Cabp1 calcium binding protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Cabp1provided by RGD
Full Name: calcium binding protein 1provided by RGD
Primary source: RGD:620385
See related: EnsemblRapid:ENSRNOG00000001173 AllianceGenome:RGD:620385
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 several functions, including nuclear localization sequence binding activity; transmembrane transporter binding activity; and type 3 metabotropic glutamate receptor binding activity. Involved in negative regulation of cell communication by electrical coupling; negative regulation of transport; and postsynapse to nucleus signaling pathway. Located in several cellular components, including neuronal cell body; postsynaptic density; and subplasmalemmal coating. Part of protein-containing complex. Is active in glutamatergic synapse and postsynaptic density, intracellular component. Biomarker of temporal lobe epilepsy. Orthologous to human CABP1 (calcium binding protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 133.9), Liver (RPKM 17.0) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (47045914..47109614)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (41385234..41448930)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (47185449..47209785)

Chromosome 12 - NC_086030.1 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 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?

Data suggest that during the transition from the apo to the holo state, guided by the stepwise filling of Ca2+, caldendrin passes through distinct states and acquires a stable conformational state when only binding site EF3 (one of four EF-hand motifs) is occupied by Ca2+.
Title: Intermotif Communication Induces Hierarchical Ca(2+) Filling of Caldendrin.
Caldendrin exhibits very little change in surface hydrophobicity and secondary as well as tertiary structure upon Ca2+-binding to Mg2+-saturated protein.
Title: Molecular dynamics of the neuronal EF-hand Ca2+-sensor Caldendrin.
that InsP3 attenuates cross-linking, whereas CaBP1 promotes it. We conclude that CaBP1 inhibits InsP3R activity by restricting the intersubunit movements that initiate gating.
Title: CaBP1, a neuronal Ca2+ sensor protein, inhibits inositol trisphosphate receptors by clamping intersubunit interactions.
these results indicate the importance of CaBP1 in signal cross talk at presynaptic group III mGluRs, which includes many molecules such as cAMP, Ca(2+), PKC, G protein, and Munc18-1.
Title: Ca2+-dependent binding of calcium-binding protein 1 to presynaptic group III metabotropic glutamate receptors and blockage by phosphorylation of the receptors.
CIB1 and CaBP1 bind to the myo1c IQ motifs in the regulatory domain where they compete with calmodulin for binding; it is proposed that these proteins may play a role in specifying subcellular localization of myo1c
Title: CIB1 and CaBP1 bind to the myo1c regulatory domain.
the importance of CaBP1s in modulating the stimulus-secretion coupling in excitable cells.
Title: Ca2+ binding protein-1 inhibits Ca2+ currents and exocytosis in bovine chromaffin cells.
enhances inactivation, causes a depolarizing shift in the voltage dependence of activation, and does not support Ca2+-dependent facilitation of Ca(v)2.1 channels
Title: Differential modulation of Ca(v)2.1 channels by calmodulin and Ca2+-binding protein 1.
nonmyristoylated CaBP1 and VILIP-2 bind to CaV2.1 channels and regulate them like CaM, whereas myristoylation allows differential, Ca2+-independent regulation by the inactive EF-hands of CaBP1 and VILIP-2
Title: Differential regulation of CaV2.1 channels by calcium-binding protein 1 and visinin-like protein-2 requires N-terminal myristoylation.
The calcium sensor protein caldendrin is abundantly expressed in neurons and is thought to play an important role in different aspects of synapto-dendritic Ca2+ signaling.
Title: Neuronal Ca2+ signaling via caldendrin and calneurons.
Caldendrin is a neuronal calcium-binding protein. Two additional splice variants derive from the caldendrin gene, which have unrelated N-termini were identified in neurohypophyseal axons and on secretory granules of endocrine cells.
Title: Association of Caldendrin splice isoforms with secretory vesicles in neurohypophyseal axons and the pituitary.

Submit: New GeneRIF Correction See all GeneRIFs (11)

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium channel regulator activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables calcium-dependent protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables calcium-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables nuclear localization sequence binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed
enables transmembrane transporter binding	IPI Inferred from Physical Interaction more info	PubMed
enables type 3 metabotropic glutamate receptor binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in modification of postsynaptic actin cytoskeleton	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell communication by electrical coupling	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of protein import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of voltage-gated calcium channel activity	IDA Inferred from Direct Assay more info	PubMed
involved_in postsynapse to nucleus signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in postsynapse to nucleus signaling pathway	IEP Inferred from Expression Pattern more info	PubMed
involved_in postsynapse to nucleus signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of synaptic plasticity	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of voltage-gated calcium channel activity	IDA Inferred from Direct Assay more info	PubMed
involved_in visual perception	IBA Inferred from Biological aspect of Ancestor more info
involved_in visual perception	ISO Inferred from Sequence Orthology more info
involved_in visual perception	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
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
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density, intracellular component	IDA Inferred from Direct Assay more info	PubMed
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
located_in secretory granule	IDA Inferred from Direct Assay more info	PubMed
located_in subplasmalemmal coating	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: calcium-binding protein 1

Names: caldendrin

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_001033675.1 → NP_001028847.1 calcium-binding protein 1 isoform 2

See identical proteins and their annotated locations for NP_001028847.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) has an alternate 5' exon, as compared to variant 3. The encoded isoform 2 has a distinct and shorter N-terminus, as compared to isoform 3.

Source sequence(s)

AI111711, AJ315761, BF523318

UniProtKB/TrEMBL

A6J1W4

Related

ENSRNOP00000033685.3, ENSRNOT00000039281.6

Conserved Domains (1) summary

PTZ00184
Location:18 → 165

PTZ00184; calmodulin; Provisional
NM_001033676.1 → NP_001028848.1 calcium-binding protein 1 isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) is the longest transcript and encodes the longest isoform (3).

Source sequence(s)

AI111711, Y17048

UniProtKB/Swiss-Prot

O88751, Q711K8, Q91WZ7

UniProtKB/TrEMBL

A0A140TA91

Related

ENSRNOP00000001551.7, ENSRNOT00000001551.9

Conserved Domains (2) summary

PTZ00184
Location:201 → 348

PTZ00184; calmodulin; Provisional

cd00051
Location:286 → 349

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
NM_133529.2 → NP_598213.1 calcium-binding protein 1 isoform 1

See identical proteins and their annotated locations for NP_598213.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) has an alternate 5' sequence, as compared to variant 3. The encoded isoform 1 has a distinct and shorter N-terminus, as compared to isoform 3.

Source sequence(s)

AI111711, AJ315657, BF523318

UniProtKB/TrEMBL

A0A8I5YC82, A6J1W3

Related

ENSRNOP00000001552.3, ENSRNOT00000001552.9

Conserved Domains (2) summary

PTZ00184
Location:78 → 225

PTZ00184; calmodulin; Provisional

cd00051
Location:163 → 226

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

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_086030.1 Reference GRCr8

Range

47045914..47109614

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039089041.2 → XP_038944969.1 calcium-binding protein 1 isoform X1

Conserved Domains (1) summary

PTZ00184
Location:61 → 208

PTZ00184; calmodulin; Provisional