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TNPO1 transportin 1 [ Homo sapiens (human) ]

Gene ID: 3842, updated on 3-Jan-2019

Summary

Official Symbol
TNPO1provided by HGNC
Official Full Name
transportin 1provided by HGNC
Primary source
HGNC:HGNC:6401
See related
Ensembl:ENSG00000083312 MIM:602901
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MIP; TRN; IPO2; MIP1; KPNB2
Summary
This gene encodes the beta subunit of the karyopherin receptor complex which interacts with nuclear localization signals to target nuclear proteins to the nucleus. The karyopherin receptor complex is a heterodimer of an alpha subunit which recognizes the nuclear localization signal and a beta subunit which docks the complex at nucleoporins. Alternate splicing of this gene results in several transcript variants encoding different proteins. [provided by RefSeq, Jun 2018]
Expression
Ubiquitous expression in thyroid (RPKM 18.9), testis (RPKM 17.9) and 25 other tissues See more
Orthologs

Genomic context

See TNPO1 in Genome Data Viewer
Location:
5q13.2
Exon count:
26
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 5 NC_000005.10 (72816591..72914388)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (72112418..72210215)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2056 Neighboring gene ribosomal protein L7 pseudogene 22 Neighboring gene ribosomal protein L35a pseudogene 13 Neighboring gene microRNA 4804 Neighboring gene CTD nuclear envelope phosphatase 1 pseudogene Neighboring gene FCH domain only 2 Neighboring gene calcineurin like EF-hand protein 1 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, TNPO1, is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed
rev importin beta specifically binds to the Rev nuclear localization signal (NLS, amino acids 35-50) and mediates the nuclear import of Rev PubMed
rev Importin beta can inhibit the interaction of HIV-1 Rev with HIV-1 RRE RNA PubMed
Tat tat The binding of HIV-1 Tat with importin beta is inhibited by RanGTP PubMed
tat Importin beta binds to the HIV-1 Tat protein nuclear localization signal (NLS; amino acids 49-57) and mediates the nuclear import of Tat through a novel import pathway PubMed
Vpr vpr HIV-1 Vpr causes increased levels of CyclinB1, Plk1, and Cdk1 in a complex with the nuclear transport and spindle assembly protein, importin beta PubMed
vpr HIV-1 Vpr co-localizes with karyopherin beta and regulates karyopherin beta-mediated docking of the HIV-1 preintegration complex at the nuclear envelope, however multiple reports indicate the two proteins do not directly interact PubMed
integrase gag-pol Some reports indicate a possible role for the interactions between karyopherin alpha and beta with HIV-1 integrase in the nuclear import of HIV-1 preintegration complexes (PIC), while other reports indicate integrase is not involved in PIC nuclear import PubMed
gag-pol Karyopherin beta binds to complexes between HIV-1 integrase (integrase/GST fusion protein) and karyopherin alpha, but not to integrase alone PubMed
gag-pol Karyopherin alpha and beta are reported to interact with HIV-1 integrase (IN) to facilitate nuclear import of IN, however a conflicting report indicates nuclear accumulation of IN does not involve karyopherin alpha, beta 1, or beta 2 mediated pathways PubMed
matrix gag Karyopherin beta mediates the nuclear import of HIV-1 preintegration complexes through karyopherin alpha, which binds directly to nuclear localization signals in HIV-1 Matrix PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Cilium Assembly, organism-specific biosystem (from REACTOME)
    Cilium Assembly, organism-specific biosystemCilia are membrane covered organelles that extend from the surface of eukaryotic cells. Cilia may be motile, such as respiratory cilia) or non-motile (such as the primary cilium) and are distinguishe...
  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Intraflagellar transport, organism-specific biosystem (from REACTOME)
    Intraflagellar transport, organism-specific biosystemIntraflagellar transport (IFT) is a motor-based process that controls the anterograde and retrograde transport of large protein complexes, ciliary cargo and structural components along the ciliary ax...
  • Organelle biogenesis and maintenance, organism-specific biosystem (from REACTOME)
    Organelle biogenesis and maintenance, organism-specific biosystemThis module describes the biogenesis of organelles. Organelles are subcellular structures of distinctive morphology and function. The organelles of human cells include: mitochondria, endoplasmic reti...
  • Regulation of mRNA stability by proteins that bind AU-rich elements, organism-specific biosystem (from REACTOME)
    Regulation of mRNA stability by proteins that bind AU-rich elements, organism-specific biosystemRNA elements rich in adenine and uracil residues (AU-rich elements) bind specific proteins which either target the RNA for degradation or, more rarely, stabilize the RNA. The activity of the AU-eleme...
  • Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA, organism-specific biosystem (from REACTOME)
    Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA, organism-specific biosystemTristetraproline (TTP) binds RNAs that contain AU-rich elements and recruits enzymes that degrade RNA. TTP interacts with the exosome (3' to 5' exonuclease), XRN1 (5' to 3' exonuclease), and the deca...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
Ran GTPase binding IEA
Inferred from Electronic Annotation
more info
 
