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CNNM3 cyclin and CBS domain divalent metal cation transport mediator 3 [ Homo sapiens (human) ]

Gene ID: 26505, updated on 5-Mar-2024

Summary

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Official Symbol
CNNM3provided by HGNC
Official Full Name
cyclin and CBS domain divalent metal cation transport mediator 3provided by HGNC
Primary source
HGNC:HGNC:104
See related
Ensembl:ENSG00000168763 MIM:607804; AllianceGenome:HGNC:104
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ACDP3
Summary
Predicted to enable transmembrane transporter activity. Predicted to be involved in ion transport; magnesium ion homeostasis; and transmembrane transport. Located in membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in duodenum (RPKM 7.6), small intestine (RPKM 6.3) and 25 other tissues See more
Orthologs
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Genomic context

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See CNNM3 in Genome Data Viewer
Location:
2q11.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (96816268..96837466)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (97322898..97344098)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (97482005..97501119)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene cyclin and CBS domain divalent metal cation transport mediator 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16230 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16231 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16232 Neighboring gene microRNA 3127 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16233 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11776 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11777 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11778 Neighboring gene CNNM3 divergent transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97494389-97494889 Neighboring gene uncharacterized LOC124907859 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:97498033-97499232 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97503062-97503618 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97503619-97504173 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11779 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11780 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97507205-97507810 Neighboring gene ankyrin repeat domain 23 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:97510949-97511138 Neighboring gene ankyrin repeat domain 39 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11781 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11782

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. CNN3 in glioma: The prognostic factor and a potential immunotherapeutic target. Xu H, et al. Medicine (Baltimore), 2021 Nov 19. PMID 34797350, Free PMC Article
  2. A FRET-based screening method to detect potential inhibitors of the binding of CNNM3 to PRL2. Cai F, et al. Sci Rep, 2020 Jul 30. PMID 32733084, Free PMC Article
  3. The cyclic nucleotide-binding homology domain of the integral membrane protein CNNM mediates dimerization and is required for Mg(2+) efflux activity. Chen YS, et al. J Biol Chem, 2018 Dec 28. PMID 30341174, Free PMC Article
  4. CNNM proteins selectively bind to the TRPM7 channel to stimulate divalent cation entry into cells. Bai Z, et al. PLoS Biol, 2021 Dec. PMID 34928937, Free PMC Article
  5. Purification, crystallization and preliminary crystallographic analysis of the CBS pair of the human metal transporter CNNM4. Gómez García I, et al. Acta Crystallogr Sect F Struct Biol Cryst Commun, 2011 Mar 1. PMID 21393841, Free PMC Article

See all (56) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CNN3 in glioma: The prognostic factor and a potential immunotherapeutic target.
    Title: CNN3 in glioma: The prognostic factor and a potential immunotherapeutic target.
  2. CNNM proteins selectively bind to the TRPM7 channel to stimulate divalent cation entry into cells.
    Title: CNNM proteins selectively bind to the TRPM7 channel to stimulate divalent cation entry into cells.
  3. A FRET-based screening method to detect potential inhibitors of the binding of CNNM3 to PRL2.
    Title: A FRET-based screening method to detect potential inhibitors of the binding of CNNM3 to PRL2.
  4. This study determined the first crystal structures of the cyclic nucleotide-binding homology (CNBH) domain domains of CNNM2 and CNNM3 at 2.6 and 1.9 A resolutions.
    Title: The cyclic nucleotide-binding homology domain of the integral membrane protein CNNM mediates dimerization and is required for Mg(2+) efflux activity.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study to identify single nucleotide polymorphisms (SNPs) associated with the development of erectile dysfunction in African-American men after radiotherapy for prostate cancer.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ20018, DKFZp434I1016

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in magnesium ion homeostasis IEA
Inferred from Electronic Annotation
more info
  
involved_in monoatomic ion transport IEA
Inferred from Electronic Annotation
more info
  
involved_in transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in transport IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in membrane HDA PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
metal transporter CNNM3
Names
ancient conserved domain protein 3
ancient conserved domain-containing protein 3
cyclin-M3

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_017623.5 → NP_060093.3  metal transporter CNNM3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_060093.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC092636, AK126847
    Consensus CDS
    CCDS2025.1
    UniProtKB/Swiss-Prot
    B3KX67, Q8NE01, Q8TBV4, Q96IW4, Q9NRK4, Q9NXW6
    Related
    ENSP00000305449.3, ENST00000305510.4
    Conserved Domains (1) summary
    cd04590
    Location:313 → 442
    CBS_pair_CorC_HlyC_assoc; Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains the majority of which are associated with the CorC_HlyC domain

  2. NM_199078.3 → NP_951060.1  metal transporter CNNM3 isoform 2 precursor

    See identical proteins and their annotated locations for NP_951060.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame coding exon, compared to variant 1. The resulting isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC092636, AK126847, BC007199
    Consensus CDS
    CCDS2026.1
    UniProtKB/Swiss-Prot
    Q8NE01
    Related
    ENSP00000366260.3, ENST00000377060.7
    Conserved Domains (1) summary
    cd04590
    Location:323 → 408
    CBS_pair_CorC_HlyC_assoc; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in ...

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    96816268..96837466
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011510957.4 → XP_011509259.1  metal transporter CNNM3 isoform X2

    Conserved Domains (2) summary
    COG1253
    Location:221 → 467
    TlyC; Hemolysin or related protein, contains CBS domains [General function prediction only]
    cd04590
    Location:323 → 443
    CBS_pair_CorC_HlyC_assoc; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in ...

  2. XM_047443917.1 → XP_047299873.1  metal transporter CNNM3 isoform X6

  3. XM_047443913.1 → XP_047299869.1  metal transporter CNNM3 isoform X1

  4. XM_017003800.3 → XP_016859289.1  metal transporter CNNM3 isoform X3

  5. XM_047443915.1 → XP_047299871.1  metal transporter CNNM3 isoform X5

  6. XM_047443914.1 → XP_047299870.1  metal transporter CNNM3 isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    97322898..97344098
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054341370.1 → XP_054197345.1  metal transporter CNNM3 isoform X2

  2. XM_054341374.1 → XP_054197349.1  metal transporter CNNM3 isoform X6

  3. XM_054341369.1 → XP_054197344.1  metal transporter CNNM3 isoform X1

  4. XM_054341371.1 → XP_054197346.1  metal transporter CNNM3 isoform X3

  5. XM_054341373.1 → XP_054197348.1  metal transporter CNNM3 isoform X5

  6. XM_054341372.1 → XP_054197347.1  metal transporter CNNM3 isoform X4

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8NE01.1 GenPept UniProtKB/Swiss-Prot:Q8NE01

Gene LinkOut

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