TPR translocated promoter region, nuclear basket protein [Homo sapiens (human)] - Gene

Summary

Official Symbol: TPRprovided by HGNC
Official Full Name: translocated promoter region, nuclear basket proteinprovided by HGNC
Primary source: HGNC:HGNC:12017
See related: Ensembl:ENSG00000047410 MIM:189940
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
Summary: This gene encodes a large coiled-coil protein that forms intranuclear filaments attached to the inner surface of nuclear pore complexes (NPCs). The protein directly interacts with several components of the NPC. It is required for the nuclear export of mRNAs and some proteins. Oncogenic fusions of the 5' end of this gene with several different kinase genes occur in some neoplasias. [provided by RefSeq, Jul 2008]
Expression: Ubiquitous expression in testis (RPKM 29.9), thyroid (RPKM 16.2) and 25 other tissues See more
Orthologs: mouse all

Genomic context

Location:: 1q31.1

Exon count:: 51

Annotation release	Status	Assembly	Chr	Location
109.20200228	current	GRCh38.p13 (GCF_000001405.39)	1	NC_000001.11 (186311652..186375253, complement)
105	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (186280784..186344883, complement)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TPR contributes to the organization of the nuclear lamina and in cooperation with lamin B1 and lamin A-C guards the interphase assembly of nuclear pore complexes.
Title: Nuclear pore protein TPR associates with lamin B1 and affects nuclear lamina organization and nuclear pore distribution.
TPR is necessary for both formation and maintenance of senescence-associated heterochromatin foci
Title: Nuclear pore density controls heterochromatin reorganization during senescence.
Fusion of TPR(2-142) protein to the MET intracellular domain strongly and selectively stabilizes the alphaG helix of the MET kinase domain.TPR has an ability to induce dimerization and activation of fusion kinases.
Title: Structural Basis of TPR-Mediated Oligomerization and Activation of Oncogenic Fusion Kinases.
Using a BioID proximity-based proteomic screen, we identify the nuclear pore complex protein TPR as a novel AKAP95 binding partner. We show interaction between AKAP95 and TPR in mitosis, and an AKAP95-dependent enrichment of TPR in the spindle microtubule area in metaphase, then later in the spindle midzone area.
Title: AKAP95 interacts with nucleoporin TPR in mitosis and is important for the spindle assembly checkpoint.
Report mutual regulation between Tpr and Aurora A and further confirm the importance of nucleoporin function in spindle pole organization, bipolar spindle assembly, and mitosis.
Title: Therapeutic potential of mitotic interaction between the nucleoporin Tpr and aurora kinase A.
Tpr maintains a chromatin environment favourable for HIV replication.
Title: Chromatin organization at the nuclear pore favours HIV replication.
SLK interacts with Tpr and alpha-actinin-4 in cells, and these protein-protein interactions may control the subcellular localization and the biological activity of SLK.
Title: Identification of Tpr and α-actinin-4 as two novel SLK-interacting proteins.
Protein kinase A phosphorylates the S2094 residue and that the site is hyperphosphorylated during mitosis.
Title: Phosphorylation of nucleoporin Tpr governs its differential localization and is required for its mitotic function.
analysis of interactions between CRM1 and the nuclear pore protein Tpr and snurportin
Title: The interaction of CRM1 and the nuclear pore protein Tpr.
Tpr is a kinetochore-independent, rate-limiting factor required to mount and sustain a robust SAC response.
Title: Spindle assembly checkpoint robustness requires Tpr-mediated regulation of Mad1/Mad2 proteostasis.

Submit: New GeneRIF Correction See all GeneRIFs (23)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
HIV-1 replication requires PSIP1 (LEDGF/p75) and TPR to maintain chromatin structure amenable to integration as shown through shRNA treatment	PubMed
HIV-1 requires NUP153 and TPR for infectivity as shown by shRNA knockdown experiments utilizing HeLa-derived P4-CCR5 cells and jurkat T cells	PubMed
Knockdown of translocated promoter region (to activated MET oncogene) (TPR) by shRNA library screening inhibits HIV-1 replication in cultured Jurkat T-cells	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Pr55(Gag)	gag	Cellular biotinylated nucleoprotein TPR is incorporated into HIV-1 Gag virus-like particles	PubMed
Tat	tat	Depletion of translocated promoter region, nuclear basket protein (TPR) by siRNA enhances HIV-1 Tat activation of HIV-1 LTR, which is not the results of increased Tat expression and release of CDK9/CCNT1 from 7SK snRNP, and activation of NF-kappaB	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D8S2279 (e-PCR)
- UniSTS:473907

SHGC-110732 (e-PCR)
- UniSTS:167993

L18426 (e-PCR)
- UniSTS:34648

G62041 (e-PCR)
- UniSTS:139135

D11S3114 (e-PCR)
- UniSTS:152207

RH80846 (e-PCR)
- UniSTS:87439

G31461 (e-PCR)
- UniSTS:73106

G19412 (e-PCR)
- UniSTS:38371

Homology

Homologs of the TPR gene: The TPR gene is conserved in chimpanzee, Rhesus monkey, dog, cow, mouse, rat, chicken, zebrafish, fruit fly, mosquito, and frog.
Orthologs from Annotation Pipeline: 298 organisms have orthologs with human gene TPR
Orthologs

