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    NHP2L1 NHP2 non-histone chromosome protein 2-like 1 (S. cerevisiae) [ Homo sapiens ]

    Gene ID: 4809, updated on 19-May-2012
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    Summary

    Official Symbol
    NHP2L1provided by HGNC
    Official Full Name
    NHP2 non-histone chromosome protein 2-like 1 (S. cerevisiae)provided by HGNC
    Primary source
    HGNC:7819
    Locus tag
    CTA-216E10.8
    See related
    Ensembl:ENSG00000100138; HPRD:03197; MIM:601304; Vega:OTTHUMG00000151189
    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
    FA1; FA-1; NHPX; 15.5K; OTK27; SNU13; SSFA1; SPAG12; SNRNP15-5
    Summary
    Originally named because of its sequence similarity to the Saccharomyces cerevisiae NHP2 (non-histone protein 2), this protein appears to be a highly conserved nuclear protein that is a component of the [U4/U6.U5] tri-snRNP. It binds to the 5' stem-loop of U4 snRNA. Two transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008]
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    Genomic context

    Location :
    22q13
    Sequence :
    Chromosome: 22; NC_000022.10 (42069937..42084913, complement)
    See NHP2L1 in Epigenomics, MapViewer

    Chromosome 22 - NC_000022.10Genomic Context describing neighboring genes Neighboring gene desumoylating isopeptidase 1 Neighboring gene X-ray repair complementing defective repair in Chinese hamster cells 6 Neighboring gene protein LLP homolog Neighboring gene chromosome 22 open reading frame 46 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene10 Neighboring gene meiosis inhibitor 1

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. Integrative analysis of the ubiquitin proteome isolated using Tandem Ubiquitin Binding Entities (TUBEs). Lopitz-Otsoa F, et al. J Proteomics, 2012 Jun 6. PMID 22178446.
    2. Systematic and quantitative assessment of the ubiquitin-modified proteome. Kim W, et al. Mol Cell, 2011 Oct 21. PMID 21906983.
    3. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. Wagner SA, et al. Mol Cell Proteomics, 2011 Oct. PMID 21890473.
    4. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. Danielsen JM, et al. Mol Cell Proteomics, 2011 Mar. PMID 21139048.
    5. Systematic analysis of human protein complexes identifies chromosome segregation proteins. Hutchins JR, et al. Science, 2010 Apr 30. PMID 20360068.

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. snoRNP assembly factor NUFIP can regulate the interactions between TIP48 and TIP49 and the core box C/D proteins.
      Title: Evidence that the AAA+ proteins TIP48 and TIP49 bridge interactions between 15.5K and the related NOP56 and NOP58 proteins during box C/D snoRNP biogenesis.
    2. the testis-specific expression of FA-1 antigen at the mRNA level
      Title: Molecular cloning and sequencing of cDNA encoding for human FA-1 antigen.
    3. describe the solution NMR structure of free 15.5K, as well as studies of conformational flexibility from 15N NMR relaxation and H/D exchange experiments
      Title: Functional implications for a prototypical K-turn binding protein from structural and dynamical studies of 15.5K.
    4. NHPX is specifically accumulated in both nucleoli and Cajal bodies (CBs) in vivo. The data show a specific temporal pathway involving the sequential and directed accumulation of NHPX in distinct subnuclear compartments
      Title: In vivo analysis of NHPX reveals a novel nucleolar localization pathway involving a transient accumulation in splicing speckles.
    5. Data show that binding of the 15.5 kD RNA binding protein to the box C/D motif of snoRNAs is essential for the association of other snoRNP-associated proteins.
      Title: Conserved stem II of the box C/D motif is essential for nucleolar localization and is required, along with the 15.5K protein, for the hierarchical assembly of the box C/D snoRNP.
    Submit: New GeneRIF Correction
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    Phenotypes

    Review eQTL and phenotype association data in this region using PheGenI

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    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    P55769 P42773 CDKN2C    HPRD  PubMed  
    P55769 Q12789 GTF3C1    HPRD  PubMed  
    P55769 Q5T3J3 LRIF1    HPRD  PubMed  
    P55769 Q14181 POLA2    HPRD  PubMed  
    P55769 O75943 RAD17    HPRD  PubMed  
    P55769 P98175 RBM10    HPRD  PubMed  
    P55769 P12956 XRCC6    HPRD  PubMed  
    BioGRID:110874 BioGRID:107465 CDKN2C    BioGRID  PubMed Two-hybrid 
    BioGRID:110874 BioGRID:109230 GTF3C1    BioGRID  PubMed Two-hybrid 
    BioGRID:110874 BioGRID:120905 LRIF1    BioGRID  PubMed Two-hybrid 
    BioGRID:110874 BioGRID:121122 MEPCE    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:110874 BioGRID:115783 NOP56    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:110874 BioGRID:203509 Nhp2l1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:110874 BioGRID:117176 POLA2    BioGRID  PubMed Two-hybrid 
    BioGRID:110874 BioGRID:228650 Prpf8    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:110874 BioGRID:111821 RAD17    BioGRID  PubMed Affinity Capture-Western; Two-hybrid 
    BioGRID:110874 BioGRID:113869 RBM10    BioGRID  PubMed Two-hybrid 
    BioGRID:110874 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:110874 BioGRID:108822 XRCC6    BioGRID  PubMed Two-hybrid 
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    General gene information

