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

Gene ID: 29599, updated on 11-Apr-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
Ensembl:ENSRNOG00000061304 AllianceGenome:RGD:621304
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
Also known as
Pmca3
Summary
Enables PDZ domain binding activity. Involved in brain development and neural retina development. Located in membrane raft and parallel fiber. Is active in glutamatergic synapse and parallel fiber to Purkinje cell synapse. Is integral component of 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, Apr 2022]
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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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. 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
  2. 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
  3. 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
  4. 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
  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 (25) 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 IBA
Inferred from Biological aspect of Ancestor
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_133288.3 → NP_579822.1  plasma membrane calcium-transporting ATPase 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
    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
    Related
    ENSRNOP00000081864.1
    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
    Related
    ENSRNOP00000071471.2
    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

    UniProtKB/TrEMBL
    A0A0G2K9Q6

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

    UniProtKB/TrEMBL
    A6KRX8

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

    UniProtKB/Swiss-Prot
    Q01489, Q63444, Q64568
    Related
    ENSRNOP00000083651.1
    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

  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

  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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