Rat Gene Rims1 (RGD:620000) Description and Page Index
  Description: interacts with synaptic GTP-binding protein Rab3s; may regulate exocytosis at the synapse
Transcript (Including UTRs)
   Position: rn4 chr9:21,089,088-21,594,679 Size: 505,592 Total Exon Count: 32 Strand: -
Coding Region
   Position: rn4 chr9:21,089,664-21,594,289 Size: 504,626 Coding Exon Count: 32 

Page IndexSequence and LinksRGD Gene DataUniProtKB CommentsCTDMicroarray Expression
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesMethods
Data last updated: 2011-12-07

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:21,089,088-21,594,679)mRNAProtein (1615 aa)
Gene SorterOther Species FASTAEnsemblEntrez GeneGeneNetworkPubMed
RGDStanford SOURCEUniProtKB

-  Additional Data from RGD
  RGD Gene: 620000
Gene Symbol: Rims1
Name: regulating synaptic membrane exocytosis 1
Curated Pubmed Papers: 10748113, 11438518, 11797009, 12163476, 14734538, 15543142, 16704978, 17124501, 17630786, 20130189, 9252191
Uncurated Pubmed Papers: 68912, 633666, 633421, 633897
Entrez Gene: 84556
UniProt: Q9JIR4
GenBank Nucleotide: AF007836, AF199333, CH473987, NM_052829
Genebank Protein: AAB66703, AAF81655, EDM18632, NP_439894, Q9JIR4, NP_439894.1
UniGene: 10799
Ensembl Gene: ENSRNOG00000011000

-  Comments and Description Text from UniProtKB
  ID: RIMS1_RAT
DESCRIPTION: RecName: Full=Regulating synaptic membrane exocytosis protein 1; AltName: Full=Rab-3-interacting molecule 1; Short=RIM 1;
FUNCTION: Rab effector involved in exocytosis. May act as scaffold protein that regulates neurotransmitter release at the active zone. Essential for maintaining normal probability of neurotransmitter release and for regulating release during short- term synaptic plasticity (By similarity).
SUBUNIT: Binds SNAP25, SYT1 and CACNA1B. Interaction with SYT1 is enhanced by calcium ions. Interaction with SNAP25 is weaker in the presence of calcium ions. Binds RAB3A, RAB3B and RAB3D that have been activated by GTP-binding. Binds UNC13A. Binds RIM binding proteins 1 and 2. Interacts with PPFIA3 and PPFIA4.
INTERACTION: O70368:Cacna1a; NbExp=2; IntAct=EBI-3507436, EBI-3507514; P54282:Cacna1a; NbExp=4; IntAct=EBI-3507436, EBI-3507416; O89089:Cacna1b; NbExp=2; IntAct=EBI-3507436, EBI-3507539;
SUBCELLULAR LOCATION: Cell membrane; Peripheral membrane protein. Cell junction, synapse. Cell junction, synapse, presynaptic cell membrane; Peripheral membrane protein (Potential). Note=Associated with plasma membranes from synaptic junctions. Not detected in synaptic vesicles. Detected in presynaptic nerve terminals close to the active zone. Detected in synaptic ribbons of ribbon synapses of retinal photoreceptor cells.
TISSUE SPECIFICITY: Highly expressed in hippocampus, brain cortex, cerebellum and olfactory bulb. Detected at lower levels in midbrain, hindbrain and spinal cord. Detected retina and in spinal cord motor neurons.
PTM: Phosphorylated by BRSK1.
SIMILARITY: Contains 2 C2 domains.
SIMILARITY: Contains 1 FYVE-type zinc finger.
SIMILARITY: Contains 1 PDZ (DHR) domain.
SIMILARITY: Contains 1 RabBD (Rab-binding) domain.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  Microarray Expression Data
 
Expression ratio colors:

GNF Expression Atlas 2 Data from U34A Rat Chip

      
      
      
    
     
    
   
Ratios
      
      
      
    
     
    
   
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Affymetrix All Exon Microarrays

           
Ratios

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000008 - C2_Ca-dep
IPR008973 - C2_Ca/lipid-bd_dom_CaLB
IPR018029 - C2_membr_targeting
IPR001478 - PDZ
IPR010911 - Rab-bd_domain
IPR017455 - Znf_FYVE-rel
IPR011011 - Znf_FYVE_PHD
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00168 - C2 domain
PF00595 - PDZ domain (Also known as DHR or GLGF)

Protein Data Bank (PDB) 3-D Structure
MuPIT help

1ZUB
- NMR

2Q3X
- X-ray


ModBase Predicted Comparative 3D Structure on Q9JIR4
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanMouseZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
  EnsemblFlyBaseWormBase 
  Protein SequenceProtein SequenceProtein Sequence 
  AlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0017124 SH3 domain binding
GO:0017137 Rab GTPase binding
GO:0019901 protein kinase binding
GO:0044325 ion channel binding
GO:0046872 metal ion binding

Biological Process:
GO:0006836 neurotransmitter transport
GO:0006886 intracellular protein transport
GO:0006887 exocytosis
GO:0010628 positive regulation of gene expression
GO:0010808 positive regulation of synaptic vesicle priming
GO:0030154 cell differentiation
GO:0031632 positive regulation of synaptic vesicle fusion to presynaptic membrane
GO:0048791 calcium ion-regulated exocytosis of neurotransmitter
GO:0060291 long-term synaptic potentiation
GO:0097151 positive regulation of inhibitory postsynaptic potential
GO:2000463 positive regulation of excitatory postsynaptic potential

Cellular Component:
GO:0005622 intracellular
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0030054 cell junction
GO:0042734 presynaptic membrane
GO:0045202 synapse
GO:0048786 presynaptic active zone


-  Descriptions from all associated GenBank mRNAs
  AF007836 - Rattus norvegicus rab3 effector (RIM) mRNA, alternatively spliced, complete cds.
AF199333 - Rattus norvegicus RIM1B (Rim1B) mRNA, complete cds.

-  Other Names for This Gene
  Symbol: Rim1
Name: RIM 1, Rab3 effector, Rim1 protein, Rim1b protein, rab-3-interacting molecule 1, rab3 effector, rab3-interacting molecule 1, regulating synaptic membrane exocytosis 1, regulating synaptic membrane exocytosis protein 1
RefSeq Accession: NM_052829
Protein: Q9JIR4 (aka RIMS1_RAT or RIM1_RAT)

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.