Atp2b2 ATPase plasma membrane Ca2+ transporting 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atp2b2provided by RGD
Official Full Name: ATPase plasma membrane Ca2+ transporting 2provided by RGD
Primary source: RGD:2176
See related: Ensembl:ENSRNOG00000030269 AllianceGenome:RGD:2176
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: PMCA2
Summary: Enables several functions, including ATP binding activity; P-type calcium transporter activity; and PDZ domain binding activity. Involved in brain development and neural retina development. Located in several cellular components, including apical plasma membrane; neuronal cell body membrane; and synaptic membrane. Is active in GABA-ergic synapse; glutamatergic synapse; and parallel fiber to Purkinje cell synapse. Is integral component of postsynaptic density membrane and integral component of presynaptic active zone membrane. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness 12. Orthologous to human ATP2B2 (ATPase plasma membrane Ca2+ transporting 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 654.1) and Liver (RPKM 48.2) See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (148450207..148763653, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (146894602..147208060, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (145704779..145948997, complement)

Chromosome 4 - NC_086022.1 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

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

[Estradiol regulates the expression of plasma membrane Ca[2+]-ATPase isoform 2 in inner ear of rats].
Title: [Estradiol regulates the expression of plasma membrane Ca(2+)-ATPase isoform 2 in inner ear of rats].
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.
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.
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.
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).
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.
Results demonstrate a significant impairment of cell survival under conditions of PMCA2 suppression. Overexpression of PMCA2 rendered the neurons significantly resistant to complex I inhibition.
Title: Downregulation of PMCA2 increases the vulnerability of midbrain neurons to mitochondrial complex I inhibition.
The distribution of PMCA2 at different cochlear locations during development was quantified.
Title: The development, distribution and density of the plasma membrane calcium ATPase 2 calcium pump in rat cochlear hair cells.
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.
Spiral ganglion cells from newborn rats strongly expresses PMCA2.
Title: [Expression of plasma membrane Ca²(+)-ATPase isoform 2 in spiral ganglion cells of newborn rats].

Submit: New GeneRIF Correction See all GeneRIFs (23)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH142691 (e-PCR)
- UniSTS:231938

D3S3990 (e-PCR)
- UniSTS:43011

Atp2b2 (e-PCR), detects polymorphism
- UniSTS:141130

D6Mit141 (e-PCR), detects polymorphism
- UniSTS:130683

D3S2930E (e-PCR)
- UniSTS:150914

RH94465 (e-PCR)
- UniSTS:119713

RH141415 (e-PCR)
- UniSTS:223409

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IDA Inferred from Direct Assay more info	PubMed
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	ISO Inferred from Sequence Orthology more info
enables ATP binding	ISS Inferred from Sequence or Structural Similarity 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	IDA Inferred from Direct Assay more info	PubMed
enables P-type calcium transporter activity	IEA Inferred from Electronic Annotation more info
enables P-type calcium transporter activity	ISO Inferred from Sequence Orthology more info
enables P-type calcium transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables P-type calcium transporter activity	TAS Traceable Author Statement more info	PubMed
enables P-type calcium transporter activity involved in regulation of postsynaptic 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 PDZ domain binding	ISO Inferred from Sequence Orthology more info
enables PDZ domain binding	ISS Inferred from Sequence or Structural Similarity more info
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables calcium-dependent ATPase activity	ISO Inferred from Sequence Orthology more info
enables calmodulin binding	ISO Inferred from Sequence Orthology more info
enables calmodulin binding	ISS Inferred from Sequence or Structural Similarity more info
enables glutamate receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within auditory receptor cell stereocilium organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cGMP metabolic process	ISO Inferred from Sequence Orthology more info
involved_in calcium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within calcium ion transport	ISO Inferred from Sequence Orthology more info
involved_in calcium ion transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellar Purkinje cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellar Purkinje cell layer morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellar granule cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebellum development	ISO Inferred from Sequence Orthology more info
involved_in cochlea development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within detection of mechanical stimulus involved in sensory perception of sound	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment of localization in cell	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear receptor cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intracellular calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lactation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within locomotion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in neural retina development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within neuromuscular process controlling balance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron cellular homeostasis	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in neuron differentiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within otolith mineralization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of calcium ion transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cell size	ISO Inferred from Sequence Orthology more info
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 postsynaptic cytosolic calcium ion concentration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of synaptic plasticity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sensory perception of sound	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of sound	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of sound	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within serotonin metabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within synapse organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in GABA-ergic synapse	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	IEA Inferred from Electronic Annotation more info
located_in cilium	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in dendritic spine membrane	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
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 neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body membrane	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
is_active_in photoreceptor ribbon synapse	ISO Inferred from Sequence Orthology more info
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 plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	TAS Traceable Author Statement more info
is_active_in postsynaptic density membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic active zone membrane	EXP Inferred from Experiment more info	PubMed
is_active_in presynaptic active zone membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: plasma membrane calcium-transporting ATPase 2

