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

Gene ID: 54190, updated on 2-Nov-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, Nov 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 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

    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

  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

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