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    Atp2b3 ATPase plasma membrane Ca2+ transporting 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29599, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Atp2b3provided by RGD
    Official Full Name
    ATPase plasma membrane Ca2+ transporting 3provided by RGD
    Primary source
    RGD:621304
    See related
    EnsemblRapid:ENSRNOG00000061304 AllianceGenome:RGD:621304
    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
    Also known as
    Pmca3
    Summary
    Enables PDZ domain binding activity. Involved in neural retina development. Located in parallel fiber. Is active in glutamatergic synapse; parallel fiber to Purkinje cell synapse; and presynaptic membrane. Human ortholog(s) of this gene implicated in X-linked spinocerebellar ataxia 1. Orthologous to human ATP2B3 (ATPase plasma membrane Ca2+ transporting 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 168.3), Adrenal (RPKM 127.6) and 2 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Atp2b3 in Genome Data Viewer
    Location:
    Xq37
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (156367582..156464085)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (151216483..151289069)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (157236400..157312028, complement)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene HAUS augmin-like complex, subunit 7 Neighboring gene biglycan Neighboring gene cyclin Q, pseudogene 1 Neighboring gene ribosomal protein L28 like 2 Neighboring gene dual specificity phosphatase 9

    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. Structure of the rat plasma membrane Ca(2+)-ATPase isoform 3 gene and characterization of alternative splicing and transcription products. Skeletal muscle-specific splicing results in a plasma membrane Ca(2+)-ATPase with a novel calmodulin-binding domain. Burk SE, et al. J Biol Chem, 1992 Sep 25. PMID 1388171
    2. Molecular cloning of a third isoform of the calmodulin-sensitive plasma membrane Ca2+-transporting ATPase that is expressed predominantly in brain and skeletal muscle. Greeb J, et al. J Biol Chem, 1989 Nov 5. PMID 2530223
    3. Spontaneous shaker rat mutant - a new model for X-linked tremor/ataxia. Figueroa KP, et al. Dis Model Mech, 2016 May 1. PMID 27013529, Free PMC Article
    4. Analysis of the 5' end of the rat plasma membrane Ca(2+)-ATPase isoform 3 gene and identification of extensive trinucleotide repeat sequences in the 5' untranslated region. Burk SE, et al. Biochim Biophys Acta, 1995 Dec 13. PMID 8541282
    5. Silencing of plasma membrane Ca2+-ATPase isoforms 2 and 3 impairs energy metabolism in differentiating PC12 cells. Boczek T, et al. Biomed Res Int, 2014. PMID 25276815, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Although modification of PMCAs composition could provide some protection against calcium overload, reduction of PMCA2 appeared to be more detrimental to the cells than deficiency of PMCA3. Under pathological conditions, including inflammatory CCL5 action and long-lasting Ca(2+) dyshomeostasis, insufficient cell protection may result in progressive degeneration and death of neurons.
      Title: Calcium Dyshomeostasis Alters CCL5 Signaling in Differentiated PC12 Cells.
    2. higher occupancy of Calm2 and Calm3 promoters by NFATc2 and increased expression of these genes in response to NFATc2 silencing were demonstrated in PMCA2 and PMCA3-reduced lines.
      Title: Cross talk among PMCA, calcineurin and NFAT transcription factors in control of calmodulin gene expression in differentiating PC12 cells.
    3. The results with PMCA2- or PMCA3-downregulated lines provide an evidence of a novel role of PMCA isoforms in regulation of bioenergetic pathways.
      Title: Silencing of plasma membrane Ca2+-ATPase isoforms 2 and 3 impairs energy metabolism in differentiating PC12 cells.
    4. GlyT2 activity is pre-synaptically controlled by physical and functional association with plasma membrane PMCA2, PMCA3, and NCX1.
      Title: Presynaptic control of glycine transporter 2 (GlyT2) by physical and functional association with plasma membrane Ca2+-ATPase (PMCA) and Na+-Ca2+ exchanger (NCX).
    5. Plasma membrane PMCA2 and PMCA3 regulate cellular pH homeostasis in differentiating adrenal chromaffin cell line in a manner dependent on cytosolic Ca2+ elevations.
      Title: Plasma membrane Ca2+-ATPase isoforms composition regulates cellular pH homeostasis in differentiating PC12 cells in a manner dependent on cytosolic Ca2+ elevations.
    6. Results suggest that PMCA2 and PMCA3 function is rather related to regulation of GABA synthesis and degradation than supplying cells with metabolites, which can be potentially energetic source.
      Title: GABA-shunt enzymes activity in GH3 cells with reduced level of PMCA2 or PMCA3 isoform.
    7. Changes in islet plasma membrane calcium-ATPase activity and Atp2b3 protein isoform expression induced by insulin resistance are reported.
      Title: Changes in islet plasma membrane calcium-ATPase activity and isoform expression induced by insulin resistance.
    8. PMCA3 is targeted to distinct compartments within the plasma membrane. In the molecular layer, this isoform was at highest levels within presynaptic profiles of the cerebellar cortex.
      Title: Perisynaptic organization of plasma membrane calcium pumps in cerebellar cortex.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables P-type calcium transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables P-type calcium transporter activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables P-type calcium transporter activity involved in regulation of presynaptic cytosolic calcium ion concentration IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables P-type calcium transporter activity involved in regulation of presynaptic cytosolic calcium ion concentration ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables PDZ domain binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables calcium ion transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables calmodulin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in calcium ion export across plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in calcium ion export across plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in calcium ion export across plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in calcium ion transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neural retina development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in regulation of cytosolic calcium ion concentration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cytosolic calcium ion concentration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of presynaptic cytosolic calcium ion concentration IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in GABA-ergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in GABA-ergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in parallel fiber IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in parallel fiber to Purkinje cell synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in parallel fiber to Purkinje cell synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in presynapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in presynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in presynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    plasma membrane calcium-transporting ATPase 3
    Names
    ATPase, Ca++ transporting, plasma membrane 3
    plasma membrane calcium ATPase
    plasma membrane calcium pump
    NP_579822.1
    XP_008771842.1
    XP_038955468.1
    XP_038955469.1
    XP_038955470.1
    XP_038955471.1
    XP_038955473.1
    XP_038955475.1
    XP_038955477.1
    XP_063135923.1
    XP_063135924.1
    XP_063135925.1
    XP_063135926.1
    XP_063135927.1
    XP_063135928.1
    XP_063135929.1
    XP_063135931.1
    XP_063135932.1
    XP_063135933.1

