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    SP110 SP110 nuclear body protein [ Homo sapiens ]

    Gene ID: 3431, updated on 11-May-2012

    Summary

    Official Symbol
    SP110provided by HGNC
    Official Full Name
    SP110 nuclear body proteinprovided by HGNC
    Primary source
    HGNC:5401
    See related
    Ensembl:ENSG00000135899; HPRD:06832; MIM:604457; Vega:OTTHUMG00000133204
    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
    IPR1; VODI; IFI41; IFI75; FLJ22835
    Summary
    The nuclear body is a multiprotein complex that may have a role in the regulation of gene transcription. This gene is a member of the SP100/SP140 family of nuclear body proteins and encodes a leukocyte-specific nuclear body component. The protein can function as an activator of gene transcription and may serve as a nuclear hormone receptor coactivator. In addition, it has been suggested that the protein may play a role in ribosome biogenesis and in the induction of myeloid cell differentiation. Alternative splicing has been observed for this gene and three transcript variants, encoding distinct isoforms, have been identified. [provided by RefSeq, Jul 2008]

    Genomic context

    Location :
    2q37.1
    Sequence :
    Chromosome: 2; NC_000002.11 (231033634..231090444, complement)
    See SP110 in Epigenomics, MapViewer

    Chromosome 2 - NC_000002.11Genomic Context describing neighboring genes Neighboring gene F-box protein 36 Neighboring gene solute carrier family 16, member 14 (monocarboxylic acid transporter 14) Neighboring gene RNA, Ro-associated Y4 pseudogene 19 Neighboring gene SP140 nuclear body protein Neighboring gene SP140 nuclear body protein-like

    Genomic regions, transcripts, and products

    Bibliography

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

    Phenotypes

    A genome-wide association study identifies six susceptibility loci for chronic lymphocytic leukemia.

    Hepatic venoocclusive disease with immunodeficiency

    Summary from GeneReviews: Go to GeneReviews

    Disease Characteristics
    Hepatic veno-occlusive disease with immunodeficiency (VODI) is characterized by (1) primary immunodeficiency and (2) terminal hepatic lobular vascular occlusion and hepatic fibrosis manifest as hepatomegaly and/or hepatic failure. Onset is before age 12 months. The immunodeficiency comprises severe hypogammaglobulinemia, clinical evidence of T-cell immunodeficiency with normal numbers of circulating T cells, absent lymph node germinal centers, and absent tissue plasma cells. Bacterial and opportunistic infections including Pneumocystis jerovici infection, mucocutaneous candidiasis, and enteroviral or cytomegalovirus infections occur. VODI is associated with 90% mortality overall and 100% mortality if unrecognized and untreated with intravenous immunoglobulin (IVIG) and Pneumocystis jerovici prophylaxis.
    Diagnosis Testing
    Diagnosis is based on low serum concentrations of IgA, IgM, and IgG for age, normal lymphocyte numbers, normal CD4 and CD8 percentages, histologic examination of the liver (or hepatic ultrasonography and Doppler ultrasonography if hepatic biopsy is not possible), and molecular genetic testing of SP110, the only gene known to be associated with VODI.
    Genetic Counseling
    VODI is inherited in an autosomal recessive manner. The parents of an affected child are obligate heterozygotes (carriers) and therefore carry one mutant allele. Heterozygotes are asymptomatic. At conception, each sib of an affected individual has a 25% chance of being affected, a 50% chance of being an asymptomatic carrier, and a 25% chance of being unaffected and not a carrier. Carrier testing for at-risk relatives and prenatal diagnosis for pregnancies at increased risk are possible if both disease-causing mutations in a family are known.
    References

    Mycobacterium tuberculosis, susceptibility to

    HIV-1 protein interactions

    Protein Gene Interaction Pubs
    Tat tat Microarray analysis indicates HIV-1 Tat upregulates the interferon-responsive gene expression of many proteins, including IFI41, in immature dendritic cells, an effect that likely facilitates the expansion of HIV-1 infection PubMed

    Go to the HIV-1, Human Protein Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    Q9HB58 P19404 NDUFV2    HPRD  PubMed  
    BioGRID:109657 BioGRID:106807 ANXA7    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:107460 CDKN1A    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:110755 NAP1L2    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:110807 NDUFV2    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:120779 OSGEP    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:107312 RUNX3    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:112490 SMN1    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:112938 TK1    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:114374 TSC22D1    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:113127 TTR    BioGRID  PubMed Two-hybrid 
    BioGRID:109657 BioGRID:113530 ZNF193    BioGRID  PubMed Two-hybrid 

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    binding IEA
    Inferred from Electronic Annotation
    more info
     
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    signal transducer activity TAS
    Traceable Author Statement
    more info
    PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    interspecies interaction between organisms IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of transcription, DNA-dependent IEA
    Inferred from Electronic Annotation
    more info
     
    signal transduction TAS
    Traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    sp110 nuclear body protein
    Names
    sp110 nuclear body protein
    speckled 110 kDa
    phosphoprotein 41
    phosphoprotein 75
    interferon-induced protein 41/75
    transcriptional coactivator Sp110
    interferon-induced protein 41, 30kD
    interferon-induced protein 75, 52kD

    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.