Names: ATPase, Ca++ transporting, plasma membrane 2; plasma membrane Ca++-ATPase; plasma membrane calcium ATPase; plasma membrane calcium pump

NP_036640.1

EC 7.2.2.10

XP_063141541.1

EC 7.2.2.10

XP_063141542.1

EC 7.2.2.10

XP_063141543.1

EC 7.2.2.10

XP_063141544.1

EC 7.2.2.10

XP_063141545.1

EC 7.2.2.10

XP_063141546.1

EC 7.2.2.10

XP_063141547.1

EC 7.2.2.10

XP_063141548.1

EC 7.2.2.10

XP_063141549.1

EC 7.2.2.10

XP_063141550.1

EC 7.2.2.10

XP_063141551.1

EC 7.2.2.10

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_012508.9 → NP_036640.1 plasma membrane calcium-transporting ATPase 2

See identical proteins and their annotated locations for NP_036640.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

A0A8L2QTH1

Related

ENSRNOP00000091175.1, ENSRNOT00000115111.1

Conserved Domains (7) summary

TIGR01517
Location:12 → 1042

ATPase-IIB_Ca; plasma-membrane calcium-translocating P-type ATPase

pfam00122
Location:161 → 443

E1-E2_ATPase; E1-E2 ATPase

pfam00689
Location:858 → 1036

Cation_ATPase_C; Cation transporting ATPase, C-terminus

pfam00690
Location:51 → 113

Cation_ATPase_N; Cation transporter/ATPase, N-terminus

pfam12424
Location:1081 → 1128

ATP_Ca_trans_C; Plasma membrane calcium transporter ATPase C terminal

pfam12710
Location:645 → 784

HAD; haloacid dehalogenase-like hydrolase

pfam13246
Location:504 → 593

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

NC_086022.1 Reference GRCr8

Range

148450207..148763653 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063285479.1 → XP_063141549.1 plasma membrane calcium-transporting ATPase 2 isoform X6

UniProtKB/TrEMBL

A0A8I6ANJ1
XM_063285480.1 → XP_063141550.1 plasma membrane calcium-transporting ATPase 2 isoform X7

UniProtKB/TrEMBL

A0A8I6ADD4
XM_063285473.1 → XP_063141543.1 plasma membrane calcium-transporting ATPase 2 isoform X2
XM_063285471.1 → XP_063141541.1 plasma membrane calcium-transporting ATPase 2 isoform X1

UniProtKB/Swiss-Prot

P11506, Q63443
XM_063285477.1 → XP_063141547.1 plasma membrane calcium-transporting ATPase 2 isoform X5
XM_063285474.1 → XP_063141544.1 plasma membrane calcium-transporting ATPase 2 isoform X2
XM_063285472.1 → XP_063141542.1 plasma membrane calcium-transporting ATPase 2 isoform X1

UniProtKB/Swiss-Prot

P11506, Q63443
XM_063285481.1 → XP_063141551.1 plasma membrane calcium-transporting ATPase 2 isoform X8
XM_063285475.1 → XP_063141545.1 plasma membrane calcium-transporting ATPase 2 isoform X3

UniProtKB/TrEMBL

D4A8B3
XM_063285478.1 → XP_063141548.1 plasma membrane calcium-transporting ATPase 2 isoform X5
XM_063285476.1 → XP_063141546.1 plasma membrane calcium-transporting ATPase 2 isoform X4