Human Gene ATF3 (uc021pit.1) Description and Page Index
  Description: Homo sapiens activating transcription factor 3 (ATF3), transcript variant 5, mRNA.
RefSeq Summary (NM_001206484): This gene encodes a member of the mammalian activation transcription factor/cAMP responsive element-binding (CREB) protein family of transcription factors. This gene is induced by a variety of signals, including many of those encountered by cancer cells, and is involved in the complex process of cellular stress response. Multiple transcript variants encoding different isoforms have been found for this gene. It is possible that alternative splicing of this gene may be physiologically important in the regulation of target genes. [provided by RefSeq, Apr 2011].
Transcript (Including UTRs)
   Position: hg19 chr1:212,781,970-212,794,119 Size: 12,150 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:212,788,535-212,792,897 Size: 4,363 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr1:212,781,970-212,794,119)mRNA (may differ from genome)Protein (124 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
PubMedReactomeStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Cyclic AMP-dependent transcription factor ATF-3; Short=cAMP-dependent transcription factor ATF-3; AltName: Full=Activating transcription factor 3;
FUNCTION: This protein binds the cAMP response element (CRE) (consensus: 5'-GTGACGT[AC][AG]-3'), a sequence present in many viral and cellular promoters. Represses transcription from promoters with ATF sites. It may repress transcription by stabilizing the binding of inhibitory cofactors at the promoter. Isoform 2 activates transcription presumably by sequestering inhibitory cofactors away from the promoters.
SUBUNIT: Binds DNA as a homodimer or a heterodimer.
INTERACTION: Self; NbExp=2; IntAct=EBI-712767, EBI-712767; Q14192:FHL2; NbExp=3; IntAct=EBI-712767, EBI-701903; Q04206:RELA; NbExp=4; IntAct=EBI-712767, EBI-73886;
SIMILARITY: Belongs to the bZIP family. ATF subfamily.
SIMILARITY: Contains 1 bZIP (basic-leucine zipper) domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ATF3
CDC HuGE Published Literature: ATF3

-  MalaCards Disease Associations
  MalaCards Gene Search: ATF3
Diseases sorted by gene-association score: hypospadias (12), bone cancer (6)

-  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: 50.58 RPKM in Adipose - Visceral (Omentum)
Total median expression: 524.25 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 -160.60438-0.367 Picture PostScript Text
3' UTR -416.711222-0.341 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
IPR004827 - bZIP
IPR000837 - Leuzip_Fos

Pfam Domains:
PF00170 - bZIP transcription factor
PF03131 - bZIP Maf transcription factor
PF07716 - Basic region leucine zipper

ModBase Predicted Comparative 3D Structure on P18847
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 Details     
Gene Sorter     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000976 transcription regulatory region sequence-specific DNA binding
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003714 transcription corepressor activity
GO:0005515 protein binding
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0044212 transcription regulatory region DNA binding
GO:0046982 protein heterodimerization activity

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006094 gluconeogenesis
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006366 transcription from RNA polymerase II promoter
GO:0008284 positive regulation of cell proliferation
GO:0010628 positive regulation of gene expression
GO:0030968 endoplasmic reticulum unfolded protein response
GO:0034198 cellular response to amino acid starvation
GO:0035914 skeletal muscle cell differentiation
GO:0036499 PERK-mediated unfolded protein response
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0061394 regulation of transcription from RNA polymerase II promoter in response to arsenic-containing substance
GO:0070373 negative regulation of ERK1 and ERK2 cascade
GO:1902237 positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway
GO:1903984 positive regulation of TRAIL-activated apoptotic signaling pathway
GO:1990440 positive regulation of transcription from RNA polymerase II promoter in response to endoplasmic reticulum stress

