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TPD52L2 TPD52 like 2 [ Homo sapiens (human) ]

Gene ID: 7165, updated on 7-Apr-2024

Summary

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Official Symbol
TPD52L2provided by HGNC
Official Full Name
TPD52 like 2provided by HGNC
Primary source
HGNC:HGNC:12007
See related
Ensembl:ENSG00000101150 MIM:603747; AllianceGenome:HGNC:12007
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
D54; TPD54
Summary
This gene encodes a member of the tumor protein D52-like family. These proteins are characterized by an N-terminal coiled-coil motif that is used to form homo- and heteromeric complexes with other tumor protein D52-like proteins. Expression of this gene may be a marker for breast cancer and acute lymphoblastic leukemia. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene, and a pseudogene of this gene is located on the long arm of chromosome 12. [provided by RefSeq, Aug 2011]
Expression
Ubiquitous expression in esophagus (RPKM 35.6), bone marrow (RPKM 34.4) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
20q13.33
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (63865270..63891538)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (65685113..65711383)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (62496623..62522891)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62475261-62475938 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:62477766-62477915 Neighboring gene chromosome 20 putative open reading frame 181 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18252 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18253 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62484853-62485706 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13188 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13189 Neighboring gene uncharacterized LOC112268269 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18254 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr20:62495674-62496873 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:62497355-62498074 Neighboring gene abhydrolase domain containing 16B Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_61287 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_61295 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_61302 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:62517585-62517755 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62525794-62526321 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13191 Neighboring gene DnaJ heat shock protein family (Hsp40) member C5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62541709-62542208 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:62543630-62544130 Neighboring gene RNA, U1 small nuclear 134, pseudogene Neighboring gene uncharacterized LOC124904951 Neighboring gene microRNA 941-1 Neighboring gene microRNA 941-2

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
  • 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. Investigation of Transcript Variant 6 of TPD52L2 as a Prognostic and Predictive Biomarker in Basal-Like MDA-MB-231 and MDA-MB-453 Cell Lines for Breast Cancer. Zhang X, et al. Oxid Med Cell Longev, 2022. PMID 36071863, Free PMC Article
  2. Intracellular wetting mediates contacts between liquid compartments and membrane-bound organelles. Kusumaatmaja H, et al. J Cell Biol, 2021 Oct 4. PMID 34427635, Free PMC Article
  3. TPD52L2 impacts proliferation, invasiveness and apoptosis of glioblastoma cells via modulation of wnt/β-catenin/snail signaling. Qiang Z, et al. Carcinogenesis, 2018 Feb 9. PMID 29106517
  4. Tumor protein D54 is a negative regulator of extracellular matrix-dependent migration and attachment in oral squamous cell carcinoma-derived cell lines. Mukudai Y, et al. Cell Oncol (Dordr), 2013 Jun. PMID 23529586
  5. MicroRNA-217 inhibits cell proliferation, invasion and migration by targeting Tpd52l2 in human pancreatic adenocarcinoma. Chen Q, et al. Oncol Rep, 2017 Dec. PMID 29039566

See all (81) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Investigation of Transcript Variant 6 of TPD52L2 as a Prognostic and Predictive Biomarker in Basal-Like MDA-MB-231 and MDA-MB-453 Cell Lines for Breast Cancer.
    Title: Investigation of Transcript Variant 6 of TPD52L2 as a Prognostic and Predictive Biomarker in Basal-Like MDA-MB-231 and MDA-MB-453 Cell Lines for Breast Cancer.
  2. Intracellular wetting mediates contacts between liquid compartments and membrane-bound organelles.
    Title: Intracellular wetting mediates contacts between liquid compartments and membrane-bound organelles.
  3. TPD52L2 is an important biomarker influencing glioblastoma prognosis
    Title: TPD52L2 impacts proliferation, invasiveness and apoptosis of glioblastoma cells via modulation of wnt/β-catenin/snail signaling.
  4. these results suggest a critical role of miR-217 in suppressing proliferation, migration and invasion of pancreatic adenocarcinoma (HPAC)cell by targeting Tpd52l2. Targeting the miR-217/Tpd52l2 axis may be a new therapeutic application with which to treat patients with HPAC in the future.
    Title: MicroRNA-217 inhibits cell proliferation, invasion and migration by targeting Tpd52l2 in human pancreatic adenocarcinoma.
  5. the important roles of TPD52 and TPD54, which work oppositely, in the terminal differentiation of chondrocytes during endochondral ossification.
    Title: Tumor Proteins D52 and D54 Have Opposite Effects on the Terminal Differentiation of Chondrocytes.
  6. tpd54 overexpression in SAS cells significantly decreased colony formation in an anchorage-independent manner. Additionally, knock-down of tpd54 enhanced the number of colonies formed and overexpression of tpd52 in tpd54 knock-down cells increased the size of the colonies formed. The chemotaxis assay showed that tpd54 overexpression decreased cell migration
    Title: Opposite effects of tumor protein D (TPD) 52 and TPD54 on oral squamous cell carcinoma cells.
  7. TPD54 may serve as a novel biomarker for oral squamous cell carcinoma.
    Title: Tumor protein D54 is a negative regulator of extracellular matrix-dependent migration and attachment in oral squamous cell carcinoma-derived cell lines.
  8. hABCF3 positively regulates cell proliferation, at least partially through the interaction with a tumor protein D52 protein family member: TPD52L2.
    Title: hABCF3, a TPD52L2 interacting partner, enhances the proliferation of human liver cancer cell lines in vitro.
  9. The results indicate that tumor protein D52-like 2 genes are not ubiquitously expressed in leukemic bone marrow in children, and that RNA sample parameters may influence measures of gene expression more than commonly appreciated.
    Title: Expression of tumor protein D52-like genes in childhood leukemia at diagnosis: clinical and sample considerations.
Submit: New GeneRIF Correction

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
Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array.
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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp686A1765

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in carbohydrate metabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
tumor protein D54
Names
HCCR-binding protein 2
tumor protein D52 like 2

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.

