Tbio NPM1 Nucleophosmin

Protein Classes

PANTHER Classes

Protein / Chaperone / Nucleophosmin

DTO Classes

Protein / Chaperone / Nucleophosmin

Protein Summary

Description

Involved in diverse cellular processes such as ribosome biogenesis, centrosome duplication, protein chaperoning, histone assembly, cell proliferation, and regulation of tumor suppressors p53/TP53 and ARF. Binds ribosome presumably to drive ribosome nuclear export. Associated with nucleolar ribonucleoprotein structures and bind single-stranded nucleic acids. Acts as a chaperonin for the core histones H3, H2B and H4. Stimulates APEX1 endonuclease activity on apurinic/apyrimidinic (AP) double-stranded DNA but inhibits APEX1 endonuclease activity on AP single-stranded RNA. May exert a control of APEX1 endonuclease activity within nucleoli devoted to repair AP on rDNA and the removal of oxidized rRNA molecules. In concert with BRCA2, regulates centrosome duplication. Regulates centriole duplication: phosphorylation by PLK2 is able to trigger centriole replication. Negatively regulates the activation of EIF2AK2/PKR and suppresses apoptosis through inhibition of EIF2AK2/PKR autophosphorylation. Antagonizes the inhibitory effect of ATF5 on cell proliferation and relieves ATF5-induced G2/M blockade (PubMed:22528486). In complex with MYC enhances the transcription of MYC target genes (PubMed:25956029). The protein encoded by this gene is involved in several cellular processes, including centrosome duplication, protein chaperoning, and cell proliferation. The encoded phosphoprotein shuttles between the nucleolus, nucleus, and cytoplasm, chaperoning ribosomal proteins and core histones from the nucleus to the cytoplasm. This protein is also known to sequester the tumor suppressor ARF in the nucleolus, protecting it from degradation until it is needed. Mutations in this gene are associated with acute myeloid leukemia. Dozens of pseudogenes of this gene have been identified. [provided by RefSeq, Aug 2017]

Uniprot Accession IDs

• P06748
• A8K3N7
• B5BU00
• D3DQL6
• P08693
• Q12826
• Q13440
• Q13441
• Q14115
• Q5EU94
• Q5EU95
• Q5EU96
• Q5EU97
• Q5EU98
• Q5EU99
• Q6V962
• Q8WTW5
• Q96AT6
• Q96DC4
• Q96EA5
• Q9BYG9
• Q9UDJ7
• NPM

Gene Name

• NPM1

Ensembl ID

• ENST00000296930
• ENSP00000296930
• ENSG00000181163
• ENST00000351986
• ENSP00000341168
• ENST00000393820
• ENSP00000377408
• ENST00000517671
• ENSP00000428755

Symbol

• NPM
• B23
• NPM

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
disease perturbation	1
drug perturbation	1
hub protein	1
interacting protein	1
kinase perturbation	0.99

Related Tools

Target Illumination GWAS Analytics (TIGA)

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 1814.11   (req: < 5)

Gene RIFs: 493   (req: <= 3)

Antibodies: 1163   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 1814.11   (req: >= 5)

Gene RIFs: 493   (req: > 3)

Antibodies: 1163   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 52

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

GWAS Traits (1)

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GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mathematical ability	EFO_0004875	2	2	2		59.1

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mathematical ability	EFO_0004875	2		59.1

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Orthologs (11)

1 – 5 of 11

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Mouse	nucleophosmin 1	MGI:106184	18148
Rat	nucleophosmin 1	RGD:3192	25498
Dog	nucleophosmin 1		479292
Horse	nucleophosmin 1	VGNC:20841	100059112
Cow	nucleophosmin 1		614028

Species	Name	OMA	EggNOG	Inparanoid
Mouse	nucleophosmin 1
Rat	nucleophosmin 1
Dog	nucleophosmin 1
Horse	nucleophosmin 1
Cow	nucleophosmin 1

Protein Structure (4 Structures, 1 AlphaFold Model)

Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-P06748-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 4 of 4

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (26)

Reactome (23)

PathwayCommons (3)

Cell Cycle (R-HSA-1640170)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Cell Cycle	597 targets	R-HSA-1640170
Reactome	Chromosome Maintenance	88 targets	R-HSA-73886
Reactome	Deposition of new CENPA-containing nucleosomes at the centromere	52 targets	R-HSA-606279
Reactome	Disease	1105 targets	R-HSA-1643685
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160

