Browse NPM1

Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Basic function annotation.
> Subcellular Location, Domain and Function
> Gene Ontology
> KEGG and Reactome Pathway
> Subcellular Location, Domain and Function
 
Subcellular Location Nucleus, nucleolus Nucleus, nucleoplasm Cytoplasm, cytoskeleton, microtubule organizing center, centrosome. Note=Generally nucleolar, but is translocated to the nucleoplasm in case of serum starvation or treatment with anticancer drugs. Has been found in the cytoplasm in patients with primary acute myelogenous leukemia (AML), but not with secondary AML. Can shuttle between cytoplasm and nucleus. Co- localizes with the methylated form of RPS10 in the granular component (GC) region of the nucleolus. Colocalized with nucleolin and APEX1 in nucleoli. Isoform 1 of NEK2 is required for its localization to the centrosome during mitosis.
Domain PF16276 Nucleophosmin C-terminal domain
PF03066 Nucleoplasmin/nucleophosmin domain
Function

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).

> Gene Ontology
 
Biological Process GO:0000075 cell cycle checkpoint
GO:0000077 DNA damage checkpoint
GO:0000082 G1/S transition of mitotic cell cycle
GO:0000226 microtubule cytoskeleton organization
GO:0001933 negative regulation of protein phosphorylation
GO:0006260 DNA replication
GO:0006275 regulation of DNA replication
GO:0006323 DNA packaging
GO:0006333 chromatin assembly or disassembly
GO:0006334 nucleosome assembly
GO:0006336 DNA replication-independent nucleosome assembly
GO:0006338 chromatin remodeling
GO:0006413 translational initiation
GO:0006417 regulation of translation
GO:0006446 regulation of translational initiation
GO:0006469 negative regulation of protein kinase activity
GO:0006913 nucleocytoplasmic transport
GO:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest
GO:0007050 cell cycle arrest
GO:0007093 mitotic cell cycle checkpoint
GO:0007098 centrosome cycle
GO:0007099 centriole replication
GO:0007346 regulation of mitotic cell cycle
GO:0007568 aging
GO:0007569 cell aging
GO:0010608 posttranscriptional regulation of gene expression
GO:0010639 negative regulation of organelle organization
GO:0010824 regulation of centrosome duplication
GO:0010826 negative regulation of centrosome duplication
GO:0010948 negative regulation of cell cycle process
GO:0010998 regulation of translational initiation by eIF2 alpha phosphorylation
GO:0022613 ribonucleoprotein complex biogenesis
GO:0022618 ribonucleoprotein complex assembly
GO:0030330 DNA damage response, signal transduction by p53 class mediator
GO:0031023 microtubule organizing center organization
GO:0031055 chromatin remodeling at centromere
GO:0031497 chromatin assembly
GO:0031570 DNA integrity checkpoint
GO:0031571 mitotic G1 DNA damage checkpoint
GO:0032069 regulation of nuclease activity
GO:0032070 regulation of deoxyribonuclease activity
GO:0032071 regulation of endodeoxyribonuclease activity
GO:0032886 regulation of microtubule-based process
GO:0033673 negative regulation of kinase activity
GO:0034080 CENP-A containing nucleosome assembly
GO:0034248 regulation of cellular amide metabolic process
GO:0034250 positive regulation of cellular amide metabolic process
GO:0034508 centromere complex assembly
GO:0034724 DNA replication-independent nucleosome organization
GO:0034728 nucleosome organization
GO:0042254 ribosome biogenesis
GO:0042255 ribosome assembly
GO:0042326 negative regulation of phosphorylation
GO:0042770 signal transduction in response to DNA damage
GO:0043044 ATP-dependent chromatin remodeling
GO:0043331 response to dsRNA
GO:0043486 histone exchange
GO:0043523 regulation of neuron apoptotic process
GO:0043555 regulation of translation in response to stress
GO:0043558 regulation of translational initiation in response to stress
GO:0044387 negative regulation of protein kinase activity by regulation of protein phosphorylation
GO:0044770 cell cycle phase transition
GO:0044772 mitotic cell cycle phase transition
GO:0044773 mitotic DNA damage checkpoint
GO:0044774 mitotic DNA integrity checkpoint
GO:0044783 G1 DNA damage checkpoint
GO:0044819 mitotic G1/S transition checkpoint
GO:0044839 cell cycle G2/M phase transition
GO:0044843 cell cycle G1/S phase transition
GO:0045727 positive regulation of translation
GO:0045740 positive regulation of DNA replication
GO:0045786 negative regulation of cell cycle
GO:0045787 positive regulation of cell cycle
GO:0045930 negative regulation of mitotic cell cycle
GO:0046599 regulation of centriole replication
GO:0046605 regulation of centrosome cycle
GO:0046606 negative regulation of centrosome cycle
GO:0051052 regulation of DNA metabolic process
GO:0051054 positive regulation of DNA metabolic process
GO:0051090 regulation of sequence-specific DNA binding transcription factor activity
