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DPEP3 dipeptidase 3 [ Homo sapiens (human) ]

Gene ID: 64180, updated on 2-Nov-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
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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 Variation Viewer (GRCh37.p13)

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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