Human Gene MT3 (ENST00000200691.5_4) from GENCODE V47lift37
  Description: metallothionein 3 (from RefSeq NM_005954.4)
Gencode Transcript: ENST00000200691.5_4
Gencode Gene: ENSG00000087250.9_6
Transcript (Including UTRs)
   Position: hg19 chr16:56,623,440-56,624,997 Size: 1,558 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr16:56,623,503-56,624,861 Size: 1,359 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:56,623,440-56,624,997)mRNA (may differ from genome)Protein (68 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: MT3_HUMAN
DESCRIPTION: RecName: Full=Metallothionein-3; Short=MT-3; AltName: Full=GIFB; Short=GIF; AltName: Full=Growth inhibitory factor; AltName: Full=Metallothionein-III; Short=MT-III;
FUNCTION: Binds heavy metals. Contains three zinc and three copper atoms per polypeptide chain and only a negligible amount of cadmium. Inhibits survival and neurite formation of cortical neurons in vitro.
TISSUE SPECIFICITY: Abundant in a subset of astrocytes in the normal human brain, but greatly reduced in the Alzheimer disease (AD) brain.
SIMILARITY: Belongs to the metallothionein superfamily. Type 1 family.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/mt3/";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: MT3
Diseases sorted by gene-association score: alzheimer disease (7), amyotrophic lateral sclerosis 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 616.28 RPKM in Brain - Amygdala
Total median expression: 5864.21 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -14.3063-0.227 Picture PostScript Text
3' UTR -47.00136-0.346 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR017854 - Metalthion_dom
IPR023587 - Metalthion_dom_vert
IPR003019 - Metalthion_sfam_euk
IPR000006 - Metalthion_vert
IPR018064 - Metalthion_vert_metal_BS

Pfam Domains:
PF00131 - Metallothionein

SCOP Domains:
57868 - Metallothionein

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2F5H - NMR MuPIT 2FJ4 - NMR MuPIT 2FJ5 - NMR MuPIT


ModBase Predicted Comparative 3D Structure on P25713
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005507 copper ion binding
GO:0005515 protein binding
GO:0008144 drug binding
GO:0008270 zinc ion binding
GO:0016209 antioxidant activity
GO:0030295 protein kinase activator activity
GO:0043027 cysteine-type endopeptidase inhibitor activity involved in apoptotic process
GO:0046870 cadmium ion binding
GO:0046872 metal ion binding

Biological Process:
GO:0000060 protein import into nucleus, translocation
GO:0001666 response to hypoxia
GO:0001934 positive regulation of protein phosphorylation
GO:0006112 energy reserve metabolic process
GO:0006707 cholesterol catabolic process
GO:0006829 zinc II ion transport
GO:0006875 cellular metal ion homeostasis
GO:0006882 cellular zinc ion homeostasis
GO:0006915 apoptotic process
GO:0006979 response to oxidative stress
GO:0007420 brain development
GO:0008283 cell proliferation
GO:0010038 response to metal ion
GO:0010507 negative regulation of autophagy
GO:0010628 positive regulation of gene expression
GO:0010940 positive regulation of necrotic cell death
GO:0010942 positive regulation of cell death
GO:0014002 astrocyte development
GO:0016570 histone modification
GO:0019430 removal of superoxide radicals
GO:0030308 negative regulation of cell growth
GO:0030517 negative regulation of axon extension
GO:0030949 positive regulation of vascular endothelial growth factor receptor signaling pathway
GO:0032095 regulation of response to food
GO:0032148 activation of protein kinase B activity
GO:0033210 leptin-mediated signaling pathway
GO:0034599 cellular response to oxidative stress
GO:0035690 cellular response to drug
GO:0036091 positive regulation of transcription from RNA polymerase II promoter in response to oxidative stress
GO:0043066 negative regulation of apoptotic process
GO:0043085 positive regulation of catalytic activity
GO:0043154 negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0043491 protein kinase B signaling
GO:0043524 negative regulation of neuron apoptotic process
GO:0044242 cellular lipid catabolic process
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045893 positive regulation of transcription, DNA-templated
GO:0050768 negative regulation of neurogenesis
GO:0050821 protein stabilization
GO:0051354 negative regulation of oxidoreductase activity
GO:0055069 zinc ion homeostasis
GO:0055073 cadmium ion homeostasis
GO:0060049 regulation of protein glycosylation
GO:0060547 negative regulation of necrotic cell death
GO:0070371 ERK1 and ERK2 cascade
GO:0070374 positive regulation of ERK1 and ERK2 cascade
GO:0071276 cellular response to cadmium ion
GO:0071456 cellular response to hypoxia
GO:0071732 cellular response to nitric oxide
GO:0097214 positive regulation of lysosomal membrane permeability
GO:1901215 negative regulation of neuron death
GO:2000117 negative regulation of cysteine-type endopeptidase activity
GO:2000296 negative regulation of hydrogen peroxide catabolic process
GO:2000376 positive regulation of oxygen metabolic process
GO:2000378 negative regulation of reactive oxygen species metabolic process