nuclear localization sequence binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
NLS-bearing protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intraciliary transport involved in cilium assembly TAS
Traceable Author Statement
more info
 
protein import into nucleus IDA
Inferred from Direct Assay
more info
PubMed 
regulation of mRNA stability TAS
Traceable Author Statement
more info
 
ribosomal protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cilium TAS
Traceable Author Statement
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
nuclear membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear periphery IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
transportin-1
Names
M9 region interaction protein
importin 2
importin beta 2
karyopherin (importin) beta 2
karyopherin beta-2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001364292.1NP_001351221.1  transportin-1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1. Variants 2, 3, and 4 all encode the same isoform (2).
    Source sequence(s)
    AC008953, AC008972, AC035140
    Conserved Domains (2) summary
    COG5215
    Location:24759
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]
  2. NM_001364293.1NP_001351222.1  transportin-1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1. Variants 2, 3, and 4 all encode the same isoform (2).
    Source sequence(s)
    AC008953, AC008972
    Conserved Domains (2) summary
    COG5215
    Location:24759
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]
  3. NM_001364294.1NP_001351223.1  transportin-1 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (3) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform 1.
    Source sequence(s)
    AC008953, AC008972
    Conserved Domains (2) summary
    COG5215
    Location:24733
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]
  4. NM_001364295.1NP_001351224.1  transportin-1 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC008953, AC008972, AC035140
    Conserved Domains (2) summary
    COG5215
    Location:67717
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:87115
    HEAT; HEAT repeat [structural motif]
  5. NM_001364296.1NP_001351225.1  transportin-1 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (5) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC008953
    Conserved Domains (3) summary
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]
    pfam03810
    Location:34101
    IBN_N; Importin-beta N-terminal domain
    cl27876
    Location:23188
    Cse1
  6. NM_002270.3NP_002261.3  transportin-1 isoform 1

    See identical proteins and their annotated locations for NP_002261.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC008972, AC035140, U70322, U72069
    Consensus CDS
    CCDS43329.1
    UniProtKB/Swiss-Prot
    Q92973
    UniProtKB/TrEMBL
    A0A024RAM0
    Related
    ENSP00000336712.5, ENST00000337273.9
    Conserved Domains (2) summary
    COG5215
    Location:32767
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:103124
    HEAT; HEAT repeat [structural motif]
  7. NM_153188.2NP_694858.1  transportin-1 isoform 2

    See identical proteins and their annotated locations for NP_694858.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1. Variants 2, 3, and 4 all encode the same isoform (2).
    Source sequence(s)
    AC008953, AC008972, U70322, U72069
    Consensus CDS
    CCDS4016.1
    UniProtKB/Swiss-Prot
    Q92973
    Related
    ENSP00000425118.2, ENST00000506351.6
    Conserved Domains (2) summary
    COG5215
    Location:24759
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p12 Primary Assembly

    Range
    72816591..72914388
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005248501.2XP_005248558.1  transportin-1 isoform X1

    See identical proteins and their annotated locations for XP_005248558.1

    Conserved Domains (2) summary
    COG5215
    Location:32741
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:103124
    HEAT; HEAT repeat [structural motif]
  2. XM_017009458.1XP_016864947.1  transportin-1 isoform X2

    Conserved Domains (2) summary
    COG5215
    Location:24733
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]
  3. XM_005248500.2XP_005248557.1  transportin-1 isoform X3

    UniProtKB/Swiss-Prot
    Q92973
    Related
    ENSP00000428899.1, ENST00000523768.5
    Conserved Domains (2) summary
    COG5215
    Location:24759
    KAP95; Karyopherin (importin) beta [Intracellular trafficking and secretion]
    sd00044
    Location:95116
    HEAT; HEAT repeat [structural motif]
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