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    Rabep1 rabaptin, RAB GTPase binding effector protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 54190, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Rabep1provided by RGD
    Official Full Name
    rabaptin, RAB GTPase binding effector protein 1provided by RGD
    Primary source
    RGD:708568
    See related
    EnsemblRapid:ENSRNOG00000005015 AllianceGenome:RGD:708568
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable protein domain specific binding activity and protein homodimerization activity. Predicted to be involved in Golgi to plasma membrane transport; protein localization to ciliary membrane; and regulation of postsynaptic neurotransmitter receptor internalization. Is active in presynaptic cytosol. Orthologous to human RABEP1 (rabaptin, RAB GTPase binding effector protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 248.6), Liver (RPKM 125.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Rabep1 in Genome Data Viewer
    Location:
    10q24
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (56064742..56168778)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (55566156..55667595)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (57462272..57579901)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene SLP adaptor and CSK interacting membrane protein Neighboring gene uncharacterized LOC120095133 Neighboring gene transfer RNA serine (anticodon AGA) 18 Neighboring gene nucleoporin 88 Neighboring gene RPA interacting protein Neighboring gene complement C1q binding protein

    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. NMDA receptor-dependent activation of the small GTPase Rab5 drives the removal of synaptic AMPA receptors during hippocampal LTD. Brown TC, et al. Neuron, 2005 Jan 6. PMID 15629704
    2. The neuronal growth-associated protein GAP-43 interacts with rabaptin-5 and participates in endocytosis. Neve RL, et al. J Neurosci, 1998 Oct 1. PMID 9742146, Free PMC Article
    3. Structural basis of Rab5-Rabaptin5 interaction in endocytosis. Zhu G, et al. Nat Struct Mol Biol, 2004 Oct. PMID 15378032
    4. Crystal structure of the human GGA1 GAT domain. Zhu G, et al. Biochemistry, 2003 Jun 3. PMID 12767220
    5. App gene dosage modulates endosomal abnormalities of Alzheimer's disease in a segmental trisomy 16 mouse model of down syndrome. Cataldo AM, et al. J Neurosci, 2003 Jul 30. PMID 12890772, Free PMC Article

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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
    enables GTPase activator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables growth factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein domain specific binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein domain specific binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein homodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in Golgi to plasma membrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in Golgi to plasma membrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in Golgi to plasma membrane transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in Golgi to plasma membrane transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein localization to ciliary membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein localization to ciliary membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to ciliary membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of postsynaptic neurotransmitter receptor internalization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of postsynaptic neurotransmitter receptor internalization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in vesicle-mediated transport ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in early endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endocytic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endocytic vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endocytic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in presynaptic cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of protein-containing complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in recycling endosome IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    rab GTPase-binding effector protein 1
    Names
    rabaptin-5
    rabaptin-5alpha

    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_019124.2 → NP_061997.2  rab GTPase-binding effector protein 1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/Swiss-Prot
      O35550, P70609
      UniProtKB/TrEMBL
      A6HGA2
      Related
      ENSRNOP00000090309.2, ENSRNOT00000109255.2
      Conserved Domains (2) summary
      pfam03528
      Location:9 → 495
      Rabaptin
      pfam09311
      Location:533 → 839
      Rab5-bind; Rabaptin-like protein

    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_086028.1 Reference GRCr8

      Range
      56064742..56168778
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063269681.1 → XP_063125751.1  rab GTPase-binding effector protein 1 isoform X1

      UniProtKB/Swiss-Prot
      O35550, P70609
      Related
      ENSRNOP00000104261.1, ENSRNOT00000128672.1

    2. XM_006246795.5 → XP_006246857.1  rab GTPase-binding effector protein 1 isoform X2

      UniProtKB/Swiss-Prot
      O35550, P70609
      Related
      ENSRNOP00000093398.2, ENSRNOT00000107871.2
      Conserved Domains (3) summary
      pfam03528
      Location:9 → 495
      Rabaptin; Rabaptin
      pfam09311
      Location:518 → 804
      Rab5-bind; Rabaptin-like protein
      pfam10267
      Location:613 → 749
      Tmemb_cc2; Predicted transmembrane and coiled-coil 2 protein

    3. XM_063269682.1 → XP_063125752.1  rab GTPase-binding effector protein 1 isoform X3

      UniProtKB/Swiss-Prot
      O35550, P70609

    4. XM_006246796.5 → XP_006246858.1  rab GTPase-binding effector protein 1 isoform X4

      UniProtKB/Swiss-Prot
      O35550, P70609
      Related
      ENSRNOP00000100373.1, ENSRNOT00000137271.1
      Conserved Domains (2) summary
      pfam03528
      Location:9 → 495
      Rabaptin; Rabaptin
      pfam10267
      Location:574 → 710
      Tmemb_cc2; Predicted transmembrane and coiled-coil 2 protein

    5. XM_008767861.4 → XP_008766083.1  rab GTPase-binding effector protein 1 isoform X5

      See identical proteins and their annotated locations for XP_008766083.1

      UniProtKB/TrEMBL
      A0A8I5ZKK4, A6HGA4, A6HGA5
      Conserved Domains (3) summary
      pfam03528
      Location:1 → 411
      Rabaptin; Rabaptin
      pfam09311
      Location:449 → 755
      Rab5-bind; Rabaptin-like protein
      pfam10267
      Location:564 → 700
      Tmemb_cc2; Predicted transmembrane and coiled-coil 2 protein

    RNA

    1. XR_594720.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O35550.1 GenPept UniProtKB/Swiss-Prot:O35550

    Gene LinkOut

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

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