    Markers

    Genotypes

    Homology

    Pathways from BioSystems

    • Gene Expression, organism-specific biosystem (from REACTOME)
      Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
    • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
      Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
    • Ribosome biogenesis in eukaryotes, organism-specific biosystem (from KEGG)
      Ribosome biogenesis in eukaryotes, organism-specific biosystemRibosomes are the cellular factories responsible for making proteins. In eukaryotes, ribosome biogenesis involves the production and correct assembly of four rRNAs and about 80 ribosomal proteins. It...
    • Ribosome biogenesis in eukaryotes, conserved biosystem (from KEGG)
      Ribosome biogenesis in eukaryotes, conserved biosystemRibosomes are the cellular factories responsible for making proteins. In eukaryotes, ribosome biogenesis involves the production and correct assembly of four rRNAs and about 80 ribosomal proteins. It...
    • Spliceosome, organism-specific biosystem (from KEGG)
      Spliceosome, organism-specific biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
    • Spliceosome, conserved biosystem (from KEGG)
      Spliceosome, conserved biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
    • Spliceosome, U4/U6.U5 tri-snRNP, organism-specific biosystem (from KEGG)
      Spliceosome, U4/U6.U5 tri-snRNP, organism-specific biosystemStructural complex; Genetic information processing; Spliceosome
    • mRNA Splicing, organism-specific biosystem (from REACTOME)
      mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
    • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
      mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...
    • mRNA Splicing - Minor Pathway, organism-specific biosystem (from REACTOME)
      mRNA Splicing - Minor Pathway, organism-specific biosystemThe splicing of a subset of pre-mRNA introns occurs by a second pathway, designated the AT-AC or U12-dependent splicing pathway. AT-AC introns have highly conserved, non-canonical splice sites that ...

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    contributes_to snoRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    RNA splicing TAS
    Traceable Author Statement
    more info
    		  
    gene expression TAS
    Traceable Author Statement
    more info
    		  
    nuclear mRNA splicing, via spliceosome TAS
    Traceable Author Statement
    more info
    		  
    ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    single fertilization IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    box C/D snoRNP complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    spliceosomal complex IEA
    Inferred from Electronic Annotation
    more info
    		  
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    General protein information

    Preferred Names
    NHP2-like protein 1
    Names
    NHP2-like protein 1
    sperm specific antigen 1
    U4/U6.U5 tri-snRNP 15.5 kDa protein
    non-histone chromosome protein 2-like 1
    [U4/U6.U5] tri-snRNP 15.5 kD RNA binding protein
    small nuclear ribonucleoprotein 15.5kDa (U4/U6.U5)
    high mobility group-like nuclear protein 2 homolog 1
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    NCBI Reference Sequences (RefSeq)

    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_001003796.1 → NP_001003796.1  NHP2-like protein 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      BI770951, CF552526, D50420
      Consensus CDS
      CCDS33653.1
      UniProtKB/Swiss-Prot
      P55769
      UniProtKB/TrEMBL
      Q6FHM6
      Related
      ENSP00000347401, OTTHUMP00000199328, ENST00000355257, OTTHUMT00000321681
      Conserved Domains (1) summary
      cl00600
      Location:20 – 105
      Blast Score: 189
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

    2. NM_005008.2 → NP_004999.1  NHP2-like protein 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      BC019282, BG164621, D50420
      Consensus CDS
      CCDS14022.1
      UniProtKB/Swiss-Prot
      P55769
      UniProtKB/TrEMBL
      Q6FHM6
      Related
      ENSP00000215956, OTTHUMP00000199330, ENST00000215956, OTTHUMT00000321683
      Conserved Domains (1) summary
      cl00600
      Location:20 – 105
      Blast Score: 189
      Ribosomal_L7Ae; Ribosomal protein L7Ae/L30e/S12e/Gadd45 family

    RefSeqs of Annotated Genomes: Build 37.3

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

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000022.10 Reference GRCh37.p5 Primary Assembly

      Range
      42069937..42084913, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000154.1 Alternate HuRef

      Range
      25035346..25050319, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic CH471095.1 EAW60450.1
      EAW60451.1
      EAW60452.1
      EAW60453.1
    genomic CQ840914.1 CAH05699.1
    genomic Z83840.7 CAB46207.1
      CAQ09821.1
      CAQ09822.1
    genomic Z83840.7 CAB46207.1
      CAQ09821.1
      CAQ09822.1
    mRNA AF091076.1 AAC72945.1
    mRNA AF155235.1 AAF06959.1
    mRNA AK311800.1 BAG34743.1
    mRNA BC005358.1 AAH05358.1
    mRNA BC019282.2 AAH19282.1
    mRNA BC095439.1 AAH95439.1
    mRNA BG164621.1 None
    mRNA BI770951.1 None
    mRNA CF552526.1 None
    mRNA CR456531.1 CAG30417.1
    mRNA CR541725.1 CAG46526.1
    mRNA D50420.1 BAA23363.1
    other-genetic CU013131.1 CAK54562.1
    other-genetic CU013419.1 CAK54861.1
    Protein Accession Links
    GenPept Link UniProtKB Link
    P55769.3 GenPept UniProtKB/Swiss-Prot:P55769
    Q6FHM6 GenPept UniProtKB/TrEMBL:Q6FHM6
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    Additional Links

    Gene LinkOut

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

    Chemical Information
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