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SLC39A1 (solute carrier family 39 (zinc transporter), member 1)

Written2011-10Renty B Franklin, Leslie C Costello
Department of Oncology, Diagnostic Sciences, Dental School, The Greenebaum Cancer Center, University of Maryland, Baltimore, MD, 21201, USA

(Note : for Links provided by Atlas : click)


Alias (NCBI)ZIP1
HGNC (Hugo) SLC39A1
HGNC Alias symbZIP1
HGNC Previous nameZIRTL
HGNC Previous namezinc/iron regulated transporter-like
 solute carrier family 39 (zinc transporter), member 1
LocusID (NCBI) 27173
Atlas_Id 46571
Location 1q21.3  [Link to chromosome band 1q21]
Location_base_pair Starts at 153959110 and ends at 153967725 bp from pter ( according to hg19-Feb_2009)  [Mapping SLC39A1.png]
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
HSD11B2 (16q22.1) / SLC39A1 (1q21.3)SLC39A1 (1q21.3) / BLK (8p23.1)SLC39A1 (1q21.3) / CRTC2 (1q21.3)
SLC39A1 (1q21.3) / PARD3 (10p11.22)SLC39A1 (1q21.3) / RAB13 (1q21.3)


Description The SLC39A1 gene contains 5 exons, three of which are coding. The length of the gene is 8600 base pairs according to the Entrez Gene database. Several transcripts have been reported containing either 3, 4, or 5 exons. However, the coding sequence for SLC39A1 is the same for all reported transcripts.
Transcription Only a single isoform has been reported; mRNA 2445 bases in length; coding region of 975 bases.
Pseudogene None reported.


Description SLC39A1 encodes Zrt/Irt-like protein family member 1 (ZIP1).
ZIP1 is a 35 kDa molecular weight protein consisting of 324 amino acids. The protein contains 8 transmembrane spanning domains and shows the characteristics of a zinc transporter (Gaither and Eide, 2001).
Expression ZIP1 is ubiquitously expressed in mammalian cells (Gaither and Eide, 2001). Expression is down regulated in prostate malignancy (Franklin et al., 2005). Its constitutive expression is reported to be regulated by SP and CREB1 (Makhov et al., 2009). Down regulation of expression in prostate malignancy is reported due to transcription repression by ras response element binding protein-1 (RREB-1) (Milon et al., 2010).
Localisation ZIP1 is located at the cell membrane.
Function ZIP1 is a facilitated zinc uptake transporter (Franklin et al., 2003). Activity of the transporter results in the intracellular accumulation of zinc. ZIP1 is involved in apoptosis induction in prostate cancer cells.
Homology Mus musculus Slc39a1; Rattus norvegicus Slc39a1; Bos taurus Slc39a1; Danio rerio slc39a1.


Note No diseases related to mutation are reported.

Implicated in

Entity Prostate cancer
Note SLC39A1 is down regulated in prostate cancer (Franklin et al., 2005). Knockdown of the SLC39A1 expression decreases cellular zinc and increases growth of PC-3 cells (Franklin et al., 2003). Over expression of SLC39A1 inhibits prostate tumor growth in a xenograft model (Golovine et al., 2008).


hZIP1 zinc uptake transporter down regulation and zinc depletion in prostate cancer.
Franklin RB, Feng P, Milon B, Desouki MM, Singh KK, Kajdacsy-Balla A, Bagasra O, Costello LC.
Mol Cancer. 2005 Sep 9;4:32.
PMID 16153295
The human ZIP1 transporter mediates zinc uptake in human K562 erythroleukemia cells.
Gaither LA, Eide DJ.
J Biol Chem. 2001 Jun 22;276(25):22258-64. Epub 2001 Apr 11.
PMID 11301334
Overexpression of the zinc uptake transporter hZIP1 inhibits nuclear factor-kappaB and reduces the malignant potential of prostate cancer cells in vitro and in vivo.
Golovine K, Makhov P, Uzzo RG, Shaw T, Kunkle D, Kolenko VM.
Clin Cancer Res. 2008 Sep 1;14(17):5376-84.
PMID 18765529
Transcriptional regulation of the major zinc uptake protein hZip1 in prostate cancer cells.
Makhov P, Golovine K, Uzzo RG, Wuestefeld T, Scoll BJ, Kolenko VM.
Gene. 2009 Feb 15;431(1-2):39-46. Epub 2008 Nov 5.
PMID 19026724
Ras responsive element binding protein-1 (RREB-1) down-regulates hZIP1 expression in prostate cancer cells.
Milon BC, Agyapong A, Bautista R, Costello LC, Franklin RB.
Prostate. 2010 Feb 15;70(3):288-96.
PMID 19802870


This paper should be referenced as such :
Franklin, RB ; Costello, LC
SLC39A1 (solute carrier family 39 (zinc transporter), member 1)
Atlas Genet Cytogenet Oncol Haematol. 2012;16(3):218-219.
Free journal version : [ pdf ]   [ DOI ]

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 3 ]
  SLC39A1/CRTC2 (1q21)
SLC39A1/CRTC2 (1q21)
SLC39A1/CRTC2 (1q21)