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
RNA binding	HDA more info	PubMed
chromatin binding	IDA Inferred from Direct Assay more info	PubMed
dynein complex binding	IDA Inferred from Direct Assay more info	PubMed
heat shock protein binding	IDA Inferred from Direct Assay more info	PubMed
mRNA binding	IDA Inferred from Direct Assay more info	PubMed
mitogen-activated protein kinase binding	IDA Inferred from Direct Assay more info	PubMed
protein binding	IPI Inferred from Physical Interaction more info	PubMed
protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed
NOT protein membrane anchor	IMP Inferred from Mutant Phenotype more info	PubMed
structural constituent of nuclear pore	IBA Inferred from Biological aspect of Ancestor more info	PubMed
structural constituent of nuclear pore	IDA Inferred from Direct Assay more info	PubMed
tubulin binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
RNA export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
RNA import into nucleus	IDA Inferred from Direct Assay more info	PubMed
cell division	IEA Inferred from Electronic Annotation more info
cellular response to heat	IDA Inferred from Direct Assay more info	PubMed
cellular response to interferon-alpha	ISS Inferred from Sequence or Structural Similarity more info
intracellular transport of virus	TAS Traceable Author Statement more info
mRNA export from nucleus	IBA Inferred from Biological aspect of Ancestor more info	PubMed
mRNA export from nucleus	TAS Traceable Author Statement more info
mRNA export from nucleus in response to heat stress	IDA Inferred from Direct Assay more info	PubMed
mitotic spindle assembly checkpoint	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of RNA export from nucleus	IDA Inferred from Direct Assay more info	PubMed
negative regulation of RNA export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
negative regulation of translational initiation	IMP Inferred from Mutant Phenotype more info	PubMed
NOT nuclear matrix organization	IMP Inferred from Mutant Phenotype more info	PubMed
NOT nuclear pore complex assembly	IMP Inferred from Mutant Phenotype more info	PubMed
nuclear pore organization	IMP Inferred from Mutant Phenotype more info	PubMed
NOT nuclear pore organization	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of heterochromatin assembly	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of intracellular protein transport	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of mitotic cell cycle spindle assembly checkpoint	IMP Inferred from Mutant Phenotype more info	PubMed
positive regulation of protein export from nucleus	ISS Inferred from Sequence or Structural Similarity more info
positive regulation of protein import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
NOT protein export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
NOT protein import into nucleus	IDA Inferred from Direct Assay more info	PubMed
protein import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
NOT protein import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
protein sumoylation	TAS Traceable Author Statement more info
regulation of cellular response to heat	TAS Traceable Author Statement more info
regulation of gene silencing by miRNA	TAS Traceable Author Statement more info
regulation of glycolytic process	TAS Traceable Author Statement more info
NOT regulation of mRNA export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
regulation of mitotic sister chromatid separation	IMP Inferred from Mutant Phenotype more info	PubMed
regulation of mitotic spindle assembly	IBA Inferred from Biological aspect of Ancestor more info	PubMed
regulation of mitotic spindle assembly	IMP Inferred from Mutant Phenotype more info	PubMed
NOT regulation of protein export from nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
NOT regulation of protein import into nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
regulation of protein localization	IMP Inferred from Mutant Phenotype more info	PubMed
NOT regulation of protein stability	IMP Inferred from Mutant Phenotype more info	PubMed
response to epidermal growth factor	IDA Inferred from Direct Assay more info	PubMed
tRNA export from nucleus	TAS Traceable Author Statement more info
viral process	TAS Traceable Author Statement more info
viral transcription	TAS Traceable Author Statement more info

Component	Evidence Code	Pubs
cytoplasm	IDA Inferred from Direct Assay more info	PubMed
cytoplasmic dynein complex	IDA Inferred from Direct Assay more info	PubMed
extrinsic component of membrane	IDA Inferred from Direct Assay more info	PubMed
host cell	IEA Inferred from Electronic Annotation more info
kinetochore	IDA Inferred from Direct Assay more info	PubMed
NOT kinetochore	IDA Inferred from Direct Assay more info	PubMed
mitotic spindle	IDA Inferred from Direct Assay more info	PubMed
nuclear envelope	IDA Inferred from Direct Assay more info	PubMed
nuclear inclusion body	IDA Inferred from Direct Assay more info	PubMed
nuclear membrane	IDA Inferred from Direct Assay more info	PubMed
nuclear periphery	IDA Inferred from Direct Assay more info	PubMed
nuclear pore	IBA Inferred from Biological aspect of Ancestor more info	PubMed
nuclear pore	IDA Inferred from Direct Assay more info	PubMed
nuclear pore nuclear basket	IDA Inferred from Direct Assay more info	PubMed
nucleoplasm	TAS Traceable Author Statement more info
nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: nucleoprotein TPR

Names: NPC-associated intranuclear protein; megator; nuclear pore complex-associated protein TPR; translocated promoter region (to activated MET oncogene); translocated promoter region protein; tumor potentiating region

NCBI Reference Sequences (RefSeq)

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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.

Genomic

NG_023284.1 RefSeqGene

Range

5073..68674

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_003292.3 → NP_003283.2 nucleoprotein TPR

See identical proteins and their annotated locations for NP_003283.2

Status: REVIEWED

Source sequence(s)

AA688415, AL133553, AL596220, U69668, X66397

Consensus CDS

CCDS41446.1

UniProtKB/Swiss-Prot

P12270

Related

ENSP00000356448.3, ENST00000367478.9

Conserved Domains (5) summary

COG1196
Location:53 → 796

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

TIGR04527
Location:964 → 1050

mycoplas_twoTM; two transmembrane protein

pfam00038
Location:765 → 1087

Filament; Intermediate filament protein

pfam07851
Location:1433 → 1509

TMPIT; TMPIT-like protein

pfam07926
Location:1038 → 1166

TPR_MLP1_2; TPR/MLP1/MLP2-like protein