    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_001431572.1 → NP_001418501.1  plasma membrane calcium-transporting ATPase 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/TrEMBL
      A0A0G2K9Q6

    2. NM_001431573.1 → NP_001418502.1  plasma membrane calcium-transporting ATPase 3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021

    3. NM_133288.3 → NP_579822.1  plasma membrane calcium-transporting ATPase 3 isoform 3

      See identical proteins and their annotated locations for NP_579822.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/Swiss-Prot
      Q01489, Q63444, Q64568
      UniProtKB/TrEMBL
      A6KRX9
      Related
      ENSRNOP00000083651.2, ENSRNOT00000098998.2
      Conserved Domains (7) summary
      TIGR01517
      Location:19 → 1047
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam00122
      Location:164 → 448
      E1-E2_ATPase; E1-E2 ATPase
      pfam00689
      Location:863 → 1041
      Cation_ATPase_C; Cation transporting ATPase, C-terminus
      pfam00690
      Location:51 → 121
      Cation_ATPase_N; Cation transporter/ATPase, N-terminus
      pfam12424
      Location:1086 → 1138
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal
      pfam12710
      Location:670 → 789
      HAD; haloacid dehalogenase-like hydrolase
      pfam13246
      Location:509 → 598
      Cation_ATPase; Cation transport ATPase (P-type)

    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_086039.1 Reference GRCr8

      Range
      156367582..156464085
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279857.1 → XP_063135927.1  plasma membrane calcium-transporting ATPase 3 isoform X13

