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    Mib1 MIB E3 ubiquitin protein ligase 1 [ Mus musculus (house mouse) ]

    Gene ID: 225164, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Mib1provided by MGI
    Official Full Name
    MIB E3 ubiquitin protein ligase 1provided by MGI
    Primary source
    MGI:MGI:2443157
    See related
    Ensembl:ENSMUSG00000024294 AllianceGenome:MGI:2443157
    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
    Mib; DIP-1; mindbomb; E430019M12Rik
    Summary
    Predicted to enable ubiquitin-protein transferase activity. Acts upstream of or within several processes, including chordate embryonic development; circulatory system development; and positive regulation of endocytosis. Located in cytoplasmic vesicle. Is expressed in several structures, including alimentary system; brain ventricular layer; cranial ganglion; genitourinary system; and hemolymphoid system gland. Human ortholog(s) of this gene implicated in left ventricular noncompaction. Orthologous to human MIB1 (MIB E3 ubiquitin protein ligase 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 12.8), frontal lobe adult (RPKM 9.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    18 A1; 18 5.35 cM
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (10725523..10822969)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (10725625..10818578)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene abhydrolase domain containing 3 Neighboring gene RIKEN cDNA 4930563E18 gene Neighboring gene predicted gene, 25116 Neighboring gene Mir133a-1, Mir1b and Mir1a-2 host gene Neighboring gene microRNA 133a-1 Neighboring gene microRNA 1a-2 Neighboring gene microRNA 1b Neighboring gene STARR-seq mESC enhancer starr_43802 Neighboring gene STARR-seq mESC enhancer starr_43806 Neighboring gene apurinic/apyrimidinic endonuclease 1 pseudogene Neighboring gene predicted gene, 35814 Neighboring gene PHD finger protein 14 pseudogene

    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. Altered response of pendrin-positive intercalated cells in the kidney of Hoxb7-Cre;Mib1f/f mice. Nam SA, et al. Histol Histopathol, 2015 Jun. PMID 25594189
    2. Mind bomb-1 in dendritic cells is specifically required for Notch-mediated T helper type 2 differentiation. Jeong HW, et al. PLoS One, 2012. PMID 22558446, Free PMC Article
    3. Diabetes-Induced Jagged1 Overexpression in Endothelial Cells Causes Retinal Capillary Regression in a Murine Model of Diabetes Mellitus: Insights Into Diabetic Retinopathy. Yoon CH, et al. Circulation, 2016 Jul 19. PMID 27407072
    4. Injury induces direct lineage segregation of functionally distinct airway basal stem/progenitor cell subpopulations. Pardo-Saganta A, et al. Cell Stem Cell, 2015 Feb 5. PMID 25658372, Free PMC Article
    5. Notch-dependent differentiation of adult airway basal stem cells. Rock JR, et al. Cell Stem Cell, 2011 Jun 3. PMID 21624809, Free PMC Article

    See all (69) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Maintenance of type 2 glycolytic myofibers with age by Mib1-Actn3 axis.
      Title: Maintenance of type 2 glycolytic myofibers with age by Mib1-Actn3 axis.
    2. Mib1 is necessary for the Notch activation in adjacent retinal progenitor cell (RPC)The retinal pigment epithelium (RPE) expresses active Notch ligands for adjacent RPC
      Title: The Retinal Pigment Epithelium Is a Notch Signaling Niche in the Mouse Retina.
    3. Deletion of Mib1 resulted in an increase in the fraction of pendrin positive intercalated cells in the kidney.
      Title: Altered response of pendrin-positive intercalated cells in the kidney of Hoxb7-Cre;Mib1f/f mice.
    4. Loss of MIB1 and dismantling of the apical secretory apparatus was the earliest quantifiable aberration in zymogenic cells undergoing transition to a precancerous metaplastic state in mouse.
      Title: The ubiquitin ligase Mindbomb 1 coordinates gastrointestinal secretory cell maturation.
    5. These data suggest that Mib1-mediated Notch signaling is essential for long-lasting synaptic plasticity and memory formation in the rodent hippocampus.
      Title: Mind bomb-1 is an essential modulator of long-term memory and synaptic plasticity via the Notch signaling pathway.
    6. Mib1 is a major component of the signal-sending cells required to provide Notch ligand activity for specifying neurons and glia in the spinal cord
      Title: The E3 ligase Mind bomb-1 (Mib1) modulates Delta-Notch signaling to control neurogenesis and gliogenesis in the developing spinal cord.
    7. In contrast to delta-like 1 (Dll1) protein, delta-like 4 (deltall4) function relies on a combination of factors, including strong Mindbomb1 (Mib1) association, ubiquitination, and internalization and recycling back to the cell surface, to engage Notch1 effectively.
      Title: Role of recycling, Mindbomb1 association, and exclusion from lipid rafts of δ-like 4 for effective Notch signaling to drive T cell development.
    8. Mib1 in dendritic cells is critical for the activation of Notch signaling in CD4(+) T cells
      Title: Mind bomb-1 in dendritic cells is specifically required for Notch-mediated T helper type 2 differentiation.
    9. Data show that Mind bomb 1 (Mib1) is required for correct proximodistal (P-D) patterning of the developing pancreas and beta-cell formation.
      Title: Mind bomb 1 is required for pancreatic β-cell formation.
    10. show that exogenously expressed Mib1 could partially rescue the phenotypes associated with miR-137 overexpression.
      Title: MicroRNA miR-137 regulates neuronal maturation by targeting ubiquitin ligase mind bomb-1.
    Submit: New GeneRIF Correction See all GeneRIFs (17)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA1323, MGC18948

