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    DPEP3 dipeptidase 3 [ Homo sapiens (human) ]

    Gene ID: 64180, updated on 28-Oct-2024

    Summary

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    Official Symbol
    DPEP3provided by HGNC
    Official Full Name
    dipeptidase 3provided by HGNC
    Primary source
    HGNC:HGNC:23029
    See related
    Ensembl:ENSG00000141096 MIM:609926; AllianceGenome:HGNC:23029
    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
    Also known as
    MBD3
    Summary
    This gene encodes a membrane-bound glycoprotein from the family of dipeptidases involved in hydrolytic metabolism of various dipeptides, including penem and carbapenem beta-lactam antibiotics. This gene is located on chromosome 16 in a cluster with another member of this family. Alternatively spliced transcript variants that encode different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Restricted expression toward testis (RPKM 28.2) See more
    Orthologs
    mouse all
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    Genomic context

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    See DPEP3 in Genome Data Viewer
    Location:
    16q22.1
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (67975663..67980499, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (73771436..73776272, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (68009566..68014402, complement)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10993 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10994 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10995 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10996 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67973687-67974296 Neighboring gene proteasome 20S subunit beta 10 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10998 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:67976255-67977154 Neighboring gene lecithin-cholesterol acyltransferase Neighboring gene solute carrier family 12 member 4 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:67992978-67994177 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:67998939-67999110 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:68000156-68000674 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7634 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7635 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:68013726-68014226 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7636 Neighboring gene Sharpr-MPRA regulatory region 6452 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10999 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11000 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11001 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7637 Neighboring gene dipeptidase 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:68031810-68032326 Neighboring gene lysyl-tRNA synthetase 1 pseudogene 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Structure of human DPEP3 in complex with the SC-003 antibody Fab fragment reveals basis for lack of dipeptidase activity. Hayashi K, et al. J Struct Biol, 2020 Jul 1. PMID 32325220
    2. Identification of two additional members of the membrane-bound dipeptidase family. Habib GM, et al. FASEB J, 2003 Jul. PMID 12738806
    3. Genome-wide association analysis of metabolic traits in a birth cohort from a founder population. Sabatti C, et al. Nat Genet, 2009 Jan. PMID 19060910, Free PMC Article
    4. HIV gp120 induced gene expression signatures in vaginal epithelial cells. Fanibunda SE, et al. Microbes Infect, 2013 Nov. PMID 23867815
    5. The Brd4 extraterminal domain confers transcription activation independent of pTEFb by recruiting multiple proteins, including NSD3. Rahman S, et al. Mol Cell Biol, 2011 Jul. PMID 21555454, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Biological insights from 108 schizophrenia-associated genetic loci.
    EBI GWAS Catalog
    Genome-wide association analysis of metabolic traits in a birth cohort from a founder population.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env HIV-1 gp120-treated vaginal epithelial cells show downregulation of dipeptidase 3 (DPEP3) expression as compared to untreated control PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    NOT enables dipeptidase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables dipeptidase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in acrosomal vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    dipeptidase 3
    Names
    membrane-bound dipeptidase 3
    metallopeptidase (family M19)
    testis secretory sperm-binding protein Li 211a
    NP_001123230.2
    NP_001357127.1

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_001129758.2 → NP_001123230.2  dipeptidase 3 isoform b precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the mid-coding region, compared to variant 1, resulting in an isoform (b) that is 1 aa shorter, compared to isoform a.
      Source sequence(s)
      HM005556
      UniProtKB/TrEMBL
      A0A140VK16
      Conserved Domains (1) summary
      pfam01244
      Location:86 → 406
      Peptidase_M19; Membrane dipeptidase (Peptidase family M19)

    2. NM_001370198.1 → NP_001357127.1  dipeptidase 3 isoform c precursor

      Status: REVIEWED

      Source sequence(s)
      AK057401, AY358390
      Consensus CDS
      CCDS10856.2
      UniProtKB/Swiss-Prot
      B3KQ48, Q6PEZ5, Q6UXE4, Q9H4B8
      UniProtKB/TrEMBL
      A0A5F9ZHB4
      Related
      ENSP00000268793.5, ENST00000268793.6
      Conserved Domains (1) summary
      pfam01244
      Location:87 → 407
      Peptidase_M19; Membrane dipeptidase (Peptidase family M19)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      67975663..67980499 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      73771436..73776272 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_022357.4: Suppressed sequence

      Description
      NM_022357.4: This RefSeq was removed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9H4B8.2 GenPept UniProtKB/Swiss-Prot:Q9H4B8

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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