SLC39A3 Gene

HGNC Family	Solute carriers (SLC)
Name	solute carrier family 39 (zinc transporter), member 3
Description	Predicted to enable zinc ion transmembrane transporter activity. Predicted to be involved in zinc ion transmembrane transport. Predicted to act upstream of or within several processes, including T cell homeostasis; chordate embryonic development; and zinc ion transport. Predicted to be located in hippocampal mossy fiber to CA3 synapse. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Mar 2025]
Summary	{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nSLC39A3, also known as ZIP3, is a member of the ZIP family of zinc transporters that facilitates the uptake of zinc into cells. Studies in mice and humans have shown that this eight‐transmembrane domain protein exhibits a tissue-selective expression pattern, suggesting a role in maintaining cell-specific zinc homeostasis rather than serving as the primary mediator for dietary zinc acquisition."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nIn glandular tissues such as the prostate and pancreas, ZIP3 is critical for accumulating zinc at the cellular level. In normal prostate epithelium, ZIP3 works alongside other zinc transporters to sustain the high zinc levels essential for glandular function, while in malignant prostate cells a downregulation of this transporter has been observed. Similarly, in the pancreas, ZIP3 is localized to the basilar membrane of ductal and acinar cells, and its silencing correlates with the marked loss of zinc in pancreatic adenocarcinoma, implicating ZIP3 as a contributor to the early events of malignant transformation by reducing zinc’s potential tumor suppressor effects."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "2", "end_ref": "4"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nBeyond its implications in cancer, alterations in ZIP3 expression are also observed in metabolic contexts. For example, while moderate zinc supplementation in elderly subjects improves intracellular zinc status and a balanced immune response, analyses in obese patients have revealed differential expression of ZIP3 compared with other zinc transporters and metallothionein, underscoring the transporter's role in maintaining systemic zinc equilibrium."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Jodi Dufner-Beattie, S Joshua Langmade, Fudi Wang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Structure, function, and regulation of a subfamily of mouse zinc transporter genes."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2003)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M304163200"}], "href": "https://doi.org/10.1074/jbc.M304163200"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "14525987"}], "href": "https://pubmed.ncbi.nlm.nih.gov/14525987"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Mohamed M Desouki, Joseph Geradts, Beatrice Milon, et al. "}, {"type": "b", "children": [{"type": "t", "text": "hZip2 and hZip3 zinc transporters are down regulated in human prostate adenocarcinomatous glands."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cancer (2007)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/1476-4598-6-37"}], "href": "https://doi.org/10.1186/1476-4598-6-37"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "17550612"}], "href": "https://pubmed.ncbi.nlm.nih.gov/17550612"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Leslie C Costello, Bernard A Levy, Mohamed M Desouki, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Decreased zinc and downregulation of ZIP3 zinc uptake transporter in the development of pancreatic adenocarcinoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cancer Biol Ther (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.4161/cbt.12.4.16356"}], "href": "https://doi.org/10.4161/cbt.12.4.16356"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21613827"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21613827"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Leslie C Costello, Jing Zou, Mohamed Mokhtar Desouki, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Evidence for changes in RREB-1, ZIP3, and Zinc in the early development of pancreatic adenocarcinoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Gastrointest Cancer (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s12029-012-9378-1"}], "href": "https://doi.org/10.1007/s12029-012-9378-1"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22427155"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22427155"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Laura Kahmann, Peter Uciechowski, Sabine Warmuth, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Zinc supplementation in the elderly reduces spontaneous inflammatory cytokine release and restores T cell functions."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Rejuvenation Res (2008)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1089/rej.2007.0613"}], "href": "https://doi.org/10.1089/rej.2007.0613"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "18279033"}], "href": "https://pubmed.ncbi.nlm.nih.gov/18279033"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Paula Beatriz Krebsky dos Santos Rocha, Amanda de Castro Amorim, Artemizia Francisca de Sousa, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Expression of the zinc transporters genes and metallothionein in obese women."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biol Trace Elem Res (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s12011-010-8887-7"}], "href": "https://doi.org/10.1007/s12011-010-8887-7"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21053094"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21053094"}]}]}]}
Synonyms	ZIP-3
Proteins	S39A3_HUMAN
NCBI Gene ID	29985
API
Download Associations
Predicted Functions
Co-expressed Genes
Expression in Tissues and Cell Lines

Functional Associations

SLC39A3 has 4,866 functional associations with biological entities spanning 8 categories (molecular profile, organism, functional term, phrase or reference, chemical, disease, phenotype or trait, structural feature, cell line, cell type or tissue, gene, protein or microRNA) extracted from 108 datasets.

Click the + buttons to view associations for SLC39A3 from the datasets below.

