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    Necab3 N-terminal EF-hand calcium binding protein 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311562, updated on 10-Oct-2024

    Summary

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    Official Symbol
    Necab3provided by RGD
    Official Full Name
    N-terminal EF-hand calcium binding protein 3provided by RGD
    Primary source
    RGD:1310124
    See related
    EnsemblRapid:ENSRNOG00000016708 AllianceGenome:RGD:1310124
    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
    Apba2bp
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in protein metabolic process and regulation of amyloid precursor protein biosynthetic process. Predicted to be located in Golgi cis cisterna and endoplasmic reticulum membrane. Orthologous to human NECAB3 (N-terminal EF-hand calcium binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 98.7), Testes (RPKM 67.7) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Necab3 in Genome Data Viewer
    Location:
    3q41
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (163509682..163524598, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (143049477..143064372, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (150047826..150062806, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene CBFA2/RUNX1 partner transcriptional co-repressor 2 Neighboring gene ribosomal protein S10, pseudogene 7 Neighboring gene zinc finger FYVE-type containing 21, pseudogene 1 Neighboring gene similar to human chromosome 20 open reading frame 144 Neighboring gene actin-like 10 Neighboring gene E2F transcription factor 1 Neighboring gene peroxisomal membrane protein 4

    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 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. XB51 isoforms mediate Alzheimer's beta-amyloid peptide production by X11L (X11-like protein)-dependent and -independent mechanisms. Sumioka A, et al. Biochem J, 2003 Aug 15. PMID 12780348, Free PMC Article
    2. NIP1/XB51/NECAB3 is a potential substrate of Nek2, suggesting specific roles of Nek2 in Golgi. Yoo JC, et al. Exp Cell Res, 2004 Jan 15. PMID 14697346
    3. Regulation of X11L-dependent amyloid precursor protein metabolism by XB51, a novel X11L-binding protein. Lee DS, et al. J Biol Chem, 2000 Jul 28. PMID 10833507

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    N-terminal EF-hand calcium-binding protein 3
    Names
    amyloid beta (A4) precursor protein-binding, family A, member 1 binding protein
    amyloid beta (A4) precursor protein-binding, family A, member 2 binding protein

    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_001098724.1 → NP_001092194.1  N-terminal EF-hand calcium-binding protein 3

      See identical proteins and their annotated locations for NP_001092194.1

      Status: VALIDATED

      Source sequence(s)
      CB801563, CK598536, CO397705, JAXUCZ010000003
      UniProtKB/TrEMBL
      A6KHZ1, A6KHZ2, D3ZKY0
      Related
      ENSRNOP00000022115.6, ENSRNOT00000022115.9
      Conserved Domains (3) summary
      pfam03992
      Location:251 → 324
      ABM; Antibiotic biosynthesis monooxygenase
      pfam13499
      Location:30 → 56
      EF-hand_7; EF-hand domain pair
      cl08302
      Location:32 → 74
      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

    1. NC_086021.1 Reference GRCr8

      Range
      163509682..163524598 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283841.1 → XP_063139911.1  N-terminal EF-hand calcium-binding protein 3 isoform X5

    2. XM_063283840.1 → XP_063139910.1  N-terminal EF-hand calcium-binding protein 3 isoform X3

    3. XM_039105074.2 → XP_038961002.1  N-terminal EF-hand calcium-binding protein 3 isoform X4

      UniProtKB/TrEMBL
      A6KHZ1
      Conserved Domains (4) summary
      cd15898
      Location:36 → 60
      EFh_PI-PLC; EF-hand motif [structural motif]
      cl28895
      Location:36 → 174
      EFh_PI-PLC; EF-hand motif found in eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) isozymes
      pfam03992
      Location:286 → 347
      ABM; Antibiotic biosynthesis monooxygenase
      cl08302
      Location:32 → 74
      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 ...

    4. XM_039105073.2 → XP_038961001.1  N-terminal EF-hand calcium-binding protein 3 isoform X2

      UniProtKB/TrEMBL
      A6KHZ1
      Conserved Domains (4) summary
      cd15898
      Location:36 → 60
      EFh_PI-PLC; EF-hand motif [structural motif]
      cl28895
      Location:36 → 174
      EFh_PI-PLC; EF-hand motif found in eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) isozymes
      pfam03992
      Location:286 → 358
      ABM; Antibiotic biosynthesis monooxygenase
      cl08302
      Location:32 → 74
      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 ...

    5. XM_039105072.2 → XP_038961000.1  N-terminal EF-hand calcium-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A6KHZ1
      Conserved Domains (4) summary
      cd15898
      Location:35 → 61
      EFh_PI-PLC; EF-hand motif [structural motif]
      cl28895
      Location:35 → 78
      EFh_PI-PLC; EF-hand motif found in eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) isozymes
      pfam03992
      Location:286 → 358
      ABM; Antibiotic biosynthesis monooxygenase
      pfam13202
      Location:32 → 54
      EF-hand_5; EF hand

    6. XM_063283847.1 → XP_063139917.1  N-terminal EF-hand calcium-binding protein 3 isoform X11

    7. XM_063283846.1 → XP_063139916.1  N-terminal EF-hand calcium-binding protein 3 isoform X10

    8. XM_063283845.1 → XP_063139915.1  N-terminal EF-hand calcium-binding protein 3 isoform X9

    9. XM_063283844.1 → XP_063139914.1  N-terminal EF-hand calcium-binding protein 3 isoform X8

    10. XM_063283842.1 → XP_063139912.1  N-terminal EF-hand calcium-binding protein 3 isoform X6

    11. XM_063283843.1 → XP_063139913.1  N-terminal EF-hand calcium-binding protein 3 isoform X7

    Nucleotide Protein Strain
    Heading Accession and Version

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