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in Notch signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within Notch signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within blood vessel development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within heart development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within heart looping IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within in utero embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within neural tube formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of endocytosis IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within somitogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in postsynaptic density EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in postsynaptic density IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic density IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    E3 ubiquitin-protein ligase MIB1
    Names
    DAPK-interacting protein-1
    RING-type E3 ubiquitin transferase MIB1
    mind bomb homolog 1
    mindbomb E3 ubiquitin protein ligase 1
    mindbomb homolog 1
    skeletrophin
    NP_001351926.1
    NP_659109.2
    XP_006525874.1

    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_001364997.1 → NP_001351926.1  E3 ubiquitin-protein ligase MIB1

      Status: VALIDATED

      Source sequence(s)
      AC105947, AC140316
      Consensus CDS
      CCDS29058.1
      UniProtKB/Swiss-Prot
      Q5XK51, Q6IS57, Q6YI52, Q6ZPT8, Q80SY4, Q8BNR1, Q8C6W2, Q921Q1
      UniProtKB/TrEMBL
      A2RRJ6
      Conserved Domains (9) summary
      PHA03095
      Location:439 → 710
      PHA03095; ankyrin-like protein; Provisional
      cd02339
      Location:83 → 127
      ZZ_Mind_bomb; Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has ...
      sd00045
      Location:562 → 593
      ANK; ANK repeat [structural motif]
      cd16724
      Location:818 → 854
      RING1-HC_MIB1; RING finger 1, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      cd16725
      Location:865 → 901
      RING2-HC_MIB1; RING finger 2, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      cd16727
      Location:962 → 1003
      RING3-HC_MIB1; RING finger 3, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      pfam06701
      Location:154 → 218
      MIB_HERC2; Mib_herc2
      pfam12796
      Location:670 → 770
      Ank_2; Ankyrin repeats (3 copies)
      pfam18346
      Location:333 → 397
      SH3_15; Mind bomb SH3 repeat domain

    2. NM_144860.3 → NP_659109.2  E3 ubiquitin-protein ligase MIB1

      See identical proteins and their annotated locations for NP_659109.2

      Status: VALIDATED

      Source sequence(s)
      AC140316, AY245539
      Consensus CDS
      CCDS29058.1
      UniProtKB/Swiss-Prot
      Q5XK51, Q6IS57, Q6YI52, Q6ZPT8, Q80SY4, Q8BNR1, Q8C6W2, Q921Q1
      UniProtKB/TrEMBL
      A2RRJ6
      Related
      ENSMUSP00000054428.5, ENSMUST00000052838.11
      Conserved Domains (9) summary
      PHA03095
      Location:439 → 710
      PHA03095; ankyrin-like protein; Provisional
      cd02339
      Location:83 → 127
      ZZ_Mind_bomb; Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has ...
      sd00045
      Location:562 → 593
      ANK; ANK repeat [structural motif]
      cd16724
      Location:818 → 854
      RING1-HC_MIB1; RING finger 1, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      cd16725
      Location:865 → 901
      RING2-HC_MIB1; RING finger 2, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      cd16727
      Location:962 → 1003
      RING3-HC_MIB1; RING finger 3, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      pfam06701
      Location:154 → 218
      MIB_HERC2; Mib_herc2
      pfam12796
      Location:670 → 770
      Ank_2; Ankyrin repeats (3 copies)
      pfam18346
      Location:333 → 397
      SH3_15; Mind bomb SH3 repeat domain

    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_000084.7 Reference GRCm39 C57BL/6J

      Range
      10725523..10822969
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006525811.5 → XP_006525874.1  E3 ubiquitin-protein ligase MIB1 isoform X1

      See identical proteins and their annotated locations for XP_006525874.1

      UniProtKB/Swiss-Prot
      Q5XK51, Q6IS57, Q6YI52, Q6ZPT8, Q80SY4, Q8BNR1, Q8C6W2, Q921Q1
      UniProtKB/TrEMBL
      A2RRJ6
      Conserved Domains (9) summary
      PHA03095
      Location:439 → 710
      PHA03095; ankyrin-like protein; Provisional
      cd02339
      Location:83 → 127
      ZZ_Mind_bomb; Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has ...
      sd00045
      Location:562 → 593
      ANK; ANK repeat [structural motif]
      cd16724
      Location:818 → 854
      RING1-HC_MIB1; RING finger 1, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      cd16725
      Location:865 → 901
      RING2-HC_MIB1; RING finger 2, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      cd16727
      Location:962 → 1003
      RING3-HC_MIB1; RING finger 3, HC subclass, found in mind bomb 1 (MIB1) and similar proteins
      pfam06701
      Location:154 → 218
      MIB_HERC2; Mib_herc2
      pfam12796
      Location:670 → 770
      Ank_2; Ankyrin repeats (3 copies)
      pfam18346
      Location:333 → 397
      SH3_15; Mind bomb SH3 repeat domain

    RNA

    1. XR_004939841.1 RNA Sequence

    2. XR_004939840.1 RNA Sequence

    3. XR_004939842.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80SY4.1 GenPept UniProtKB/Swiss-Prot:Q80SY4

    Gene LinkOut

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

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