External links

HGNC (Hugo)SLC39A1   12876
Entrez_Gene (NCBI)SLC39A1  27173  solute carrier family 39 member 1
AliasesZIP1; ZIRTL
GeneCards (Weizmann)SLC39A1
Ensembl hg19 (Hinxton)ENSG00000143570 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000143570 [Gene_View]  ENSG00000143570 [Sequence]  chr1:153959110-153967725 [Contig_View]  SLC39A1 [Vega]
ICGC DataPortalENSG00000143570
TCGA cBioPortalSLC39A1
AceView (NCBI)SLC39A1
Genatlas (Paris)SLC39A1
SOURCE (Princeton)SLC39A1
Genetics Home Reference (NIH)SLC39A1
Genomic and cartography
GoldenPath hg38 (UCSC)SLC39A1  -     chr1:153959110-153967725 -  1q21.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLC39A1  -     1q21.3   [Description]    (hg19-Feb_2009)
GoldenPathSLC39A1 - 1q21.3 [CytoView hg19]  SLC39A1 - 1q21.3 [CytoView hg38]
genome Data Viewer NCBISLC39A1 [Mapview hg19]  
Gene and transcription
Genbank (Entrez)AF132942 AF151829 AJ243649 AJ271671 AK074943
RefSeq transcript (Entrez)NM_001271957 NM_001271958 NM_001271959 NM_001271960 NM_001271961 NM_014437
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLC39A1
Alternative Splicing GalleryENSG00000143570
Gene ExpressionSLC39A1 [ NCBI-GEO ]   SLC39A1 [ EBI - ARRAY_EXPRESS ]   SLC39A1 [ SEEK ]   SLC39A1 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC39A1 [ Firebrowse - Broad ]
GenevisibleExpression of SLC39A1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)27173
GTEX Portal (Tissue expression)SLC39A1
Human Protein AtlasENSG00000143570-SLC39A1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NY26   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NY26  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NY26
Splice isoforms : SwissVarQ9NY26
Domains : Interpro (EBI)ZIP   
Domain families : Pfam (Sanger)Zip (PF02535)   
Domain families : Pfam (NCBI)pfam02535   
Conserved Domain (NCBI)SLC39A1
DMDM Disease mutations27173
Blocks (Seattle)SLC39A1
Human Protein Atlas [tissue]ENSG00000143570-SLC39A1 [tissue]
Peptide AtlasQ9NY26
IPIIPI00100585   IPI01011934   IPI01011467   IPI00641194   IPI00643494   IPI00644042   
Protein Interaction databases
IntAct (EBI)Q9NY26
Ontologies - Pathways
Ontology : AmiGOin utero embryonic development  signaling receptor binding  zinc ion transmembrane transporter activity  endoplasmic reticulum membrane  plasma membrane  plasma membrane  plasma membrane  cation transport  membrane  integral component of membrane  inorganic cation transmembrane transporter activity  embryonic cranial skeleton morphogenesis  limb development  zinc ion transmembrane transport  zinc ion transmembrane transport  
Ontology : EGO-EBIin utero embryonic development  signaling receptor binding  zinc ion transmembrane transporter activity  endoplasmic reticulum membrane  plasma membrane  plasma membrane  plasma membrane  cation transport  membrane  integral component of membrane  inorganic cation transmembrane transporter activity  embryonic cranial skeleton morphogenesis  limb development  zinc ion transmembrane transport  zinc ion transmembrane transport  
REACTOMEQ9NY26 [protein]
REACTOME PathwaysR-HSA-442380 [pathway]   
NDEx NetworkSLC39A1
Atlas of Cancer Signalling NetworkSLC39A1
Wikipedia pathwaysSLC39A1
Orthology - Evolution
GeneTree (enSembl)ENSG00000143570
Phylogenetic Trees/Animal Genes : TreeFamSLC39A1
Homologs : HomoloGeneSLC39A1
Homology/Alignments : Family Browser (UCSC)SLC39A1
Gene fusions - Rearrangements
Fusion : Fusion_HubCRTC2--SLC39A1    HSD11B2--SLC39A1    SLC39A1--BLK    SLC39A1--CRTC2    SLC39A1--PARD3    SLC39A1--RAB13    SLC39A1--RPS6    ZNF280C--SLC39A1   
Fusion : QuiverSLC39A1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC39A1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC39A1
Exome Variant ServerSLC39A1
GNOMAD BrowserENSG00000143570
Varsome BrowserSLC39A1
Genetic variants : HAPMAP27173
Genomic Variants (DGV)SLC39A1 [DGVbeta]
DECIPHERSLC39A1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLC39A1 
ICGC Data PortalSLC39A1 
TCGA Data PortalSLC39A1 
Broad Tumor PortalSLC39A1
OASIS PortalSLC39A1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC39A1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSLC39A1
Mutations and Diseases : HGMDSLC39A1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SLC39A1
DgiDB (Drug Gene Interaction Database)SLC39A1
DoCM (Curated mutations)SLC39A1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC39A1 (select a term)
NCG6 (London) select SLC39A1
Cancer3DSLC39A1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Genetic Testing Registry SLC39A1
NextProtQ9NY26 [Medical]
Target ValidationSLC39A1
Huge Navigator SLC39A1 [HugePedia]
snp3D : Map Gene to Disease27173
BioCentury BCIQSLC39A1
Clinical trials, drugs, therapy
Protein Interactions : CTD27173
Pharm GKB GenePA37465
Clinical trialSLC39A1
canSAR (ICR)SLC39A1 (select the gene name)
DataMed IndexSLC39A1
PubMed43 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 14 14:55:04 CEST 2020

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