SLC39A3
gene geneOn this page
Also known as ZIP3
Summary
SLC39A3 (solute carrier family 39 member 3, HGNC:17128) is a protein-coding gene on chromosome 19p13.3, encoding Zinc transporter ZIP3 (Q9BRY0). Transporter for the divalent cation Zn(2+).
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.
Source: NCBI Gene 29985 — RefSeq curated summary.
At a glance
- Clinical variants (ClinVar): 73 total
- Druggable target: yes
- MANE Select transcript:
NM_144564
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:17128 |
| Approved symbol | SLC39A3 |
| Name | solute carrier family 39 member 3 |
| Location | 19p13.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | ZIP3 |
| Ensembl gene | ENSG00000141873 |
| Ensembl biotype | protein_coding |
| OMIM | 612168 |
| Entrez | 29985 |
Gene structure
Transcript identifiers
Ensembl transcripts: 14 — 13 protein_coding, 1 protein_coding_CDS_not_defined
ENST00000269740, ENST00000455372, ENST00000545664, ENST00000589166, ENST00000589363, ENST00000590875, ENST00000909979, ENST00000909980, ENST00000909981, ENST00000909982, ENST00000909983, ENST00000959861, ENST00000959862, ENST00000959863
RefSeq mRNA: 2 — MANE Select: NM_144564
NM_144564, NM_213568
CCDS: CCDS12093, CCDS45909
Canonical transcript exons
ENST00000269740 — 3 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001150023 | 2732524 | 2733485 |
| ENSE00002257135 | 2739945 | 2740017 |
| ENSE00003603132 | 2737048 | 2737379 |
Expression profiles
Bgee: expression breadth ubiquitous, 212 present calls, max score 96.42.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 17.4424 / max 275.0111, expressed in 1803 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 178203 | 11.6172 | 1775 |
| 178204 | 5.4066 | 1734 |
| 178202 | 0.4186 | 169 |
Top tissues by expression
243 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| left testis | UBERON:0004533 | 96.42 | gold quality |
| right testis | UBERON:0004534 | 96.26 | gold quality |
| testis | UBERON:0000473 | 93.37 | gold quality |
| stromal cell of endometrium | CL:0002255 | 92.57 | gold quality |
| prefrontal cortex | UBERON:0000451 | 91.28 | gold quality |
| apex of heart | UBERON:0002098 | 90.02 | gold quality |
| islet of Langerhans | UBERON:0000006 | 89.75 | gold quality |
| smooth muscle tissue | UBERON:0001135 | 89.49 | gold quality |
| Brodmann (1909) area 9 | UBERON:0013540 | 89.15 | gold quality |
| monocyte | CL:0000576 | 89.10 | gold quality |
| leukocyte | CL:0000738 | 88.94 | gold quality |
| adenohypophysis | UBERON:0002196 | 88.65 | gold quality |
| anterior cingulate cortex | UBERON:0009835 | 88.65 | gold quality |
| right adrenal gland | UBERON:0001233 | 88.64 | gold quality |
| right frontal lobe | UBERON:0002810 | 88.61 | gold quality |
| left adrenal gland | UBERON:0001234 | 88.59 | gold quality |
| left adrenal gland cortex | UBERON:0035825 | 88.37 | gold quality |
| right adrenal gland cortex | UBERON:0035827 | 88.25 | gold quality |
| pancreatic ductal cell | CL:0002079 | 88.13 | silver quality |
| mucosa of transverse colon | UBERON:0004991 | 87.82 | gold quality |
| hindlimb stylopod muscle | UBERON:0004252 | 87.05 | gold quality |
| granulocyte | CL:0000094 | 87.00 | gold quality |
| pituitary gland | UBERON:0000007 | 86.96 | gold quality |
| right lobe of liver | UBERON:0001114 | 86.79 | gold quality |
| adrenal gland | UBERON:0002369 | 86.79 | gold quality |
| neocortex | UBERON:0001950 | 86.77 | gold quality |