If available, associations are ranked by standardized value

Harmonizome 3.0

SLC39A3 Gene

Functional Associations

Please acknowledge the Harmonizome in your publications by citing the following reference(s):

	Dataset	Summary
	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of SLC39A3 gene relative to other tissues from the Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles dataset.
	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	tissue samples with high or low expression of SLC39A3 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	tissue samples with high or low expression of SLC39A3 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	tissue samples with high or low expression of SLC39A3 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq dataset.
	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of SLC39A3 gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset.
	BioGPS Human Cell Type and Tissue Gene Expression Profiles	cell types and tissues with high or low expression of SLC39A3 gene relative to other cell types and tissues from the BioGPS Human Cell Type and Tissue Gene Expression Profiles dataset.
	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	cell types and tissues with high or low expression of SLC39A3 gene relative to other cell types and tissues from the BioGPS Mouse Cell Type and Tissue Gene Expression Profiles dataset.
	CCLE Cell Line Gene CNV Profiles	cell lines with high or low copy number of SLC39A3 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
	CCLE Cell Line Gene Expression Profiles	cell lines with high or low expression of SLC39A3 gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
	ChEA Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of SLC39A3 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
	ChEA Transcription Factor Targets	transcription factors binding the promoter of SLC39A3 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets dataset.
	ChEA Transcription Factor Targets 2022	transcription factors binding the promoter of SLC39A3 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets 2022 dataset.
	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	gene perturbations changing expression of SLC39A3 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores	cellular components containing SLC39A3 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	cellular components containing SLC39A3 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Experimental Protein Localization Evidence Scores	cellular components containing SLC39A3 protein in low- or high-throughput protein localization assays from the COMPARTMENTS Experimental Protein Localization Evidence Scores dataset.
	COMPARTMENTS Experimental Protein Localization Evidence Scores 2025	cellular components containing SLC39A3 protein in low- or high-throughput protein localization assays from the COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores	cellular components co-occuring with SLC39A3 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	cellular components co-occuring with SLC39A3 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
	COSMIC Cell Line Gene CNV Profiles	cell lines with high or low copy number of SLC39A3 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
	COSMIC Cell Line Gene Mutation Profiles	cell lines with SLC39A3 gene mutations from the COSMIC Cell Line Gene Mutation Profiles dataset.
	CTD Gene-Chemical Interactions	chemicals interacting with SLC39A3 gene/protein from the curated CTD Gene-Chemical Interactions dataset.
	CTD Gene-Disease Associations	diseases associated with SLC39A3 gene/protein from the curated CTD Gene-Disease Associations dataset.
	DeepCoverMOA Drug Mechanisms of Action	small molecule perturbations with high or low expression of SLC39A3 protein relative to other small molecule perturbations from the DeepCoverMOA Drug Mechanisms of Action dataset.
	DepMap CRISPR Gene Dependency	cell lines with fitness changed by SLC39A3 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset.
	DISEASES Text-mining Gene-Disease Association Evidence Scores	diseases co-occuring with SLC39A3 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores dataset.
	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	diseases co-occuring with SLC39A3 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset.
	DisGeNET Gene-Disease Associations	diseases associated with SLC39A3 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
	DisGeNET Gene-Phenotype Associations	phenotypes associated with SLC39A3 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Phenoptype Associations dataset.
	ENCODE Histone Modification Site Profiles	histone modification site profiles with high histone modification abundance at SLC39A3 gene from the ENCODE Histone Modification Site Profiles dataset.
	ENCODE Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of SLC39A3 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
	ENCODE Transcription Factor Targets	transcription factors binding the promoter of SLC39A3 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	PubMedIDs of publications reporting gene signatures containing SLC39A3 from the ESCAPE Omics Signatures of Genes and Proteins for Stem Cells dataset.
	GAD Gene-Disease Associations	diseases associated with SLC39A3 gene in GWAS and other genetic association datasets from the GAD Gene-Disease Associations dataset.
	GAD High Level Gene-Disease Associations	diseases associated with SLC39A3 gene in GWAS and other genetic association datasets from the GAD High Level Gene-Disease Associations dataset.
	GeneRIF Biological Term Annotations	biological terms co-occuring with SLC39A3 gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset.
	GeneSigDB Published Gene Signatures	PubMedIDs of publications reporting gene signatures containing SLC39A3 from the GeneSigDB Published Gene Signatures dataset.
	GEO Signatures of Differentially Expressed Genes for Diseases	disease perturbations changing expression of SLC39A3 gene from the GEO Signatures of Differentially Expressed Genes for Diseases dataset.
	GEO Signatures of Differentially Expressed Genes for Gene Perturbations	gene perturbations changing expression of SLC39A3 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
	GEO Signatures of Differentially Expressed Genes for Kinase Perturbations	kinase perturbations changing expression of SLC39A3 gene from the GEO Signatures of Differentially Expressed Genes for Kinase Perturbations dataset.