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    Ranbp2 RAN binding protein 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294429, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Ranbp2provided by RGD
    Official Full Name
    RAN binding protein 2provided by RGD
    Primary source
    RGD:1560047
    See related
    Ensembl:ENSRNOG00000000796 AllianceGenome:RGD:1560047
    Gene type
    protein coding
    RefSeq status
    INFERRED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1560047
    Summary
    Predicted to enable SUMO ligase activity and small GTPase binding activity. Predicted to contribute to GTPase activator activity. Involved in response to amphetamine. Located in cytoplasmic periphery of the nuclear pore complex. Part of nuclear pore cytoplasmic filaments. Human ortholog(s) of this gene implicated in brain disease and inflammatory myofibroblastic tumor. Orthologous to human RANBP2 (RAN binding protein 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 581.3), Thymus (RPKM 505.6) and 9 other tissues See more
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    Genomic context

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    Location:
    20q11
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (26984520..27036573)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (26442156..26493481)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (28027054..28076664) , (28365538..28375676)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene LIM zinc finger domain containing 1 Neighboring gene small nucleolar RNA SNORD113/SNORD114 family Neighboring gene uncharacterized LOC134483907 Neighboring gene coiled-coil domain containing 138 Neighboring gene ectodysplasin-A receptor

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Fusion of ALK to the Ran-binding protein 2 (RANBP2) gene in inflammatory myofibroblastic tumor. Ma Z, et al. Genes Chromosomes Cancer, 2003 May. PMID 12661011
    2. Cellular distribution of AMPA receptor subunits and mGlu5 following acute and repeated administration of morphine or methamphetamine. Herrold AA, et al. J Neurochem, 2013 Aug. PMID 23711322
    3. Ranbp2 haploinsufficiency mediates distinct cellular and biochemical phenotypes in brain and retinal dopaminergic and glia cells elicited by the Parkinsonian neurotoxin, 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP). Cho KI, et al. Cell Mol Life Sci, 2012 Oct. PMID 22821000, Free PMC Article
    4. Infection-triggered familial or recurrent cases of acute necrotizing encephalopathy caused by mutations in a component of the nuclear pore, RANBP2. Neilson DE, et al. Am J Hum Genet, 2009 Jan. PMID 19118815, Free PMC Article
    5. In situ SUMOylation analysis reveals a modulatory role of RanBP2 in the nuclear rim and PML bodies. Saitoh N, et al. Exp Cell Res, 2006 May 1. PMID 16688858

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. binding of the kinesin-binding domain of RanBP2 to KIF5B and KIF5C determines mitochondria localization and function
      Title: Association of the kinesin-binding domain of RanBP2 to KIF5B and KIF5C determines mitochondria localization and function.
    Submit: New GeneRIF Correction

    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 RGD

    Function Evidence Code Pubs
    contributes_to GTPase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SUMO ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables SUMO transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT enables cyclosporin A binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT enables peptidyl-prolyl cis-trans isomerase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein-containing complex binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables small GTPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in NLS-bearing protein import into nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in NLS-bearing protein import into nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in centrosome localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear export ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein folding IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein sumoylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of gluconeogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to amphetamine IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of SUMO ligase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in annulate lamellae ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic periphery of the nuclear pore complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear envelope ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear inclusion body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nuclear pore IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of nuclear pore IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of nuclear pore ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nuclear pore cytoplasmic filaments IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of nuclear pore cytoplasmic filaments ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nuclear pore nuclear basket ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    E3 SUMO-protein ligase RanBP2
    NP_001178533.1
    XP_038954525.1

    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_001191604.1 → NP_001178533.1  E3 SUMO-protein ligase RanBP2

      Status: INFERRED

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      M0R3M4
      Related
      ENSRNOP00000063941.2, ENSRNOT00000071386.4
      Conserved Domains (12) summary
      TIGR02795
      Location:32 → 138
      tol_pal_ybgF; tol-pal system protein YbgF
      cd01926
      Location:2928 → 3086
      cyclophilin_ABH_like; cyclophilin_ABH_like: Cyclophilin A, B and H-like cyclophilin-type peptidylprolyl cis- trans isomerase (PPIase) domain. This family represents the archetypal cystolic cyclophilin similar to human cyclophilins A, B and H. PPIase is an enzyme which ...
      cd13177
      Location:1902 → 2018
      RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
      cd13178
      Location:2789 → 2905
      RanBD4_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 4
      cd14684
      Location:1180 → 1296
      RanBD1_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 1
      cd14685
      Location:2199 → 2315
      RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
      sd00025
      Location:1350 → 1369
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      sd00006
      Location:59 → 89
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:60 → 92
      TPR_1; Tetratricopeptide repeat
      pfam00641
      Location:1473 → 1502
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam12185
      Location:2579 → 2638
      IR1-M; Nup358/RanBP2 E3 ligase domain
      cl23782
      Location:839 → 925
      RCR; Chitin synthesis regulation, resistance to Congo red

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086038.1 Reference GRCr8

      Range
      26984520..27036573
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039098597.2 → XP_038954525.1  E3 SUMO-protein ligase RanBP2 isoform X1

      UniProtKB/TrEMBL
      A0A8I5YC36, M0R3M4
      Related
      ENSRNOP00000077936.1
      Conserved Domains (10) summary
      COG0457
      Location:18 → 126
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      cd01926
      Location:2954 → 3112
      cyclophilin_ABH_like; Cyclophilin A, B and H-like cyclophilin-type peptidylprolyl cis- trans isomerase (PPIase) domain. This family represents the archetypal cystolic cyclophilin similar to human cyclophilins A, B and H. PPIase is an enzyme which accelerates protein folding ...
      cd13177
      Location:1902 → 2018
      RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
      cd13178
      Location:2815 → 2931
      RanBD4_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 4
      cd14684
      Location:1180 → 1296
      RanBD1_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 1
      cd14685
      Location:2199 → 2315
      RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
      sd00025
      Location:1350 → 1369
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      sd00006
      Location:59 → 89
      TPR; TPR repeat [structural motif]
      pfam00641
      Location:1473 → 1502
      zf-RanBP; Zn-finger in Ran binding protein and others
      pfam12185
      Location:2605 → 2663
      IR1-M; Nup358/RanBP2 E3 ligase domain
    Nucleotide Protein Strain
    Heading Accession and Version

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