    Genomic

    1. NG_008295.1 RefSeqGene

      Range
      3327..56194
      Download
      GenBank, FASTA, Sequence Viewer (Graphics), LRG_109

    mRNA and Protein(s)

    1. NM_001185015.1NP_001171944.1  sp110 nuclear body protein isoform d

      Status: REVIEWED

      Description
      Transcript Variant: This variant (d) has an alternate 5' sequence, lacks multiple 3' exons and has an alternate 3' exon, compared to variant c. The resulting protein (isoform d) has a longer N-terminus and a shorter and distinct C-terminus when it is compared to isoform c.
      Source sequence(s)
      AC009950, AK301097, BC019059
      Consensus CDS
      CCDS54435.1
      UniProtKB/TrEMBL
      B4DVI4
      UniProtKB/TrEMBL
      F5H1M1
      UniProtKB/Swiss-Prot
      Q9HB58
      Related
      ENSP00000439558, ENST00000540870
      Conserved Domains (2) summary
      pfam03172
      Location:12115
      Blast Score: 462
      Sp100; Sp100 domain
      cl02536
      Location:460530
      Blast Score: 269
      SAND; SAND domain
    2. NM_004509.3NP_004500.3  sp110 nuclear body protein isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (a) lacks an internal alternate exon in the 3' coding region, compared to variant c. The resulting protein (isoform a) has a truncated bromodomain region when it is compared to isoform c.
      Source sequence(s)
      AK026488, AL832300, DB474530, L22343
      Consensus CDS
      CCDS2474.1
      UniProtKB/Swiss-Prot
      Q9HB58
      Related
      ENSP00000351488, OTTHUMP00000204406, ENST00000358662, OTTHUMT00000332414
      Conserved Domains (4) summary
      cd05501
      Location:568677
      Blast Score: 396
      Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
      pfam03172
      Location:6109
      Blast Score: 458
      Sp100; Sp100 domain
      cl02536
      Location:454535
      Blast Score: 301
      SAND; SAND domain
      cl15348
      Location:551580
      Blast Score: 85
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    3. NM_004510.3NP_004501.3  sp110 nuclear body protein isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (b) uses an alternate exon for the 3' coding region and 3' UTR, as compared to variant c. The encoded protein (isoform b) has a shorter and distinct C-terminus and lacks the bromodomain when it is compared to isoform c.
      Source sequence(s)
      AL832300, CA432211, DB474530
      Consensus CDS
      CCDS2476.1
      Related
      ENSP00000258382, OTTHUMP00000164263, ENST00000258382, OTTHUMT00000256915
      Conserved Domains (2) summary
      pfam03172
      Location:6109
      Blast Score: 461
      Sp100; Sp100 domain
      cl02536
      Location:454524
      Blast Score: 270
      SAND; SAND domain
    4. NM_080424.2NP_536349.2  sp110 nuclear body protein isoform c

      Status: REVIEWED

      Description
      Transcript Variant: This variant (c) represents the longest transcript and it encodes the longest protein (isoform c).
      Source sequence(s)
      AK026488, AL832300, DB474530, L22343
      Consensus CDS
      CCDS2475.1
      UniProtKB/Swiss-Prot
      Q9HB58
      Related
      ENSP00000258381, OTTHUMP00000204405, ENST00000258381, OTTHUMT00000332413
      Conserved Domains (4) summary
      cd05501
      Location:601701
      Blast Score: 400
      Bromo_SP100C_like; Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin ...
      pfam03172
      Location:6109
      Blast Score: 456
      Sp100; Sp100 domain
      cl02536
      Location:454535
      Blast Score: 302
      SAND; SAND domain
      cl15348
      Location:551580
      Blast Score: 83
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

    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_000002.11 Reference GRCh37.p5 Primary Assembly

      Range
      231033634..231090444, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000134.1 Alternate HuRef

      Range
      222873680..222930491, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

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