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    NAP1L4 nucleosome assembly protein 1 like 4 [ Homo sapiens (human) ]

    Gene ID: 4676, updated on 5-Mar-2024

    Summary

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    Official Symbol
    NAP1L4provided by HGNC
    Official Full Name
    nucleosome assembly protein 1 like 4provided by HGNC
    Primary source
    HGNC:HGNC:7640
    See related
    Ensembl:ENSG00000205531 MIM:601651; AllianceGenome:HGNC:7640
    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
    NAP2; NAP2L; hNAP2; NAP1L4b
    Summary
    This gene encodes a member of the nucleosome assembly protein (NAP) family which can interact with both core and linker histones. It can shuttle between the cytoplasm and nucleus, suggesting a role as a histone chaperone. This gene is one of several located near the imprinted gene domain of 11p15.5, an important tumor-suppressor gene region. Alterations in this region have been associated with the Beckwith-Wiedemann syndrome, Wilms tumor, rhabdomyosarcoma, adrenocortical carcinoma, and lung, ovarian, and breast cancer. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in testis (RPKM 52.4), heart (RPKM 37.7) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    11p15.4
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (2944437..2992329, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (3033655..3081571, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (2965667..3013559, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene SLC22A18 antisense RNA Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3074 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2924695-2925196 Neighboring gene solute carrier family 22 member 18 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2933345-2934048 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2935457-2936158 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2949927-2950535 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2950536-2951145 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2951146-2951754 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2954769-2955381 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:2961339-2961515 Neighboring gene pleckstrin homology like domain family A member 2 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2967017-2967632 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2967633-2968246 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2968247-2968862 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2968863-2969476 Neighboring gene NANOG hESC enhancer GRCh37_chr11:2982073-2982579 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:2986349-2986848 Neighboring gene MPRA-validated peak1165 silencer Neighboring gene small nucleolar RNA, H/ACA box 54 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:3012128-3012984 Neighboring gene Sharpr-MPRA regulatory region 13774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:3035645-3036144 Neighboring gene cysteinyl-tRNA synthetase 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:3051685-3052185 Neighboring gene CARS1 antisense RNA 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:3061281-3062480 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:3063691-3064626 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:3064627-3065562 Neighboring gene RNA, U1 small nuclear 91, pseudogene

    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. Nucleosome assembly protein 1-like 4, a new therapeutic target for proliferation and invasion of melanoma cells. Mizuhashi S, et al. J Dermatol Sci, 2021 Apr. PMID 33583643
    2. NAP-2 is part of multi-protein complexes in HeLa cells. Rodriguez P, et al. J Cell Biochem, 2004 Oct 1. PMID 15368365
    3. A novel human homologue of yeast nucleosome assembly protein, 65 kb centromeric to the p57KIP2 gene, is biallelically expressed in fetal and adult tissues. Hu RJ, et al. Hum Mol Genet, 1996 Nov. PMID 8923002
    4. Functional characterization of human nucleosome assembly protein 1-like proteins as histone chaperones. Okuwaki M, et al. Genes Cells, 2010 Jan. PMID 20002496
    5. Nucleosome formation with the testis-specific histone H3 variant, H3t, by human nucleosome assembly proteins in vitro. Tachiwana H, et al. Nucleic Acids Res, 2008 Apr. PMID 18281699, Free PMC Article

    See all (123) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Positive natural selection of N6-methyladenosine on the RNAs of processed pseudogenes.
      Title: Positive natural selection of N6-methyladenosine on the RNAs of processed pseudogenes.
    2. Nucleosome assembly protein 1-like 4, a new therapeutic target for proliferation and invasion of melanoma cells.
      Title: Nucleosome assembly protein 1-like 4, a new therapeutic target for proliferation and invasion of melanoma cells.
    3. The NAP1L4 regulates cell fate by controlling the expression of p53-responsive proarrest and proapoptotic genes through selective modulation of p53 acetylation at specific sites during normal homeostasis and in stress-induced responses.
      Title: Nucleosome assembly proteins NAP1L1 and NAP1L4 modulate p53 acetylation to regulate cell fate.
    4. knockdown of NAP1L1 suppresses IkappaBalpha degradation and nuclear transport of p65 subunit after treatment with TNF-a stimulation, leading to attenuation of the NF-kappaB transcriptional activity, whereas NAP1L4 knockdown remains silent.results of this study suggest that NAP1L1 downregulation renders the cell vulnerable to apoptotic cell death through attenuation of NF-kappaB transcriptional activity on the anti-apop...
      Title: NAP1L1 regulates NF-κB signaling pathway acting on anti-apoptotic Mcl-1 gene expression.
    5. Results identified several proteins interacting with NAP1L2, including the ubiquitously expressed members of the nucleosome assembly protein family, NAP1L1 and NAP1L4.
      Title: Interaction between nucleosome assembly protein 1-like family members.
    6. Telomeric NAP1L4 and OSBPL5 of the KCNQ1 cluster, and the DECORIN gene are not imprinted in human trophoblast stem cells.
      Title: Telomeric NAP1L4 and OSBPL5 of the KCNQ1 cluster, and the DECORIN gene are not imprinted in human trophoblast stem cells.
    7. The biochemical properties of two human NAP1-like proteins, hNAP1L1 and hNAP1L4, were characterized.
      Title: Functional characterization of human nucleosome assembly protein 1-like proteins as histone chaperones.
    8. Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
      Title: Genome-wide association study of alcohol dependence implicates a region on chromosome 11.
    9. Human Nap2 promotes nucleosome assembly with H3t/H4.
      Title: Nucleosome formation with the testis-specific histone H3 variant, H3t, by human nucleosome assembly proteins in vitro.
    10. NAP-2 is in complex(es) with other proteins, which are distinct from histones
      Title: NAP-2 is part of multi-protein complexes in HeLa cells.
    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
    Common variants in the calcium-sensing receptor gene are associated with total serum calcium levels.
    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 modulates expression of the chemokines, GRO-alpha (CXCL1), GRO-gamma, NAP2, IL-8, IP-10, MIP-1beta, MIP-1alpha, RANTES, and MIP-3alpha, in PBMCs and MDMs PubMed
    Rev rev HIV-1 Rev interacting protein, nucleosome assembly protein 1-like 4 (NAP1L4), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with NAP1L4 is decreased by RRE PubMed
    Tat tat HIV-1 Tat is identified to have a physical interaction with nucleosome assembly protein 1-like 4 (NAP1L4) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC4565

