Rab5a RAB5A, member RAS oncogene family [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rab5aprovided by RGD
Official Full Name: RAB5A, member RAS oncogene familyprovided by RGD
Primary source: RGD:620936
See related: EnsemblRapid:ENSRNOG00000057056 AllianceGenome:RGD:620936
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables GDP-dissociation inhibitor binding activity. Involved in several processes, including positive regulation of smooth muscle cell migration; positive regulation of smooth muscle cell proliferation; and vesicle-mediated transport in synapse. Located in several cellular components, including cytoplasmic vesicle; neuronal cell body; and perinuclear region of cytoplasm. Part of protein-containing complex. Is active in cytoplasmic vesicle; glutamatergic synapse; and postsynaptic endocytic zone membrane. Orthologous to human RAB5A (RAB5A, member RAS oncogene family). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: 9q11

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (6720057..6749456)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (6483906..6512877)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (5910..6065, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

[The effects of different exercise modes on Rab5 protein and glucose metabolism in skeletal muscle of type 2 diabetic mellitus rats].
Title: [The effects of different exercise modes on Rab5 protein and glucose metabolism in skeletal muscle of type 2 diabetic mellitus rats].
c-Jun N-terminal kinase (JNK)-dependent internalization and Rab5-dependent endocytic sorting mediate long-distance retrograde neuronal death induced by axonal BDNF-p75 signaling.
Title: c-Jun N-terminal kinase (JNK)-dependent internalization and Rab5-dependent endocytic sorting mediate long-distance retrograde neuronal death induced by axonal BDNF-p75 signaling.
Retrieval is also dependent on the Rab5 effector Fused Toes (FTS)-Hook-FTS and Hook-interacting protein (FHIP) (FHF) complex, which interacts with the minus-end-directed microtubule motor dynein and its activator dynactin to drive a population of axonal retrograde carriers containing somatodendritic proteins toward the soma.
Title: Rab5 and its effector FHF contribute to neuronal polarity through dynein-dependent retrieval of somatodendritic proteins from the axon.
Semaphorin 3A activates the guanosine triphosphatase Rab5 to promote growth cone collapse and organize callosal axon projections.
Title: Semaphorin 3A activates the guanosine triphosphatase Rab5 to promote growth cone collapse and organize callosal axon projections.
In silico screening for palmitoyl substrates reveals a role for DHHC1/3/10 (zDHHC1/3/11)-mediated neurochondrin palmitoylation in its targeting to Rab5-positive endosomes.
Title: In silico screening for palmitoyl substrates reveals a role for DHHC1/3/10 (zDHHC1/3/11)-mediated neurochondrin palmitoylation in its targeting to Rab5-positive endosomes.
The reduction of vesicles exhibiting directional mobility induced by Rab5 mutants indicates that GTP-GDP switching is required for maintaining directional mobility.
Title: Rab4 and Rab5 GTPase are required for directional mobility of endocytic vesicles in astrocytes.
These findings imply that caveolin-1 controls the Rab5 activity during the caveolae-mediated endocytosis.
Title: Caveolin-1 activates Rab5 and enhances endocytosis through direct interaction.
Nerve growth factor signaling down-regulates Rab5 activity to facilitate neurite outgrowth and differentiation.
Title: Nerve growth factor-mediated neurite outgrowth via regulation of Rab5.
palmitoylation of GAD65 regulates the trafficking of the protein from Golgi membranes to an endosomal trafficking pathway in axons that is dependent on Rab5a and is required for the targeting of several synaptic vesicle proteins to presynaptic clusters
Title: Palmitoylation controls trafficking of GAD65 from Golgi membranes to axon-specific endosomes and a Rab5a-dependent pathway to presynaptic clusters.
We propose a model in which synaptic activity leads to Rab5 activation, which in turn drives the removal of AMPA receptors from synapses.
Title: NMDA receptor-dependent activation of the small GTPase Rab5 drives the removal of synaptic AMPA receptors during hippocampal LTD.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH136188 (e-PCR)
- UniSTS:210183

