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    EBNA1BP2 EBNA1 binding protein 2 [ Homo sapiens (human) ]

    Gene ID: 10969, updated on 10-Dec-2024

    Summary

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    Official Symbol
    EBNA1BP2provided by HGNC
    Official Full Name
    EBNA1 binding protein 2provided by HGNC
    Primary source
    HGNC:HGNC:15531
    See related
    Ensembl:ENSG00000117395 MIM:614443; AllianceGenome:HGNC:15531
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    P40; EBP2; NOBP
    Summary
    Enables RNA binding activity. Predicted to be involved in rRNA processing and ribosomal large subunit biogenesis. Located in chromosome and nucleolus. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 24.1), thyroid (RPKM 21.0) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See EBNA1BP2 in Genome Data Viewer
    Location:
    1p34.2
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (43164174..43172570, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (43034664..43043066, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (43629845..43638241, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904715 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43501886-43502436 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:43523803-43524338 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 774 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43535165-43536132 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 775 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:43556627-43557317 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43567490-43567994 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43585242-43585883 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43585884-43586524 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:43587073-43587594 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:43618601-43619564 Neighboring gene cilia and flagella associated protein 144 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43637036-43637672 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:43637673-43638308 Neighboring gene NANOG hESC enhancer GRCh37_chr1:43643293-43643794 Neighboring gene uncharacterized LOC105378685 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:43651642-43652142 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:43652143-43652643 Neighboring gene microRNA 6733 Neighboring gene cilia and flagella associated protein 57 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:43671864-43673063 Neighboring gene RNA, 5S ribosomal pseudogene 46 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 914 Neighboring gene uncharacterized LOC124904164

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. EBP2 plays a key role in Epstein-Barr virus mitotic segregation and is regulated by aurora family kinases. Kapoor P, et al. Mol Cell Biol, 2005 Jun. PMID 15923612, Free PMC Article
    2. Epstein-Barr virus latent antigens EBNA3C and EBNA1 modulate epithelial to mesenchymal transition of cancer cells associated with tumor metastasis. Gaur N, et al. Tumour Biol, 2015 Apr. PMID 25501510, Free PMC Article
    3. Identification and partial characterization of a Mr 40,000 nucleolar antigen associated with cell proliferation. Chatterjee A, et al. Cancer Res, 1987 Feb 15. PMID 2879624
    4. EBNA1 partitions Epstein-Barr virus plasmids in yeast cells by attaching to human EBNA1-binding protein 2 on mitotic chromosomes. Kapoor P, et al. J Virol, 2003 Jun. PMID 12768013, Free PMC Article
    5. EBP2, a human protein that interacts with sequences of the Epstein-Barr virus nuclear antigen 1 important for plasmid maintenance. Shire K, et al. J Virol, 1999 Apr. PMID 10074103, Free PMC Article

    See all (172) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. EBP2, a novel NPM-ALK-interacting protein in the nucleolus, contributes to the proliferation of ALCL cells by regulating tumor suppressor p53.
      Title: EBP2, a novel NPM-ALK-interacting protein in the nucleolus, contributes to the proliferation of ALCL cells by regulating tumor suppressor p53.
    2. Targeted profiling of RNA translation reveals mTOR-4EBP1/2-independent translation regulation of mRNAs encoding ribosomal proteins.
      Title: Targeted profiling of RNA translation reveals mTOR-4EBP1/2-independent translation regulation of mRNAs encoding ribosomal proteins.
    3. We further show that the primary tumors as well as metastasized lesions derived from EBV antigen-expressing cancer cells( EBNA3C or EBNA1 ) in nude mice model display EMT markers expression pattern
      Title: Epstein-Barr virus latent antigens EBNA3C and EBNA1 modulate epithelial to mesenchymal transition of cancer cells associated with tumor metastasis.
    4. EBP2 is a novel binding partner of c-Myc that regulates cell proliferation, and tumorigenesis via a positive feedback loop.
      Title: A positive feedback loop between EBP2 and c-Myc regulates rDNA transcription, cell proliferation, and tumorigenesis.
    5. BXDC1 and EBNA1BP2 function in a dynamic scaffold for ribosome biogenesis.
      Title: Proteomic and targeted analytical identification of BXDC1 and EBNA1BP2 as dynamic scaffold proteins in the nucleolus.
    6. RNA and protein levels of cyclin E1, a dominant oncoprotein, were elevated in the EBP2- enhanced green fluorescent protein stable clones.
      Title: Ectopic EBP2 expression enhances cyclin E1 expression and induces chromosome instability in HEK293 stable clones.
    7. attaches to yeast mitotic chromosomes in a cell cycle-dependent manner and causes EBNA1 to attach to the mitotic chromosomes and effect EBV plasmid segregation
      Title: EBNA1 partitions Epstein-Barr virus plasmids in yeast cells by attaching to human EBNA1-binding protein 2 on mitotic chromosomes.
    8. Data show that human EBNA1 binding protein 2 (hEBP2 is essential for the proliferation of human cells and that repression of hEBP2 severely decreases the ability of EBNA1 and EBV-based plasmids to bind mitotic chromosomes.
      Title: EBP2 plays a key role in Epstein-Barr virus mitotic segregation and is regulated by aurora family kinases.
    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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human EBNA1 binding protein 2 (EBNA1BP2) at amino acid residues 212-213 by the HIV-1 protease 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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    Markers

    Homology

    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 rRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ribosomal large subunit biogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nuclear periphery IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of preribosome, large subunit precursor IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    probable rRNA-processing protein EBP2
    Names
    nuclear FGF3 binding protein
    nucleolar protein p40
    nucleolar protein p40; homolog of yeast EBNA1-binding protein

    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_001159936.1 → NP_001153408.1  probable rRNA-processing protein EBP2 isoform 1

      See identical proteins and their annotated locations for NP_001153408.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC009175, CN390915, R49106, U86602, Z40246
      Consensus CDS
      CCDS53308.1
      UniProtKB/TrEMBL
      H7C2Q8
      Related
      ENSP00000407323.2, ENST00000431635.6
      Conserved Domains (1) summary
      pfam05890
      Location:75 → 350
      Ebp2; Eukaryotic rRNA processing protein EBP2

    2. NM_006824.3 → NP_006815.2  probable rRNA-processing protein EBP2 isoform 2

      See identical proteins and their annotated locations for NP_006815.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      BC009175, BM791254, U86602
      Consensus CDS
      CCDS478.1
      UniProtKB/Swiss-Prot
      Q96A66, Q99848
      UniProtKB/TrEMBL
      Q6IB29
      Related
      ENSP00000236051.2, ENST00000236051.3
      Conserved Domains (1) summary
      pfam05890
      Location:20 → 295
      Ebp2; Eukaryotic rRNA processing protein EBP2

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      43164174..43172570 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047441489.1 → XP_047297445.1  probable rRNA-processing protein EBP2 isoform X1

      UniProtKB/Swiss-Prot
      Q96A66, Q99848
      UniProtKB/TrEMBL
      Q6IB29

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      43034664..43043066 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99848.2 GenPept UniProtKB/Swiss-Prot:Q99848

    Gene LinkOut

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

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