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleosome binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables unfolded protein binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in nucleosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nucleosome assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    nucleosome assembly protein 1-like 4
    Names
    NAP-2
    nucleosome assembly protein 1-like 4b
    nucleosome assembly protein 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.

    mRNA and Protein(s)

    1. NM_001369375.1 → NP_001356304.1  nucleosome assembly protein 1-like 4 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS41599.1
      UniProtKB/Swiss-Prot
      B2R6J4, F5HFY4, Q99733
      UniProtKB/TrEMBL
      A0A994J3W0
      Conserved Domains (1) summary
      pfam00956
      Location:65 → 338
      NAP; Nucleosome assembly protein (NAP)

    2. NM_001369376.1 → NP_001356305.1  nucleosome assembly protein 1-like 4 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS41599.1
      UniProtKB/Swiss-Prot
      B2R6J4, F5HFY4, Q99733
      UniProtKB/TrEMBL
      A0A994J3W0
      Conserved Domains (1) summary
      pfam00956
      Location:65 → 338
      NAP; Nucleosome assembly protein (NAP)

    3. NM_001369377.1 → NP_001356306.1  nucleosome assembly protein 1-like 4 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS41599.1
      UniProtKB/Swiss-Prot
      B2R6J4, F5HFY4, Q99733
      UniProtKB/TrEMBL
      A0A994J3W0
      Conserved Domains (1) summary
      pfam00956
      Location:65 → 338
      NAP; Nucleosome assembly protein (NAP)

    4. NM_001369378.1 → NP_001356307.1  nucleosome assembly protein 1-like 4 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS41599.1
      UniProtKB/Swiss-Prot
      B2R6J4, F5HFY4, Q99733
      UniProtKB/TrEMBL
      A0A994J3W0
      Conserved Domains (1) summary
      pfam00956
      Location:65 → 338
      NAP; Nucleosome assembly protein (NAP)

    5. NM_001369379.1 → NP_001356308.1  nucleosome assembly protein 1-like 4 isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS41599.1
      UniProtKB/Swiss-Prot
      B2R6J4, F5HFY4, Q99733
      UniProtKB/TrEMBL
      A0A994J3W0
      Conserved Domains (1) summary
      pfam00956
      Location:65 → 338
      NAP; Nucleosome assembly protein (NAP)

    6. NM_001369380.1 → NP_001356309.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Related
      ENSP00000481412.1, ENST00000620138.4
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    7. NM_001369381.1 → NP_001356310.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Related
      ENSP00000436397.1, ENST00000526115.5
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    8. NM_001369382.1 → NP_001356311.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    9. NM_001369383.1 → NP_001356312.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    10. NM_001369384.1 → NP_001356313.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    11. NM_001369385.1 → NP_001356314.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    12. NM_001369386.1 → NP_001356315.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    13. NM_001369388.1 → NP_001356317.1  nucleosome assembly protein 1-like 4 isoform 2

      Status: REVIEWED

      Source sequence(s)
      AC131971
      Consensus CDS
      CCDS91410.1
      UniProtKB/TrEMBL
      B4DS05, B7ZB83
      Conserved Domains (1) summary
      pfam00956
      Location:67 → 337
      NAP; Nucleosome assembly protein (NAP)

    14. NM_005969.4 → NP_005960.1  nucleosome assembly protein 1-like 4 isoform 1

      See identical proteins and their annotated locations for NP_005960.1

      Status: REVIEWED

      Source sequence(s)
      AA573896, BC022090, U77456
      Consensus CDS
      CCDS41599.1
      UniProtKB/Swiss-Prot
      B2R6J4, F5HFY4, Q99733
      UniProtKB/TrEMBL
      A0A994J3W0
      Related
      ENSP00000369915.4, ENST00000380542.9
      Conserved Domains (1) summary
      pfam00956
      Location:65 → 338
      NAP; Nucleosome assembly protein (NAP)

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      2944437..2992329 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NT_187585.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      175485..223399 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      3033655..3081571 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99733.1 GenPept UniProtKB/Swiss-Prot:Q99733

    Gene LinkOut

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

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