    2. XM_039099540.2 → XP_038955468.1  plasma membrane calcium-transporting ATPase 3 isoform X1

      UniProtKB/Swiss-Prot
      Q01489, Q63444, Q64568
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1142
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1181 → 1256
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    3. XM_039099541.2 → XP_038955469.1  plasma membrane calcium-transporting ATPase 3 isoform X2

      UniProtKB/Swiss-Prot
      Q01489, Q63444, Q64568
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1128
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1167 → 1242
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    4. XM_039099545.2 → XP_038955473.1  plasma membrane calcium-transporting ATPase 3 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZTE0
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1142
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1181 → 1195
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    5. XM_039099542.2 → XP_038955470.1  plasma membrane calcium-transporting ATPase 3 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZTE0
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1142
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1181 → 1227
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    6. XM_039099547.2 → XP_038955475.1  plasma membrane calcium-transporting ATPase 3 isoform X9

      UniProtKB/TrEMBL
      A0A8I5ZTE0
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1142
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1181 → 1196
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    7. XM_039099549.2 → XP_038955477.1  plasma membrane calcium-transporting ATPase 3 isoform X11

      UniProtKB/TrEMBL
      A0A8I5ZTE0
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1142
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1181 → 1195
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    8. XM_039099543.2 → XP_038955471.1  plasma membrane calcium-transporting ATPase 3 isoform X4

      UniProtKB/Swiss-Prot
      Q01489, Q63444, Q64568
      Conserved Domains (2) summary
      TIGR01517
      Location:19 → 1142
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam12424
      Location:1181 → 1226
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

    9. XM_063279853.1 → XP_063135923.1  plasma membrane calcium-transporting ATPase 3 isoform X5

      Related
      ENSRNOP00000098551.2, ENSRNOT00000120993.2

    10. XM_063279854.1 → XP_063135924.1  plasma membrane calcium-transporting ATPase 3 isoform X8

      UniProtKB/TrEMBL
      A6KRX8
      Related
      ENSRNOP00000081864.1, ENSRNOT00000115963.2

    11. XM_008773620.4 → XP_008771842.1  plasma membrane calcium-transporting ATPase 3 isoform X6

      UniProtKB/Swiss-Prot
      Q01489, Q63444, Q64568
      Conserved Domains (7) summary
      TIGR01517
      Location:19 → 1047
      ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase
      pfam00122
      Location:164 → 448
      E1-E2_ATPase; E1-E2 ATPase
      pfam00689
      Location:863 → 1041
      Cation_ATPase_C; Cation transporting ATPase, C-terminus
      pfam00690
      Location:51 → 121
      Cation_ATPase_N; Cation transporter/ATPase, N-terminus
      pfam12424
      Location:1086 → 1162
      ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal
      pfam12710
      Location:670 → 789
      HAD; haloacid dehalogenase-like hydrolase
      pfam13246
      Location:509 → 598
      Cation_ATPase; Cation transport ATPase (P-type)

    12. XM_063279855.1 → XP_063135925.1  plasma membrane calcium-transporting ATPase 3 isoform X10

    13. XM_063279861.1 → XP_063135931.1  plasma membrane calcium-transporting ATPase 3 isoform X16

      Related
      ENSRNOP00000071471.3, ENSRNOT00000077979.3

    14. XM_063279858.1 → XP_063135928.1  plasma membrane calcium-transporting ATPase 3 isoform X14

    15. XM_063279862.1 → XP_063135932.1  plasma membrane calcium-transporting ATPase 3 isoform X17

      UniProtKB/TrEMBL
      A0A8L2UQ79

    16. XM_063279863.1 → XP_063135933.1  plasma membrane calcium-transporting ATPase 3 isoform X18

    17. XM_063279856.1 → XP_063135926.1  plasma membrane calcium-transporting ATPase 3 isoform X12

      Related
      ENSRNOP00000075088.3, ENSRNOT00000078100.3

    18. XM_063279859.1 → XP_063135929.1  plasma membrane calcium-transporting ATPase 3 isoform X15

      UniProtKB/TrEMBL
      A6KRX9
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q64568.2 GenPept UniProtKB/Swiss-Prot:Q64568

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