| adrenal cortex | UBERON:0001235 | 86.73 | gold quality |
| dorsolateral prefrontal cortex | UBERON:0009834 | 86.65 | gold quality |
| frontal cortex | UBERON:0001870 | 86.64 | gold quality |
| gastrocnemius | UBERON:0001388 | 86.53 | gold quality |
Single-cell (SCXA)
Detected in 9 experiment(s), a significant marker in 7.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-GEOD-130473 | yes | 531.63 |
| E-MTAB-7407 | yes | 287.16 |
| E-HCAD-6 | yes | 54.97 |
| E-CURD-112 | yes | 35.84 |
| E-MTAB-9067 | yes | 22.28 |
| E-MTAB-10042 | yes | 14.32 |
| E-ANND-3 | yes | 8.73 |
| E-MTAB-6379 | no | 114.62 |
| E-MTAB-9801 | no | 2.55 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): RREB1
miRNA regulators (miRDB)
8 targeting SLC39A3, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-3658 | 99.96 | 73.87 | 4379 |
| HSA-MIR-8087 | 99.90 | 69.55 | 1351 |
| HSA-MIR-3934-3P | 99.76 | 65.51 | 1351 |
| HSA-MIR-7161-5P | 99.68 | 68.92 | 1592 |
| HSA-MIR-548U | 99.65 | 67.78 | 1463 |
| HSA-MIR-4649-3P | 99.56 | 66.90 | 1783 |
| HSA-MIR-2467-5P | 97.36 | 67.71 | 991 |
Literature-anchored findings (GeneRIF, showing 6)
- ZIP1, ZIP2 and ZIP3 may play cell-specific roles in zinc homeostasis rather than primary roles in the acquisition of dietary zinc (PMID:14525987)
- ZiP2 and Zip3 are down regulated in malignant cells (PMID:17550612)
- Gene expression regulation of ZIPs after zinc supplementation. (PMID:18279033)
- The metallothionein gene had a higher expression in the blood, when compared to zinc transporters ZnT-1, Zip-1, and Zip-3 (p=0.01 in obese patients. (PMID:21053094)
- Data show that the combination of concurrent zinc, ZIP3, and RREB-1 changes represent early events in the development of adenocarcinoma. (PMID:21613827)
- These results support a concept that downregulation of RREB-1 causes downregulation of ZIP3, which results in decreased zinc in pancreatic premalignant and carcinoma cells (PMID:22427155)
Cross-species orthologs
4 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| mus_musculus | Slc39a3 | ENSMUSG00000046822 |
| rattus_norvegicus | Slc39a3 | ENSRNOG00000045524 |
| drosophila_melanogaster | Zip42C.1 | FBGN0033096 |
| caenorhabditis_elegans | WBGENE00015940 |
Paralogs (2): SLC39A1 (ENSG00000143570), SLC39A2 (ENSG00000165794)
Protein
Protein identifiers
Zinc transporter ZIP3 — Q9BRY0 (reviewed: Q9BRY0)
Alternative names: Solute carrier family 39 member 3, Zrt- and Irt-like protein 3
All UniProt accessions (4): Q9BRY0, F5H385, K7EJZ1, K7ENJ1
UniProt curated annotations — full annotation on UniProt →
Function. Transporter for the divalent cation Zn(2+). Mediates the influx of Zn(2+) into cells from extracellular space. Controls Zn(2+) accumulation into dentate gyrus granule cells in the hippocampus. Mediates Zn(2+) reuptake from the secreted milk within the alveolar lumen.
Subcellular location. Cell membrane. Apical cell membrane.
Similarity. Belongs to the ZIP transporter (TC 2.A.5) family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q9BRY0-1 | 1 | yes |
| Q9BRY0-2 | 2 |
RefSeq proteins (2): NP_653165, NP_998733 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR003689 | ZIP | Family |
Pfam: PF02535
Catalyzed reactions (Rhea), 1 shown:
- Zn(2+)(in) = Zn(2+)(out) (RHEA:29351)
UniProt features (24 total): topological domain 9, transmembrane region 8, modified residue 2, splice variant 2, sequence variant 2, chain 1
Structure
Experimental structures (PDB)
0 structures.