Cellular Component:
GO:0005615 extracellular space
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005741 mitochondrial outer membrane
GO:0005791 rough endoplasmic reticulum
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005874 microtubule
GO:0005886 plasma membrane
GO:0008021 synaptic vesicle
GO:0014069 postsynaptic density
GO:0016234 inclusion body
GO:0030424 axon
GO:0043197 dendritic spine
GO:0048471 perinuclear region of cytoplasm
GO:0097449 astrocyte projection
GO:0097450 astrocyte end-foot


-  Descriptions from all associated GenBank mRNAs
  BC035624 - Homo sapiens metallothionein 3, mRNA (cDNA clone IMAGE:5182135), with apparent retained intron.
D13365 - Homo sapiens mRNA for growth inhibitory factor.
BC013081 - Homo sapiens metallothionein 3, mRNA (cDNA clone MGC:17054 IMAGE:4152899), complete cds.
BC047694 - Homo sapiens metallothionein 3, mRNA (cDNA clone IMAGE:5735213), with apparent retained intron.
JD117760 - Sequence 98784 from Patent EP1572962.
DQ891752 - Synthetic construct clone IMAGE:100004382; FLH179589.01X; RZPDo839A04132D metallothionein 3 (growth inhibitory factor (neurotrophic)) (MT3) gene, encodes complete protein.
DQ894933 - Synthetic construct Homo sapiens clone IMAGE:100009393; FLH179585.01L; RZPDo839A04131D metallothionein 3 (growth inhibitory factor (neurotrophic)) (MT3) gene, encodes complete protein.
E04617 - cDNA encoding an neuro-nutrient activity suppressing peptide.
BT007030 - Homo sapiens metallothionein 3 (growth inhibitory factor (neurotrophic)) mRNA, complete cds.
KJ897206 - Synthetic construct Homo sapiens clone ccsbBroadEn_06600 MT3 gene, encodes complete protein.
X89604 - H.sapiens mRNA for metallothionein-III.
JD365749 - Sequence 346773 from Patent EP1572962.
JD166865 - Sequence 147889 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P25713 (Reactome details) participates in the following event(s):

R-HSA-5662606 MT3 binds zinc
R-HSA-5662620 MT3 binds cadmium
R-HSA-5663002 MT3 binds copper
R-HSA-5661231 Metallothioneins bind metals
R-HSA-5660526 Response to metal ions
R-HSA-8953897 Cellular responses to external stimuli

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000200691.1, ENST00000200691.2, ENST00000200691.3, ENST00000200691.4, MT3_HUMAN, NM_005954, P25713, Q2V574, uc317cia.1, uc317cia.2
UCSC ID: ENST00000200691.5_4
RefSeq Accession: NM_005954.4
Protein: P25713 (aka MT3_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.