Human Gene KPNA3 (ENST00000261667.8) from GENCODE V44
  Description: Homo sapiens karyopherin subunit alpha 3 (KPNA3), mRNA. (from RefSeq NM_002267)
RefSeq Summary (NM_002267): The transport of molecules between the nucleus and the cytoplasm in eukaryotic cells is mediated by the nuclear pore complex (NPC), which consists of 60-100 proteins. Small molecules (up to 70 kD) can pass through the nuclear pore by nonselective diffusion while larger molecules are transported by an active process. The protein encoded by this gene belongs to the importin alpha family, and is involved in nuclear protein import. [provided by RefSeq, Jan 2009].
Gencode Transcript: ENST00000261667.8
Gencode Gene: ENSG00000102753.10
Transcript (Including UTRs)
   Position: hg38 chr13:49,699,320-49,792,682 Size: 93,363 Total Exon Count: 17 Strand: -
Coding Region
   Position: hg38 chr13:49,701,800-49,792,506 Size: 90,707 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:49,699,320-49,792,682)mRNA (may differ from genome)Protein (521 aa)
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-  Comments and Description Text from UniProtKB
  ID: IMA3_HUMAN
DESCRIPTION: RecName: Full=Importin subunit alpha-3; AltName: Full=Importin alpha Q2; Short=Qip2; AltName: Full=Karyopherin subunit alpha-3; AltName: Full=SRP1-gamma;
FUNCTION: Functions in nuclear protein import as an adapter protein for nuclear receptor KPNB1. Binds specifically and directly to substrates containing either a simple or bipartite NLS motif. Docking of the importin/substrate complex to the nuclear pore complex (NPC) is mediated by KPNB1 through binding to nucleoporin FxFG repeats and the complex is subsequently translocated through the pore by an energy requiring, Ran- dependent mechanism. At the nucleoplasmic side of the NPC, Ran binds to importin-beta and the three components separate and importin-alpha and -beta are re-exported from the nucleus to the cytoplasm where GTP hydrolysis releases Ran from importin. The directionality of nuclear import is thought to be conferred by an asymmetric distribution of the GTP- and GDP-bound forms of Ran between the cytoplasm and nucleus. In vitro, mediates the nuclear import of human cytomegalovirus UL84 by recognizing a non- classical NLS. Recognizes NLSs of influenza A virus nucleoprotein probably through ARM repeats 7-9.
SUBUNIT: Forms a complex with importin subunit beta-1. Interacts with HIV-1 integrase; this interaction might play a role in nuclear import of HIV pre-integration complex. Interacts with influenza virus nucleoprotein; this interaction might play a role in nuclear import of viral genome.
INTERACTION: P46527:CDKN1B; NbExp=4; IntAct=EBI-358297, EBI-519280;
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Nucleus (By similarity).
TISSUE SPECIFICITY: Ubiquitous. Highest levels in heart and skeletal muscle.
DOMAIN: Consists of an N-terminal hydrophilic region, a hydrophobic central region composed of 10 repeats, and a short hydrophilic C-terminus. The N-terminal hydrophilic region contains the importin beta binding domain (IBB domain), which is sufficient for binding importin beta and essential for nuclear protein import.
DOMAIN: The IBB domain is thought to act as an intrasteric autoregulatory sequence by interacting with the internal autoinhibitory NLS. Binding of KPNB1 probably overlaps the internal NLS and contributes to a high affinity for cytoplasmic NLS-containing cargo substrates. After dissociation of the importin/substrate complex in the nucleus the internal autohibitory NLS contributes to a low affinity for nuclear NLS- containing proteins (By similarity).
DOMAIN: The major and minor NLS binding sites are mainly involved in recognition of simple or bipartite NLS motifs. Structurally located within in a helical surface groove they contain several conserved Trp and Asn residues of the corresponding third helices (H3) of ARM repeats which mainly contribute to binding (By similarity).
SIMILARITY: Belongs to the importin alpha family.
SIMILARITY: Contains 10 ARM repeats.
SIMILARITY: Contains 1 IBB domain.
CAUTION: Was termed (PubMed:9395085) importin alpha-4.