RH136456 (e-PCR)
- UniSTS:210442

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein activity	IEA Inferred from Electronic Annotation more info
enables GDP binding	ISO Inferred from Sequence Orthology more info
enables GDP-dissociation inhibitor binding	IDA Inferred from Direct Assay more info	PubMed
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables GTP binding	ISO Inferred from Sequence Orthology more info
enables GTPase activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activity	IEA Inferred from Electronic Annotation more info
enables GTPase activity	ISO Inferred from Sequence Orthology more info
enables guanyl nucleotide binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in amyloid-beta clearance by transcytosis	ISO Inferred from Sequence Orthology more info
involved_in canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in early endosome to late endosome transport	ISO Inferred from Sequence Orthology more info
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in endocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endocytosis	ISO Inferred from Sequence Orthology more info
involved_in endocytosis	ISO Inferred from Sequence Orthology more info
involved_in endosome organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in phagocytosis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of exocytosis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smooth muscle cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of smooth muscle cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in postsynaptic neurotransmitter receptor internalization	IDA Inferred from Direct Assay more info	PubMed
involved_in postsynaptic neurotransmitter receptor internalization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in receptor internalization	ISO Inferred from Sequence Orthology more info
involved_in regulation of endosome size	ISO Inferred from Sequence Orthology more info
involved_in regulation of filopodium assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of long-term neuronal synaptic plasticity	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of long-term neuronal synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of synaptic vesicle exocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of synaptic vesicle exocytosis	ISS Inferred from Sequence or Structural Similarity more info
involved_in synaptic vesicle endocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in synaptic vesicle endocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synaptic vesicle recycling	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon terminus	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of early endosome membrane	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in dendrite	IBA Inferred from Biological aspect of Ancestor more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome	IEA Inferred from Electronic Annotation more info
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in early phagosome	ISO Inferred from Sequence Orthology more info
located_in early phagosome	ISS Inferred from Sequence or Structural Similarity more info
located_in endocytic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in endomembrane system	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome	IDA Inferred from Direct Assay more info	PubMed
located_in endosome	ISO Inferred from Sequence Orthology more info
located_in endosome membrane	ISO Inferred from Sequence Orthology more info
located_in exocytic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in lipid droplet	ISO Inferred from Sequence Orthology more info
located_in melanosome	IEA Inferred from Electronic Annotation more info
located_in membrane raft	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in phagocytic vesicle	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle	ISS Inferred from Sequence or Structural Similarity more info
located_in phagocytic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic early endosome	IBA Inferred from Biological aspect of Ancestor more info
is_active_in postsynaptic endocytic zone membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic endocytic zone membrane	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in presynaptic endosome	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic endosome	IMP Inferred from Mutant Phenotype more info	PubMed
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
located_in recycling endosome	IDA Inferred from Direct Assay more info	PubMed
located_in ruffle	ISO Inferred from Sequence Orthology more info
located_in somatodendritic compartment	IDA Inferred from Direct Assay more info	PubMed
located_in somatodendritic compartment	ISO Inferred from Sequence Orthology more info
located_in sorting endosome	ISO Inferred from Sequence Orthology more info
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
is_active_in synaptic vesicle membrane	EXP Inferred from Experiment more info	PubMed
is_active_in synaptic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in synaptic vesicle membrane	IMP Inferred from Mutant Phenotype more info	PubMed
located_in terminal bouton	HDA more info	PubMed
located_in terminal bouton	ISO Inferred from Sequence Orthology more info
located_in terminal bouton	ISS Inferred from Sequence or Structural Similarity more info
located_in zymogen granule membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: ras-related protein Rab-5A

Names: small GTP-binding protein rab5

NP_073183.1

EC 3.6.5.2

XP_038940106.1

EC 3.6.5.2

XP_038940109.1

EC 3.6.5.2

XP_063123761.1

EC 3.6.5.2

XP_063123762.1

EC 3.6.5.2

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)

NM_022692.2 → NP_073183.1 ras-related protein Rab-5A

See identical proteins and their annotated locations for NP_073183.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A0A8I5ZS76, A0A8I6A5S3

Conserved Domains (1) summary

cd01860
Location:20 → 182

Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

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

NC_086027.1 Reference GRCr8

Range

6720057..6749456

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039084178.2 → XP_038940106.1 ras-related protein Rab-5A isoform X1

UniProtKB/TrEMBL

A0A8I5ZS76, A0A8I6A5S3

Conserved Domains (1) summary

cd01860
Location:20 → 182

Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion
XM_039084181.2 → XP_038940109.1 ras-related protein Rab-5A isoform X3
XM_063267691.1 → XP_063123761.1 ras-related protein Rab-5A isoform X1

UniProtKB/TrEMBL

A0A8I5ZS76

Related

ENSRNOP00000080027.1, ENSRNOT00000108726.2
XM_063267692.1 → XP_063123762.1 ras-related protein Rab-5A isoform X2