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q9BRY0-F1 | 81.29 | 0.54 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Post-translational modifications (2): 125, 129
Function
Pathways and Gene Ontology
Reactome pathways
6 pathways
| ID | Pathway |
|---|---|
| R-HSA-442380 | Zinc influx into cells by the SLC39 gene family |
| R-HSA-382551 | Transport of small molecules |
| R-HSA-425366 | |
| R-HSA-425407 | SLC-mediated transmembrane transport |
| R-HSA-425410 | Metal ion SLC transporters |
| R-HSA-435354 | Zinc transporters |
MSigDB gene sets: 204 (showing top):
RNGTGGGC_UNKNOWN, GOBP_EMBRYO_DEVELOPMENT_ENDING_IN_BIRTH_OR_EGG_HATCHING, CHIARADONNA_NEOPLASTIC_TRANSFORMATION_KRAS_DN, GOBP_SKELETAL_SYSTEM_DEVELOPMENT, GOBP_TRANSITION_METAL_ION_TRANSPORT, GOBP_EMBRYONIC_SKELETAL_SYSTEM_DEVELOPMENT, CMYB_01, GOBP_EMBRYONIC_SKELETAL_SYSTEM_MORPHOGENESIS, GOBP_T_CELL_HOMEOSTASIS, GOBP_LYMPHOCYTE_HOMEOSTASIS, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, IVANOVA_HEMATOPOIESIS_LATE_PROGENITOR, GOBP_MONOATOMIC_CATION_TRANSPORT, MARTINEZ_RB1_TARGETS_UP
GO Biological Process (10): cell morphogenesis (GO:0000902), in utero embryonic development (GO:0001701), T cell homeostasis (GO:0043029), embryonic cranial skeleton morphogenesis (GO:0048701), limb development (GO:0060173), zinc ion transmembrane transport (GO:0071577), monoatomic ion transport (GO:0006811), zinc ion transport (GO:0006829), metal ion transport (GO:0030001), transmembrane transport (GO:0055085)
GO Molecular Function (3): zinc ion transmembrane transporter activity (GO:0005385), protein binding (GO:0005515), metal ion transmembrane transporter activity (GO:0046873)
GO Cellular Component (4): plasma membrane (GO:0005886), apical plasma membrane (GO:0016324), hippocampal mossy fiber to CA3 synapse (GO:0098686), membrane (GO:0016020)
Reactome top-level categories
Rollup of top-4 pathways:
| Category | Pathways |
|---|---|
| Zinc transporters | 1 |
| Transport of small molecules | 1 |
| SLC-mediated transmembrane transport | 1 |
| Metal ion SLC transporters | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| transport | 2 |
| anatomical structure morphogenesis | 1 |
| chordate embryonic development | 1 |
| lymphocyte homeostasis | 1 |
| embryonic skeletal system morphogenesis | 1 |
| cranial skeletal system development | 1 |
| appendage development | 1 |
| zinc ion transport | 1 |
| monoatomic cation transmembrane transport | 1 |
| transition metal ion transport | 1 |
| monoatomic cation transport | 1 |
| cellular process | 1 |
| transition metal ion transmembrane transporter activity | 1 |
| zinc ion transmembrane transport | 1 |
| binding | 1 |
| monoatomic cation transmembrane transporter activity | 1 |
| metal ion transport | 1 |
| membrane | 1 |
| cell periphery | 1 |
| apical part of cell | 1 |
| plasma membrane region | 1 |
| thorny excrescence | 1 |
| neuron to neuron synapse | 1 |
| hippocampal mossy fiber expansion | 1 |
| cellular anatomical structure | 1 |
Protein interactions and networks
STRING
774 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| SLC39A3 | SLC39A11 | Q8N1S5 | 747 |