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0051169 nuclear transport
GO:0051259 protein oligomerization
GO:0051260 protein homooligomerization
GO:0051297 centrosome organization
GO:0051298 centrosome duplication
GO:0051348 negative regulation of transferase activity
GO:0051402 neuron apoptotic process
GO:0051493 regulation of cytoskeleton organization
GO:0051494 negative regulation of cytoskeleton organization
GO:0060699 regulation of endoribonuclease activity
GO:0060700 regulation of ribonuclease activity
GO:0060735 regulation of eIF2 alpha phosphorylation by dsRNA
GO:0061641 CENP-A containing chromatin organization
GO:0065004 protein-DNA complex assembly
GO:0070507 regulation of microtubule cytoskeleton organization
GO:0070997 neuron death
GO:0071103 DNA conformation change
GO:0071156 regulation of cell cycle arrest
GO:0071158 positive regulation of cell cycle arrest
GO:0071359 cellular response to dsRNA
GO:0071407 cellular response to organic cyclic compound
GO:0071824 protein-DNA complex subunit organization
GO:0071826 ribonucleoprotein complex subunit organization
GO:0072331 signal transduction by p53 class mediator
GO:0072395 signal transduction involved in cell cycle checkpoint
GO:0072401 signal transduction involved in DNA integrity checkpoint
GO:0072413 signal transduction involved in mitotic cell cycle checkpoint
GO:0072422 signal transduction involved in DNA damage checkpoint
GO:0072431 signal transduction involved in mitotic G1 DNA damage checkpoint
GO:0090068 positive regulation of cell cycle process
GO:0098534 centriole assembly
GO:1901214 regulation of neuron death
GO:1901987 regulation of cell cycle phase transition
GO:1901988 negative regulation of cell cycle phase transition
GO:1901989 positive regulation of cell cycle phase transition
GO:1901990 regulation of mitotic cell cycle phase transition
GO:1901991 negative regulation of mitotic cell cycle phase transition
GO:1902115 regulation of organelle assembly
GO:1902400 intracellular signal transduction involved in G1 DNA damage checkpoint
GO:1902402 signal transduction involved in mitotic DNA damage checkpoint
GO:1902403 signal transduction involved in mitotic DNA integrity checkpoint
GO:1902749 regulation of cell cycle G2/M phase transition
GO:1902751 positive regulation of cell cycle G2/M phase transition
GO:1902806 regulation of cell cycle G1/S phase transition
GO:1902807 negative regulation of cell cycle G1/S phase transition
GO:2000045 regulation of G1/S transition of mitotic cell cycle
GO:2000134 negative regulation of G1/S transition of mitotic cell cycle
Molecular Function GO:0003713 transcription coactivator activity
GO:0004857 enzyme inhibitor activity
GO:0004860 protein kinase inhibitor activity
GO:0005543 phospholipid binding
GO:0005547 phosphatidylinositol-3,4,5-trisphosphate binding
GO:0008134 transcription factor binding
GO:0019207 kinase regulator activity
GO:0019210 kinase inhibitor activity
GO:0019887 protein kinase regulator activity
GO:0030957 Tat protein binding
GO:0035091 phosphatidylinositol binding
GO:0042393 histone binding
GO:0043021 ribonucleoprotein complex binding
GO:0043023 ribosomal large subunit binding
GO:0043024 ribosomal small subunit binding
GO:0046982 protein heterodimerization activity
GO:0051059 NF-kappaB binding
GO:0051082 unfolded protein binding
GO:1901981 phosphatidylinositol phosphate binding
Cellular Component GO:0000922 spindle pole
GO:0005813 centrosome
GO:0005819 spindle
GO:0005924 cell-substrate adherens junction
GO:0005925 focal adhesion
GO:0030055 cell-substrate junction
GO:0031616 spindle pole centrosome
> KEGG and Reactome Pathway
 
KEGG -
Reactome R-HSA-1640170: Cell Cycle
R-HSA-73886: Chromosome Maintenance
R-HSA-606279: Deposition of new CENPA-containing nucleosomes at the centromere
R-HSA-1643685: Disease
R-HSA-74160: Gene Expression
R-HSA-212436: Generic Transcription Pathway
R-HSA-162906: HIV Infection
R-HSA-162909: Host Interactions of HIV factors
R-HSA-5663205: Infectious disease
R-HSA-177243: Interactions of Rev with host cellular proteins
R-HSA-180746: Nuclear import of Rev protein
R-HSA-774815: Nucleosome assembly
R-HSA-8869496: TFAP2A acts as a transcriptional repressor during retinoic acid induced cell differentiation
R-HSA-6791312: TP53 Regulates Transcription of Cell Cycle Genes
R-HSA-6804115: TP53 regulates transcription of additional cell cycle genes whose exact role in the p53 pathway remain uncertain
R-HSA-3700989: Transcriptional Regulation by TP53
R-HSA-8864260: Transcriptional regulation by the AP-2 (TFAP2) family of transcription factors
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Literatures that report relations between NPM1 and anti-tumor immunity. The specific mechanism were also collected if the literature reports that a gene specifically promotes or inhibits the infiltration or function of T/NK cells.
> Text Mining
 
