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    Shprh SNF2 histone linker PHD RING helicase [ Mus musculus (house mouse) ]

    Gene ID: 268281, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Shprhprovided by MGI
    Official Full Name
    SNF2 histone linker PHD RING helicaseprovided by MGI
    Primary source
    MGI:MGI:1917581
    See related
    Ensembl:ENSMUSG00000090112 AllianceGenome:MGI:1917581
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    E130018M05; 2610103K11Rik; D230017O13Rik
    Summary
    Predicted to enable ubiquitin protein ligase activity and ubiquitin protein ligase binding activity. Predicted to be involved in DNA damage response and protein polyubiquitination. Predicted to be located in nucleus. Predicted to be part of nucleosome. Orthologous to human SHPRH (SNF2 histone linker PHD RING helicase). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in cerebellum adult (RPKM 3.8), CNS E18 (RPKM 3.8) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Shprh in Genome Data Viewer
    Location:
    10 A1; 10 3.66 cM
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (11024765..11093339)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (11149272..11217595)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930567K20 gene Neighboring gene glutamate receptor, metabotropic 1 Neighboring gene predicted gene, 53612 Neighboring gene STARR-seq mESC enhancer starr_25749 Neighboring gene STARR-positive B cell enhancer ABC_E9129 Neighboring gene STARR-seq mESC enhancer starr_25751 Neighboring gene STARR-seq mESC enhancer starr_25754 Neighboring gene STARR-seq mESC enhancer starr_25755 Neighboring gene STARR-seq mESC enhancer starr_25756 Neighboring gene STARR-seq mESC enhancer starr_25757 Neighboring gene F-box protein 30 Neighboring gene predicted gene, 25979

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Axitinib blocks Wnt/β-catenin signaling and directs asymmetric cell division in cancer. Qu Y, et al. Proc Natl Acad Sci U S A, 2016 Aug 16. PMID 27482107, Free PMC Article
    2. Cloning and characterization of a novel gene, SHPRH, encoding a conserved putative protein with SNF2/helicase and PHD-finger domains from the 6q24 region. Sood R, et al. Genomics, 2003 Aug. PMID 12837266
    3. HLTF and SHPRH are not essential for PCNA polyubiquitination, survival and somatic hypermutation: existence of an alternative E3 ligase. Krijger PH, et al. DNA Repair (Amst), 2011 Apr 3. PMID 21269891, Free PMC Article
    4. SHPRH and HLTF act in a damage-specific manner to coordinate different forms of postreplication repair and prevent mutagenesis. Lin JR, et al. Mol Cell, 2011 Apr 22. PMID 21396873, Free PMC Article
    5. DNA damage-specific deubiquitination regulates Rad18 functions to suppress mutagenesis. Zeman MK, et al. J Cell Biol, 2014 Jul 21. PMID 25023518, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (1)  1 citation

    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 MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables helicase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nucleosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein polyubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    part_of nucleosome IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase SHPRH
    Names
    RING-type E3 ubiquitin transferase SHPRH
    SNF2, histone-linker, PHD and RING finger domain-containing helicase
    NP_001071175.1
    NP_001271283.1
    NP_766525.3
    XP_006512803.1

    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_001077707.1 → NP_001071175.1  E3 ubiquitin-protein ligase SHPRH isoform a

      See identical proteins and their annotated locations for NP_001071175.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AK082160, BB650602, BC055003, BP757728
      Consensus CDS
      CCDS35838.1
      UniProtKB/Swiss-Prot
      Q7TPQ3, Q7TQ27, Q7TQ28, Q7TQ29, Q8BKE2, Q8BUW0, Q922Q3
      Related
      ENSMUSP00000039422.7, ENSMUST00000044053.13
      Conserved Domains (7) summary
      COG0553
      Location:1314 → 1669
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd15547
      Location:651 → 697
      PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
      cd16569
      Location:1420 → 1470
      RING-HC_SHPRH; RING finger, HC subclass, found in SNF2 histone-linker PHD finger RING finger helicase (SHPRH) and similar proteins
      cd18793
      Location:1499 → 1624
      SF2_C_SNF; C-terminal helicase domain of the SNF family helicases
      cd18070
      Location:693 → 894
      DEXQc_SHPRH; DEXQ-box helicase domain of SHPRH
      pfam00538
      Location:435 → 506
      Linker_histone; linker histone H1 and H5 family
      cl28899
      Location:299 → 419
      DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily

    2. NM_001284354.1 → NP_001271283.1  E3 ubiquitin-protein ligase SHPRH isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two exons and includes an alternate 3' terminal exon, compared to variant 1. It encodes isoform c which is shorter and has a distinct C-terminus, compared to isoform a.
      Source sequence(s)
      AK044720, AK053448, BB650602, BC055003
      Consensus CDS
      CCDS70003.1
      UniProtKB/Swiss-Prot
      Q7TPQ3
      Related
      ENSMUSP00000132870.2, ENSMUST00000159541.8
      Conserved Domains (7) summary
      COG0553
      Location:1314 → 1619
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd00162
      Location:1423 → 1473
      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 ...
      cd15547
      Location:651 → 697
      PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
      pfam00176
      Location:707 → 978
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:1504 → 1613
      Helicase_C; Helicase conserved C-terminal domain
      pfam00538
      Location:435 → 506
      Linker_histone; linker histone H1 and H5 family
      pfam13424
      Location:1011 → 1095
      TPR_12; Tetratricopeptide repeat

    3. NM_172937.3 → NP_766525.3  E3 ubiquitin-protein ligase SHPRH isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks two exons and its transcription extends past a splice site that is used in variant 1, resulting in an immediate translation termination and a distinct 3' UTR compared to variant 1. It encodes isoform b which is truncated at the C-terminus, compared to isoform a.
      Source sequence(s)
      AC158601, AK044720, AK082160, BB650602, BC055003
      Consensus CDS
      CCDS35839.1
      UniProtKB/Swiss-Prot
      Q7TPQ3
      Related
      ENSMUSP00000125849.2, ENSMUST00000054814.14
      Conserved Domains (7) summary
      COG0553
      Location:1314 → 1616
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd00162
      Location:1423 → 1473
      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 ...
      cd15547
      Location:651 → 697
      PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
      pfam00176
      Location:707 → 978
      SNF2_N; SNF2 family N-terminal domain
      pfam00271
      Location:1504 → 1613
      Helicase_C; Helicase conserved C-terminal domain
      pfam00538
      Location:435 → 506
      Linker_histone; linker histone H1 and H5 family
      pfam13424
      Location:1011 → 1095
      TPR_12; Tetratricopeptide repeat

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000076.7 Reference GRCm39 C57BL/6J

      Range
      11024765..11093339
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006512740.5 → XP_006512803.1  E3 ubiquitin-protein ligase SHPRH isoform X1

      See identical proteins and their annotated locations for XP_006512803.1

      UniProtKB/Swiss-Prot
      Q7TPQ3, Q7TQ27, Q7TQ28, Q7TQ29, Q8BKE2, Q8BUW0, Q922Q3
      Conserved Domains (7) summary
      COG0553
      Location:1314 → 1669
      HepA; Superfamily II DNA or RNA helicase, SNF2 family [Transcription, Replication, recombination and repair]
      cd15547
      Location:651 → 697
      PHD_SHPRH; PHD finger found in E3 ubiquitin-protein ligase SHPRH
      cd16569
      Location:1420 → 1470
      RING-HC_SHPRH; RING finger, HC subclass, found in SNF2 histone-linker PHD finger RING finger helicase (SHPRH) and similar proteins
      cd18793
      Location:1499 → 1624
      SF2_C_SNF; C-terminal helicase domain of the SNF family helicases
      cd18070
      Location:693 → 894
      DEXQc_SHPRH; DEXQ-box helicase domain of SHPRH
      pfam00538
      Location:435 → 506
      Linker_histone; linker histone H1 and H5 family
      cl28899
      Location:299 → 419
      DEAD-like_helicase_N; N-terminal helicase domain of the DEAD-box helicase superfamily

    RNA

    1. XR_871438.4 RNA Sequence

    2. XR_380065.5 RNA Sequence

      Related
      ENSMUST00000159810.8
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7TPQ3.1 GenPept UniProtKB/Swiss-Prot:Q7TPQ3

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