| SLC39A3 | SLC39A4 | Q6P5W5 | 716 |
| SLC39A3 | SLC39A9 | Q9NUM3 | 693 |
| SLC39A3 | SLC39A7 | Q92504 | 688 |
| SLC39A3 | SLC39A5 | Q6ZMH5 | 656 |
| SLC39A3 | SLC39A12 | Q504Y0 | 650 |
| SLC39A3 | SLC39A13 | Q96H72 | 649 |
| SLC39A3 | SLC39A10 | Q9ULF5 | 621 |
| SLC39A3 | SLC39A6 | Q13433 | 612 |
| SLC39A3 | SLC39A8 | Q9C0K1 | 611 |
| SLC39A3 | SLC30A9 | Q6PML9 | 607 |
| SLC39A3 | SLC39A14 | Q15043 | 573 |
| SLC39A3 | SLC30A6 | Q6NXT4 | 546 |
| SLC39A3 | SLC30A1 | Q9Y6M5 | 542 |
| SLC39A3 | SLC30A7 | Q8NEW0 | 520 |
IntAct
32 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| TNFSF8 | TOR1B | psi-mi:“MI:0914”(association) | 0.640 |
| MANSC1 | KLRG2 | psi-mi:“MI:0914”(association) | 0.530 |
| EVA1C | UPK3BL1 | psi-mi:“MI:0914”(association) | 0.530 |
| HLA-B | LTN1 | psi-mi:“MI:0914”(association) | 0.530 |
| TNFSF8 | LGALS8 | psi-mi:“MI:0914”(association) | 0.530 |
| SEC22B | NBAS | psi-mi:“MI:0914”(association) | 0.350 |
| TMPRSS11B | psi-mi:“MI:0914”(association) | 0.350 | |
| TNFSF8 | NME4 | psi-mi:“MI:0914”(association) | 0.350 |
| BSCL2 | B4GAT1 | psi-mi:“MI:0914”(association) | 0.350 |
| PMEL | MAN1A2 | psi-mi:“MI:0914”(association) | 0.350 |
| BSCL2 | TMEM223 | psi-mi:“MI:0914”(association) | 0.350 |
| HIDE1 | TMEM120B | psi-mi:“MI:0914”(association) | 0.350 |
| SLC39A3 | PLEKHG3 | psi-mi:“MI:0914”(association) | 0.350 |
| TMPRSS11B | ADAM10 | psi-mi:“MI:0914”(association) | 0.350 |
| PCDHB3 | ESYT2 | psi-mi:“MI:0914”(association) | 0.350 |
| CLEC2D | ESYT2 | psi-mi:“MI:0914”(association) | 0.350 |
| HLA-C | TMEM131L | psi-mi:“MI:0914”(association) | 0.350 |
| KLRD1 | TMEM131L | psi-mi:“MI:0914”(association) | 0.350 |
| GPR45 | VWA8 | psi-mi:“MI:0914”(association) | 0.350 |
| OPALIN | FAM171A2 | psi-mi:“MI:0914”(association) | 0.350 |
| CLEC4A | psi-mi:“MI:0914”(association) | 0.350 | |
| SPINT2 | psi-mi:“MI:0914”(association) | 0.350 | |
| LRRC25 | SCAMP3 | psi-mi:“MI:0914”(association) | 0.350 |
| RAMP3 | MGST3 | psi-mi:“MI:0914”(association) | 0.350 |
| HLA-B | RAB29 | psi-mi:“MI:0914”(association) | 0.350 |
| P2RY8 | BTAF1 | psi-mi:“MI:0914”(association) | 0.350 |
| AIFM1 | HSPA12A | psi-mi:“MI:0914”(association) | 0.350 |
| CA14 | ORC4 | psi-mi:“MI:0914”(association) | 0.350 |
| TMEM25 | CRLF1 | psi-mi:“MI:0914”(association) | 0.350 |
| SLC39A3 | AMY1A | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (128): SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-MS), SLC39A3 (Affinity Capture-RNA), TRAPPC13 (Negative Genetic), SLC39A3 (Negative Genetic), TRAPPC2L (Negative Genetic), VPS51 (Negative Genetic)
ESM2 similar proteins: A0A0G2KQY6, A0A3Q7ZPG5, A4IFD7, A4IIC5, A5PMX1, A8WMY3, A8X482, O04089, O45923, O64738, O82643, O94639, P40544, P59889, Q12067, Q12436, Q28J44, Q2YDD4, Q3KR82, Q52KD7, Q54LY6, Q5BJM8, Q5BL29, Q5E960, Q5MNV6, Q5RE57, Q5U1X7, Q5ZIU9, Q640S1, Q6NRI1, Q6NRM1, Q6NTL1, Q6P3N9, Q6P6S2, Q6QQT1, Q8BFU1, Q8BWY7, Q8LE59, Q8N1S5, Q8NEW0
Diamond homologs: A4IIC5, Q55EA1, Q5E960, Q5U1X7, Q99K24, Q9BRY0, G3X943, P59889, Q3SYU3, Q6QQT1, Q9NP94, Q9NY26, Q9QZ03, Q54MB9, C6KST8, A3BI11, O04089, O23039, O81123, O82643, Q0DHE3, Q38856, Q5Z653, Q6L8F7, Q6ZJ91, Q7XLD4, Q8LE59, Q8S3W4, Q8W246, Q9SLG3, Q852F6, Q94DG6, Q9LTH9, Q94EG9