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

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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: KPNA3
Diseases sorted by gene-association score: influenza (9)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 38.70 RPKM in Muscle - Skeletal
Total median expression: 535.77 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 -54.60176-0.310 Picture PostScript Text
3' UTR -592.742480-0.239 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
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR000225 - Armadillo
IPR002652 - Importin-a_IBB
IPR024931 - Importing_su_alpha

Pfam Domains:
PF00514 - Armadillo/beta-catenin-like repeat
PF01749 - Importin beta binding domain

ModBase Predicted Comparative 3D Structure on O00505
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-  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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
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Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0008022 protein C-terminus binding
GO:0008139 nuclear localization sequence binding
GO:0008565 protein transporter activity
GO:0061608 nuclear import signal receptor activity

Biological Process:
GO:0006606 protein import into nucleus
GO:0006607 NLS-bearing protein import into nucleus
GO:0015031 protein transport
GO:0016032 viral process
GO:0019054 modulation by virus of host process
GO:0046718 viral entry into host cell
GO:0065003 macromolecular complex assembly
GO:0075732 viral penetration into host nucleus

Cellular Component:
GO:0005634 nucleus
GO:0005643 nuclear pore
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0043657 host cell


-  Descriptions from all associated GenBank mRNAs
  BC035090 - Homo sapiens karyopherin alpha 3 (importin alpha 4), mRNA (cDNA clone MGC:43142 IMAGE:5261465), complete cds.
DL492064 - Novel nucleic acids.
DL490613 - Novel nucleic acids.
BC017355 - Homo sapiens karyopherin alpha 3 (importin alpha 4), mRNA (cDNA clone MGC:29709 IMAGE:5020312), complete cds.
BC024202 - Homo sapiens karyopherin alpha 3 (importin alpha 4), mRNA (cDNA clone MGC:3695 IMAGE:3531069), complete cds.
D89618 - Homo sapiens mRNA for karyopherin alhph 3, complete cds.
AF034756 - Homo sapiens importin-alpha homolog (SRP1gamma) mRNA, complete cds.
JD363480 - Sequence 344504 from Patent EP1572962.
JD539275 - Sequence 520299 from Patent EP1572962.
AK291000 - Homo sapiens cDNA FLJ78124 complete cds, highly similar to Homo sapiens karyopherin alpha 3 (importin alpha 4) (KPNA3), mRNA.
JD222220 - Sequence 203244 from Patent EP1572962.
JD055441 - Sequence 36465 from Patent EP1572962.
AK290528 - Homo sapiens cDNA FLJ75511 complete cds, highly similar to Homo sapiens karyopherin alpha 3 (importin alpha 4) (KPNA3), mRNA.
Y12394 - H.sapiens mRNA for SRP1-like protein.
AF005263 - Homo sapiens importin alpha-3 subunit mRNA, complete cds.
JD359974 - Sequence 340998 from Patent EP1572962.
JD236690 - Sequence 217714 from Patent EP1572962.
JD542430 - Sequence 523454 from Patent EP1572962.
JD451413 - Sequence 432437 from Patent EP1572962.
AK223480 - Homo sapiens mRNA for karyopherin alpha 3 variant, clone: FCC119C03.
JD266844 - Sequence 247868 from Patent EP1572962.
JD357701 - Sequence 338725 from Patent EP1572962.
JD315828 - Sequence 296852 from Patent EP1572962.
KJ897108 - Synthetic construct Homo sapiens clone ccsbBroadEn_06502 KPNA3 gene, encodes complete protein.
DQ892644 - Synthetic construct clone IMAGE:100005274; FLH188582.01X; RZPDo839D1173D karyopherin alpha 3 (importin alpha 4) (KPNA3) gene, encodes complete protein.
DQ895882 - Synthetic construct Homo sapiens clone IMAGE:100010342; FLH188578.01L; RZPDo839D1163D karyopherin alpha 3 (importin alpha 4) (KPNA3) gene, encodes complete protein.
AB528414 - Synthetic construct DNA, clone: pF1KB5888, Homo sapiens KPNA3 gene for karyopherin alpha 3, without stop codon, in Flexi system.
JD458547 - Sequence 439571 from Patent EP1572962.
JD458504 - Sequence 439528 from Patent EP1572962.
JD148765 - Sequence 129789 from Patent EP1572962.

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

Protein O00505 (Reactome details) participates in the following event(s):

R-HSA-6791035 Release of NS1 homodimer
R-HSA-168276 NS1 Mediated Effects on Host Pathways
R-HSA-1169408 ISG15 antiviral mechanism
R-HSA-168253 Host Interactions with Influenza Factors
R-HSA-1169410 Antiviral mechanism by IFN-stimulated genes
R-HSA-168254 Influenza Infection
R-HSA-913531 Interferon Signaling
R-HSA-5663205 Infectious disease
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-1643685 Disease
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000261667.1, ENST00000261667.2, ENST00000261667.3, ENST00000261667.4, ENST00000261667.5, ENST00000261667.6, ENST00000261667.7, IMA3_HUMAN, NM_002267, O00191, O00505, O43195, Q5JVM9, Q96AA7, QIP2, uc001vdj.1, uc001vdj.2, uc001vdj.3
UCSC ID: ENST00000261667.8
RefSeq Accession: NM_002267
Protein: O00505 (aka IMA3_HUMAN)
CCDS: CCDS9421.1

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