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

Gene ID: 10969, updated on 7-Apr-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, Apr 2022]
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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Location:
1p34.2
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (43164174..43172570, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (43034664..43043066, complement)
105.20220307 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: 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. 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
  2. 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
  3. 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
  4. 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
  5. 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

See all (146) 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)

Genotypes

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_2023_10

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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