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
73 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 0 |
| Uncertain significance | 70 |
| Likely benign | 1 |
| Benign | 1 |
Top pathogenic / likely-pathogenic (0)
SpliceAI
534 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 19:2733503:C:CT | acceptor_gain | 1.0000 |
| 19:2733503:C:T | acceptor_gain | 1.0000 |
| 19:2733504:G:T | acceptor_gain | 1.0000 |
| 19:2739941:CTA:C | donor_loss | 1.0000 |
| 19:2739942:TA:T | donor_loss | 1.0000 |
| 19:2739943:A:C | donor_loss | 1.0000 |
| 19:2739944:C:A | donor_loss | 1.0000 |
| 19:2733486:C:CC | acceptor_gain | 0.9900 |
| 19:2733493:C:CT | acceptor_gain | 0.9900 |
| 19:2733493:C:T | acceptor_gain | 0.9900 |
| 19:2733502:C:CT | acceptor_gain | 0.9900 |
| 19:2739943:ACCT:A | donor_gain | 0.9900 |
| 19:2739943:ACCTC:A | donor_gain | 0.9900 |
| 19:2739944:CCT:C | donor_gain | 0.9900 |
| 19:2739944:CCTC:C | donor_gain | 0.9900 |
| 19:2739944:CCTCC:C | donor_gain | 0.9900 |
| 19:2733484:AG:A | acceptor_gain | 0.9800 |
| 19:2733485:GC:G | acceptor_loss | 0.9800 |
| 19:2733486:CT:C | acceptor_loss | 0.9800 |
| 19:2733487:T:C | acceptor_loss | 0.9800 |
| 19:2733499:C:CT | acceptor_gain | 0.9800 |
| 19:2737199:A:T | acceptor_gain | 0.9800 |
| 19:2737380:C:CC | acceptor_gain | 0.9800 |
| 19:2739943:A:AC | donor_gain | 0.9800 |
| 19:2739944:C:CC | donor_gain | 0.9800 |
| 19:2733483:GAG:G | acceptor_gain | 0.9700 |
| 19:2733485:GCTG:G | acceptor_loss | 0.9700 |
| 19:2733494:G:T | acceptor_gain | 0.9700 |
| 19:2733481:TGGAG:T | acceptor_gain | 0.9600 |
| 19:2733490:A:T | acceptor_gain | 0.9600 |
AlphaMissense
2018 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 19:2733049:C:T | G216D | 0.994 |
| 19:2733050:C:G | G216R | 0.994 |
| 19:2732985:G:C | S237R | 0.993 |
| 19:2732985:G:T | S237R | 0.993 |
| 19:2732987:T:G | S237R | 0.993 |
| 19:2733143:C:G | G185R | 0.991 |
| 19:2732791:C:T | G302D | 0.989 |
| 19:2732897:C:G | G267R | 0.988 |
| 19:2733416:C:G | G94R | 0.988 |
| 19:2733049:C:A | G216V | 0.987 |
| 19:2737100:C:T | G53E | 0.987 |
| 19:2732792:C:G | G302R | 0.986 |
| 19:2732871:G:C | F275L | 0.986 |
| 19:2732871:G:T | F275L | 0.986 |
| 19:2732873:A:G | F275L | 0.986 |
| 19:2732974:G:C | P241R | 0.985 |
| 19:2733415:C:T | G94D | 0.985 |
| 19:2732968:C:T | G243D | 0.984 |
| 19:2737083:A:G | C59R | 0.984 |
| 19:2737101:C:A | G53W | 0.984 |
| 19:2737101:C:G | G53R | 0.984 |
| 19:2737101:C:T | G53R | 0.984 |
| 19:2732884:C:T | G271D | 0.983 |
| 19:2733169:G:T | A176E | 0.983 |
| 19:2733131:C:G | G189R | 0.981 |
| 19:2732885:C:G | G271R | 0.980 |
| 19:2732969:C:G | G243R | 0.980 |
| 19:2733143:C:A | G185C | 0.980 |
| 19:2737088:G:T | A57D | 0.980 |
| 19:2737094:A:G | F55S | 0.980 |
dbSNP variants (sampled 300 via entrez): RS1000349816 (19:2734961 G>A), RS1000602627 (19:2735692 G>A,T), RS1000777222 (19:2732114 C>G,T), RS1000806149 (19:2740411 T>A), RS1000852306 (19:2732105 A>G), RS1000906659 (19:2740753 C>G,T), RS1001387606 (19:2738296 T>C), RS1002127120 (19:2739665 G>A,T), RS1002280272 (19:2734577 C>T), RS1002341601 (19:2737326 G>A,C,T), RS1002423503 (19:2734780 C>A,T), RS1002736383 (19:2734039 T>C), RS1003262229 (19:2738495 G>A,C), RS1003393189 (19:2733154 G>A,C), RS1003692958 (19:2734015 C>T)
