, intestine, kidney, liver and lung. Except for fetal brain that shows no imprinting, expression was found preferentially from the maternal allele.
INDUCTION: Up-regulated by inhibitors of histone dacetylation.
SIMILARITY: Belongs to the peptidase M14 family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CPA4
CDC HuGE Published Literature: CPA4

-  MalaCards Disease Associations
  MalaCards Gene Search: CPA4
Diseases sorted by gene-association score: silver-russell syndrome (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 23.63 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 75.55 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -38.50142-0.271 Picture PostScript Text
3' UTR -486.401504-0.323 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000834 - Peptidase_M14
IPR003146 - Prot_inh_M14A
IPR009020 - Prot_inh_propept

Pfam Domains:
PF00246 - Zinc carboxypeptidase

SCOP Domains:
53187 - Zn-dependent exopeptidases

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2BO9 - X-ray MuPIT 2BOA - X-ray MuPIT 2PCU - X-ray MuPIT 4A94 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9UI42
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004180 carboxypeptidase activity
GO:0004181 metallocarboxypeptidase activity
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0008237 metallopeptidase activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006508 proteolysis
GO:0016573 histone acetylation

Cellular Component:
GO:0005575 cellular_component
GO:0005576 extracellular region
GO:0005615 extracellular space


-  Descriptions from all associated GenBank mRNAs
  AK290993 - Homo sapiens cDNA FLJ75086 complete cds, highly similar to Homo sapiens carboxypeptidase A4, mRNA.
BC052289 - Homo sapiens carboxypeptidase A4, mRNA (cDNA clone MGC:59749 IMAGE:6106874), complete cds.
AK310933 - Homo sapiens cDNA, FLJ17975.
AK298553 - Homo sapiens cDNA FLJ60780 complete cds, highly similar to Carboxypeptidase A4 precursor (EC 3.4.17.-).
AK298550 - Homo sapiens cDNA FLJ52348 complete cds, highly similar to Carboxypeptidase A4 precursor (EC 3.4.17.-).
AK299023 - Homo sapiens cDNA FLJ52025 complete cds, highly similar to Carboxypeptidase A4 precursor (EC 3.4.17.-).
AY358699 - Homo sapiens clone DNA66669 CPA4 (UNQ694) mRNA, complete cds.
AF095719 - Homo sapiens carboxypeptidase A3 mRNA, complete cds.
CU690898 - Synthetic construct Homo sapiens gateway clone IMAGE:100022473 5' read CPA4 mRNA.
AB590729 - Synthetic construct DNA, clone: pFN21AE1892, Homo sapiens CPA4 gene for carboxypeptidase A4, without stop codon, in Flexi system.
HQ448429 - Synthetic construct Homo sapiens clone IMAGE:100071857; CCSB013698_02 carboxypeptidase A4 (CPA4) gene, encodes complete protein.
KJ898856 - Synthetic construct Homo sapiens clone ccsbBroadEn_08250 CPA4 gene, encodes complete protein.
KR711312 - Synthetic construct Homo sapiens clone CCSBHm_00022678 CPA4 (CPA4) mRNA, encodes complete protein.
JD423811 - Sequence 404835 from Patent EP1572962.
JD534665 - Sequence 515689 from Patent EP1572962.
JD198835 - Sequence 179859 from Patent EP1572962.
JD492424 - Sequence 473448 from Patent EP1572962.
JD067476 - Sequence 48500 from Patent EP1572962.
JD076075 - Sequence 57099 from Patent EP1572962.
JD294946 - Sequence 275970 from Patent EP1572962.
JD452528 - Sequence 433552 from Patent EP1572962.
JD101470 - Sequence 82494 from Patent EP1572962.
JD545044 - Sequence 526068 from Patent EP1572962.
JD299463 - Sequence 280487 from Patent EP1572962.
JD290225 - Sequence 271249 from Patent EP1572962.
JD070806 - Sequence 51830 from Patent EP1572962.
JD133471 - Sequence 114495 from Patent EP1572962.
JD073151 - Sequence 54175 from Patent EP1572962.
JD221681 - Sequence 202705 from Patent EP1572962.
JD229035 - Sequence 210059 from Patent EP1572962.
JD171249 - Sequence 152273 from Patent EP1572962.
JD308803 - Sequence 289827 from Patent EP1572962.
JD553480 - Sequence 534504 from Patent EP1572962.
JD515962 - Sequence 496986 from Patent EP1572962.
JD224776 - Sequence 205800 from Patent EP1572962.
JD506404 - Sequence 487428 from Patent EP1572962.
JD154504 - Sequence 135528 from Patent EP1572962.
JD226937 - Sequence 207961 from Patent EP1572962.
JD450067 - Sequence 431091 from Patent EP1572962.
JD117748 - Sequence 98772 from Patent EP1572962.
JD404103 - Sequence 385127 from Patent EP1572962.
JD314543 - Sequence 295567 from Patent EP1572962.
JD306828 - Sequence 287852 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AK299023, B7Z576, CBPA4_HUMAN, CPA3, Q86UY9, Q9UI42, UNQ694/PRO1339
UCSC ID: uc011kpe.2
RefSeq Accession: NM_016352
Protein: Q9UI42 (aka CBPA4_HUMAN or CBP4_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK299023.1
exon count: 9CDS single in 3' UTR: no RNA size: 1512
ORF size: 954CDS single in intron: no Alignment % ID: 99.87
txCdsPredict score: 2006.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.