Genomic

  1. NG_029863.1 RefSeqGene

    Range
    5043..31311
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001243891.2 → NP_001230820.1  tumor protein D54 isoform g

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) uses an alternate splice site and lacks two consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (g) is shorter than isoform a.
    Source sequence(s)
    AL118506, DA871584, DC428780
    UniProtKB/TrEMBL
    Q53GA0
    Conserved Domains (1) summary
    pfam04201
    Location:29 → 172
    TPD52; Tumour protein D52 family

  2. NM_001243892.2 → NP_001230821.1  tumor protein D54 isoform h

    See identical proteins and their annotated locations for NP_001230821.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) uses an alternate splice site and lacks three exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (h) is shorter than isoform a.
    Source sequence(s)
    AL118506, DC362382
    Consensus CDS
    CCDS58785.1
    UniProtKB/TrEMBL
    B4DDV4
    Related
    ENSP00000358943.2, ENST00000369927.8
    Conserved Domains (1) summary
    pfam04201
    Location:32 → 154
    TPD52; Tumour protein D52 family

  3. NM_001243894.2 → NP_001230823.1  tumor protein D54 isoform i

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) lacks four consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (i) is shorter than isoform a.
    Source sequence(s)
    AL118506, DA689198, DA871584
    Consensus CDS
    CCDS74753.1
    UniProtKB/TrEMBL
    A0A087WZ51
    Related
    ENSP00000482370.1, ENST00000611972.4
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 143
    TPD52; Tumour protein D52 family

  4. NM_001243895.2 → NP_001230824.1  tumor protein D54 isoform j

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) lacks three consecutive exons in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (j) is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AL118506, DA547106, DA871584
    Consensus CDS
    CCDS74752.1
    UniProtKB/TrEMBL
    A0A087WYR3
    Related
    ENSP00000482024.1, ENST00000615907.4
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 158
    TPD52; Tumour protein D52 family

  5. NM_003288.4 → NP_003279.2  tumor protein D54 isoform e

    See identical proteins and their annotated locations for NP_003279.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two consecutive exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (e) is shorter than isoform a.
    Source sequence(s)
    AL118506, BC006804, DA871584
    Consensus CDS
    CCDS13540.1
    UniProtKB/Swiss-Prot
    B4DPJ6, E1P5G7, O43398, O43399, Q5JWU5, Q5JWU6, Q5JWU8, Q5U0E0, Q9H3Z6
    UniProtKB/TrEMBL
    Q53GA0, Q6FGS1
    Related
    ENSP00000343547.4, ENST00000346249.9
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 197
    TPD52; tumor protein D52 family

  6. NM_199359.3 → NP_955391.1  tumor protein D54 isoform f

    See identical proteins and their annotated locations for NP_955391.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks three exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (f) is shorter than isoform a.
    Source sequence(s)
    AK297064, AL118506, DA871584
    Consensus CDS
    CCDS13541.1
    UniProtKB/TrEMBL
    Q53GA0, Q68E05
    Related
    ENSP00000343554.5, ENST00000348257.9
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 177
    TPD52; Tumour protein D52 family

  7. NM_199360.3 → NP_955392.1  tumor protein D54 isoform a

    See identical proteins and their annotated locations for NP_955392.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AL118506, BI667351, DA871584
    Consensus CDS
    CCDS13542.1
    UniProtKB/TrEMBL
    Q53GA0
    Related
    ENSP00000217121.5, ENST00000217121.9
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 220
    TPD52; Tumour protein D52 family

  8. NM_199361.3 → NP_955393.1  tumor protein D54 isoform b

    See identical proteins and their annotated locations for NP_955393.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AL118506, BP347669, DA871584
    Consensus CDS
    CCDS13543.1
    UniProtKB/TrEMBL
    Q53GA0
    Related
    ENSP00000340006.4, ENST00000351424.8
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 200
    TPD52; Tumour protein D52 family

  9. NM_199362.3 → NP_955394.1  tumor protein D54 isoform c

    See identical proteins and their annotated locations for NP_955394.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (c) is shorter than isoform a.
    Source sequence(s)
    AL118506, BT019631, DA871584
    Consensus CDS
    CCDS13544.1
    UniProtKB/TrEMBL
    Q53GA0
    Related
    ENSP00000344647.4, ENST00000352482.8
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 211
    TPD52; Tumour protein D52 family

  10. NM_199363.3 → NP_955395.1  tumor protein D54 isoform d

    See identical proteins and their annotated locations for NP_955395.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks two exons in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (d) is shorter than isoform a.
    Source sequence(s)
    AK055068, AL118506
    Consensus CDS
    CCDS13545.1
    UniProtKB/TrEMBL
    Q53GA0
    Related
    ENSP00000351350.4, ENST00000358548.4
    Conserved Domains (1) summary
    pfam04201
    Location:55 → 191
    TPD52; Tumour protein D52 family

RNA

  1. NR_045090.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) uses an alternate splice site and lacks two consecutive exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL118506, BQ948007, DA871584

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    63865270..63891538
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    65685113..65711383
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O43399.2 GenPept UniProtKB/Swiss-Prot:O43399

Gene LinkOut

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