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:1990622 CHOP-ATF3 complex

-  Descriptions from all associated GenBank mRNAs
JA482093 - Sequence 76 from Patent WO2011072091.
JB251942 - Sequence 9 from Patent EP2440214.
JE980385 - Sequence 76 from Patent EP2862929.
LP764841 - Sequence 9 from Patent EP3276004.
HH837080 - Sequence 7 from Patent EP2231168.
HI214721 - Sequence 7 from Patent EP2076526.
HV601523 - JP 2011500003-A/7: Novel siRNA Structures.
HV856596 - JP 2010507387-A/7: Novel siRNAs and Methods of Use Thereof.
HW165083 - JP 2013102767-A/7: Novel siRNA's and Use Thereof.
HW675591 - JP 2014210789-A/7: Novel siRNA Structures.
HW835279 - JP 2015051004-A/7: Novel siRNA's and Use Thereof.
JA538122 - Sequence 7 from Patent EP2371958.
LF211779 - JP 2014500723-A/19282: Polycomb-Associated Non-Coding RNAs.
HH837081 - Sequence 8 from Patent EP2231168.
HH837082 - Sequence 9 from Patent EP2231168.
HI214722 - Sequence 8 from Patent EP2076526.
HI214723 - Sequence 9 from Patent EP2076526.
HV601524 - JP 2011500003-A/8: Novel siRNA Structures.
HV601525 - JP 2011500003-A/9: Novel siRNA Structures.
HV856597 - JP 2010507387-A/8: Novel siRNAs and Methods of Use Thereof.
HV856598 - JP 2010507387-A/9: Novel siRNAs and Methods of Use Thereof.
HW165084 - JP 2013102767-A/8: Novel siRNA's and Use Thereof.
HW165085 - JP 2013102767-A/9: Novel siRNA's and Use Thereof.
HW675592 - JP 2014210789-A/8: Novel siRNA Structures.
HW675593 - JP 2014210789-A/9: Novel siRNA Structures.
HW835280 - JP 2015051004-A/8: Novel siRNA's and Use Thereof.
HW835281 - JP 2015051004-A/9: Novel siRNA's and Use Thereof.
JA482092 - Sequence 75 from Patent WO2011072091.
JA482094 - Sequence 77 from Patent WO2011072091.
JA538123 - Sequence 8 from Patent EP2371958.
JA538124 - Sequence 9 from Patent EP2371958.
JB251943 - Sequence 10 from Patent EP2440214.
JB251944 - Sequence 11 from Patent EP2440214.
JE980384 - Sequence 75 from Patent EP2862929.
JE980386 - Sequence 77 from Patent EP2862929.
LP764842 - Sequence 10 from Patent EP3276004.
LP764843 - Sequence 11 from Patent EP3276004.
LF205515 - JP 2014500723-A/13018: Polycomb-Associated Non-Coding RNAs.
LF213847 - JP 2014500723-A/21350: Polycomb-Associated Non-Coding RNAs.
AK294296 - Homo sapiens cDNA FLJ57271 complete cds, highly similar to Cyclic AMP-dependent transcription factorATF-3.
AK312998 - Homo sapiens cDNA, FLJ93461, Homo sapiens activating transcription factor 3 (ATF3), mRNA.
BC006322 - Homo sapiens activating transcription factor 3, mRNA (cDNA clone MGC:12746 IMAGE:4138076), complete cds.
JD187061 - Sequence 168085 from Patent EP1572962.
L19871 - Human activating transcription factor 3 (ATF3) mRNA, complete cds.
LQ878887 - Sequence 2 from Patent WO2018154075.
AK125255 - Homo sapiens cDNA FLJ43265 fis, clone HLUNG2018626, highly similar to Rattus norvegicus Activating transcription factor 3 (Atf3).
AB066566 - Homo sapiens ATF3 mRNA for activating transcription factor 3 delta Zip2, complete cds.
AY313926 - Homo sapiens activating transcription factor 3 delta Zip3 (ATF3) mRNA, complete cds, alternatively spliced.
AY313927 - Homo sapiens activating transcription factor 3 delta Zip2c (ATF3) mRNA, complete cds, alternatively spliced.
AB528347 - Synthetic construct DNA, clone: pF1KB7921, Homo sapiens ATF3 gene for activating transcription factor 3, without stop codon, in Flexi system.
CR450334 - Homo sapiens full open reading frame cDNA clone RZPDo834A122D for gene ATF3, activating transcription factor 3; complete cds; without stopcodon.