Name	Explore in Pharos	Explore in Source
Cell Cycle	597 targets	R-HSA-1640170
Chromosome Maintenance	88 targets	R-HSA-73886
Deposition of new CENPA-containing nucleosomes at the centromere	52 targets	R-HSA-606279
Disease	1105 targets	R-HSA-1643685
Gene expression (Transcription)	1452 targets	R-HSA-74160

Gene Ontology Terms (64)

Functions (16)

Components (12)

Processes (36)

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GO Term	Evidence	Assigned by
core promoter binding	Inferred from Direct Assay (IDA)	CAFA
histone binding	Inferred from Direct Assay (IDA)	UniProtKB
NF-kappaB binding	Inferred from Direct Assay (IDA)	UniProtKB
protein homodimerization activity	Inferred from Direct Assay (IDA)	UniProtKB
protein kinase inhibitor activity	Inferred from Direct Assay (IDA)	UniProtKB
ribosomal large subunit binding	Inferred from Direct Assay (IDA)	MGI
ribosomal small subunit binding	Inferred from Direct Assay (IDA)	MGI
RNA binding	Inferred from Direct Assay (IDA)	UniProtKB
Tat protein binding	Inferred from Direct Assay (IDA)	UniProtKB
transcription coactivator activity	Inferred from Direct Assay (IDA)	UniProtKB

Protein-Protein Interactions (455)

Explore Interacting Targets

1 – 10 of 455

• See Interactions on String-DB

USP36

Tbio

Family: Enzyme

Novelty: 0.02779727

p_int: 0.999998455

p_ni: 0.000001545

Score: 0.538

Data Source: BioPlex,STRINGDB

NPM2

Tbio

Novelty: 0.03674672

p_int: 0.999923046

p_ni: 0.000076954

Score: 0.605

Data Source: BioPlex,STRINGDB

RPP25

Tbio

Family: Enzyme

Novelty: 0.07178063

p_int: 0.998624864

p_ni: 0.001375096

p_wrong: 4.1e-8

Score: 0.52

Data Source: BioPlex,STRINGDB

H2AFX

Tbio

Novelty: 0.00048694

p_int: 0.998123878

p_ni: 0.001876122

Score: 0.953

Data Source: BioPlex,STRINGDB

RPP25L

Tdark

Family: Enzyme

Novelty: 1.39761189

p_int: 0.997911688

p_ni: 0.001864232

p_wrong: 0.000224081

Score: 0.221

Data Source: BioPlex,STRINGDB

POP4

Tbio

Family: Enzyme

Novelty: 0.01072287

p_int: 0.994801362

p_ni: 0.005198638

Score: 0.343

Data Source: BioPlex,STRINGDB

RPL36AL

Tbio

Novelty: 0.09336423

p_int: 0.992819854

p_ni: 0.007174858

p_wrong: 0.000005288

Score: 0.272

Data Source: BioPlex,STRINGDB

RPP40

Tbio

Family: Enzyme

Novelty: 0.05981624

p_int: 0.992184636

p_ni: 0.007813859

p_wrong: 0.000001505

Score: 0.59

Data Source: BioPlex,STRINGDB

NMNAT1

Tbio

Family: Enzyme

Novelty: 0.01110899

p_int: 0.991369088

p_ni: 0.008630912

Data Source: BioPlex

RRP8

Tbio

Family: Enzyme

Novelty: 0.04922797

p_int: 0.991107802

p_ni: 0.008892198

Score: 0.46

Data Source: BioPlex,STRINGDB

Publication Statistics

PubMed Score  1814.11

PubMed score by year

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PubTator Score  1203.81

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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3D-structure
Acetylation
ADP-ribosylation
Alternative splicing
Chaperone
Chromosomal rearrangement
Complete proteome
Cytoplasm
Cytoskeleton
Direct protein sequencing

GWAS Trait Find Similar Targets

mathematical ability

MGI Phenotype Find Similar Targets

cardiovascular system phenotype
cellular phenotype
embryo phenotype
growth/size/body region phenotype
hematopoietic system phenotype
immune system phenotype
integument phenotype
liver/biliary system phenotype
mortality/aging
neoplasm