Disease associations
OMIM: gene MIM:612168 | disease phenotypes:
GenCC curated gene-disease
Mondo (0):
Orphanet (0):
HPO phenotypes
0 total (0 of 0 shown, HPO-id order):
GWAS associations
0 associations (top):
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL6066510 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
GtoPdb / IUPHAR curated pharmacology
(IUPHAR/BPS Guide to Pharmacology — expert-curated)
Target class: transporter — SLC39 family of metal ion transporters
ChEMBL bioactivities
2 potent at pChembl≥5 of 2 total, top 2 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 7.50 | Kd | 31.67 | nM | CHEMBL5653589 |
| 7.48 | ED50 | 33.26 | nM | CHEMBL5653589 |
PubChem BioAssay actives
1 with measured affinity, of 2 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.
| Compound | Assay | Type | Value | Unit |
|---|---|---|---|---|
| 4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide | 2149425: Binding affinity to human SLC39A3 incubated for 45 mins by Kinobead based pull down assay | kd | 0.0317 | uM |
CTD chemical–gene interactions
19 total (human), top 19 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Zinc | increases transport, affects expression, decreases expression | 4 |
| Valproic Acid | increases expression, increases methylation | 3 |
| sodium arsenite | increases expression | 2 |
| coumarin | decreases phosphorylation | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| CGP 52608 | affects binding, increases reaction | 1 |
| 14-deoxy-11,12-didehydroandrographolide | decreases expression | 1 |
| Grape Seed Proanthocyanidins | decreases expression | 1 |
| bis-N,N-dimethylamino-2-(N-methylpyrrolyl)methyl cyclopentadienyl titanium (IV) | decreases expression | 1 |
| Sunitinib | increases expression | 1 |
| Benzo(a)pyrene | increases methylation | 1 |
| Caffeine | decreases phosphorylation | 1 |
| Calcitriol | decreases expression | 1 |
| Plant Extracts | decreases expression | 1 |
| Smoke | decreases expression | 1 |
| Dronabinol | increases expression | 1 |
| Tretinoin | decreases expression | 1 |
| Cadmium Chloride | increases expression | 1 |
| Okadaic Acid | increases expression | 1 |
ChEMBL screening assays
1 unique, capped per target: 1 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL5652467 | Binding | Binding affinity to human SLC39A3 incubated for 45 mins by Kinobead based pull down assay | NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem |
Cellosaurus cell lines
4 cell lines: 4 cancer cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_D4NI | HCT116-SLC39A3-KO-c2 | Cancer cell line | Male |
| CVCL_D4NJ | HCT116-SLC39A3-KO-c4 | Cancer cell line | Male |
| CVCL_TN56 | HAP1 SLC39A3 (-) 1 | Cancer cell line | Male |
| CVCL_TN57 | HAP1 SLC39A3 (-) 2 | Cancer cell line | Male |
Clinical trials (associated diseases)
0 trials via MONDO — disease-level, not drug-specific.
Related Atlas pages
No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.