DQ895972 - Synthetic construct Homo sapiens clone IMAGE:100010432; FLH189117.01L; RZPDo839B1064D activating transcription factor 3 (ATF3) gene, encodes complete protein.
BT006996 - Homo sapiens activating transcription factor 3 mRNA, complete cds.
DQ892723 - Synthetic construct clone IMAGE:100005353; FLH189121.01X; RZPDo839B1074D activating transcription factor 3 (ATF3) gene, encodes complete protein.
AB078026 - Homo sapiens ATF3deltaZip2a mRNA for ATF3deltaZip2, complete cds.
AB078027 - Homo sapiens ATF3deltaZip2b mRNA for ATF3deltaZip2, complete cds.
KJ896469 - Synthetic construct Homo sapiens clone ccsbBroadEn_05863 ATF3 gene, encodes complete protein.
AB209032 - Homo sapiens mRNA for activating transcription factor 3 long isoform variant protein.
AK123699 - Homo sapiens cDNA FLJ41705 fis, clone HLUNG2009729.
LF321417 - JP 2014500723-A/128920: Polycomb-Associated Non-Coding RNAs.
AB078028 - Homo sapiens ATF3deltaZip2exonD'DE'E mRNA for ATF3deltaZip2, partial cds.
JD443189 - Sequence 424213 from Patent EP1572962.
JD223848 - Sequence 204872 from Patent EP1572962.
JD155048 - Sequence 136072 from Patent EP1572962.
JD256464 - Sequence 237488 from Patent EP1572962.
JD040620 - Sequence 21644 from Patent EP1572962.
JD360022 - Sequence 341046 from Patent EP1572962.
JD530314 - Sequence 511338 from Patent EP1572962.
JD444654 - Sequence 425678 from Patent EP1572962.
JD507047 - Sequence 488071 from Patent EP1572962.
JD385733 - Sequence 366757 from Patent EP1572962.
JD350814 - Sequence 331838 from Patent EP1572962.
JD511946 - Sequence 492970 from Patent EP1572962.
JD475934 - Sequence 456958 from Patent EP1572962.
JD475935 - Sequence 456959 from Patent EP1572962.
JD347232 - Sequence 328256 from Patent EP1572962.
JD231467 - Sequence 212491 from Patent EP1572962.
JD210284 - Sequence 191308 from Patent EP1572962.
JD074759 - Sequence 55783 from Patent EP1572962.
JD099294 - Sequence 80318 from Patent EP1572962.
JD180865 - Sequence 161889 from Patent EP1572962.
JD093511 - Sequence 74535 from Patent EP1572962.
JD327804 - Sequence 308828 from Patent EP1572962.
JD480623 - Sequence 461647 from Patent EP1572962.
JD196621 - Sequence 177645 from Patent EP1572962.
JD068000 - Sequence 49024 from Patent EP1572962.
JD556151 - Sequence 537175 from Patent EP1572962.
JD548720 - Sequence 529744 from Patent EP1572962.
JD358317 - Sequence 339341 from Patent EP1572962.
MA556994 - JP 2018138019-A/128920: Polycomb-Associated Non-Coding RNAs.
MA447356 - JP 2018138019-A/19282: Polycomb-Associated Non-Coding RNAs.
MA441092 - JP 2018138019-A/13018: Polycomb-Associated Non-Coding RNAs.
MA449424 - JP 2018138019-A/21350: Polycomb-Associated Non-Coding RNAs.

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

Protein P18847 (Reactome details) participates in the following event(s):

R-HSA-380994 ATF4 activates genes
R-HSA-381042 PERK regulates gene expression
R-HSA-381119 Unfolded Protein Response (UPR)
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ATF3_HUMAN, NM_001206484, NP_001193417, P18847, Q6ICQ9, Q7Z566, Q8WYM6
UCSC ID: uc021pit.1
RefSeq Accession: NM_001206484
Protein: P18847 (aka ATF3_HUMAN)
CCDS: CCDS58059.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_001206484.2
exon count: 5CDS single in 3' UTR: no RNA size: 2048
ORF size: 375CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1598.00frame shift in genome: no % Coverage: 99.37
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.