  Literatures describing the relation between NPM1 and anti-tumor immunity in human cancer.
PMID Cancer type Relation to immunity Evidence sentences
27879258Lymphoma; Lung Carcinoma; NeuroblastomaInhibit immunityMany genes and proteins modulated by NPM-ALK are also involved in evasion of antitumor immune response. NPM-ALK uses epigenetic silencing mechanisms to downregulate tumor suppressor genes to maintain its own expression. NPM-ALK is capable of transforming primary human CD4+ T cells into immortalized cell lines indistinguishable from patient-derived ALK+ ALCL.
20027629Colorectal CancinomaInhibit immunityOverexpression of Npm by tumors of various histological types, recognition of the antigen by T cells derived from different CRC patients and association of the antigen with poor prognostic outcome make it a promising target for immunotherapeutic intervention in cancer patients.
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content High-throughput screening data (e.g. CRISPR-Cas9, shRNA and RNAi) for T cell-mediated killing. Genetic screen techniques can identify mechanisms of tumor cell resistance (e.g., PTPN2) and sensitivity (e.g., APLNR) to killing by cytotoxic T cells, the central effectors of anti-tumor immunity. After comprehensively searching, eight groups of screening data sets were collected in the current database. In this tab, users can check whether their selected genes cause resistance or increase sensitivity to T cell-mediated killing in various data sets.
> High-throughput Screening
  Statistical results of NPM1 in screening data sets for detecting immune reponses.
PMID Screening System Cancer Type Cell Line Data Set Statistical Results Relation to immunity
29301958CRISPR-Cas9 melanomaB16F10Pmel-1 T cell NA/NSNA/NS
29301958CRISPR-Cas9 melanomaB16F10OT-1 T cell NA/NSNA/NS
28783722CRISPR-Cas9 melanomaMel6242CT-CRISPR NA/NSNA/NS
28723893CRISPR-Cas9 melanomaB16GVAX+Anti-PD1 NA/NSNA/NS
28723893CRISPR-Cas9 melanomaB16GVAX NA/NSNA/NS
25691366RNAiBreast cancerMCF7Luc-CTL assay NA/NSNA/NS
24476824shRNAmelanomaB16Primary screen NA/NSNA/NS
24476824shRNAmelanomaB16Secondary screen NA/NSNA/NS
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Transcriptomic and genomic profiling of pre-treated tumor biopsies from responders and non-responders to immunotherapy. These data were used to identify signatures and mechanisms of response to checkpoint blockade (e.g., anti-PDL1 and anti-PD1). One example is that mutations in the gene PBRM1 benefit clinical survival of patients with clear cell renal cell carcinoma. After comprehensively searching, we collected 5 and 6 of transcriptomic and genomic data sets, respectively. In this tab, users can check whether their selected genes have significant difference of expression or mutation between responders and non-responders in various data sets.
> Expression difference between responders and non-responders
> Mutation difference between responders and non-responders
> Expression difference between responders and non-responders
 
Points in the above scatter plot represent the expression difference of NPM1 in various data sets.
No PMID Cancer type Group Drug # Res # NRes Log2 (Fold Change) P value Anno
126997480MelanomaallAnti-PD-1 (pembrolizumab and nivolumab)14120.4630.0907
226997480MelanomaMAPKiAnti-PD-1 (pembrolizumab and nivolumab)650.3330.937
326997480Melanomanon-MAPKiAnti-PD-1 (pembrolizumab and nivolumab)870.5550.86
428552987Urothelial cancerallAnti-PD-L1 (atezolizumab) 9160.1870.531
528552987Urothelial cancersmokingAnti-PD-L1 (atezolizumab) 590.1880.941
628552987Urothelial cancernon-smokingAnti-PD-L1 (atezolizumab) 470.1860.954
729033130MelanomaallAnti-PD-1 (nivolumab) 2623-0.0360.953
829033130MelanomaNIV3-PROGAnti-PD-1 (nivolumab) 1511-0.2170.938
929033130MelanomaNIV3-NAIVEAnti-PD-1 (nivolumab) 11120.1860.951
1029301960Clear cell renal cell carcinoma (ccRCC)allAnti-PD-1 (nivolumab) 48-0.6380.831
1129301960Clear cell renal cell carcinoma (ccRCC)VEGFRiAnti-PD-1 (nivolumab) 2001
1229301960Clear cell renal cell carcinoma (ccRCC)non-VEGFRiAnti-PD-1 (nivolumab) 28-0.0940.984
1329443960Urothelial cancerallAnti-PD-L1 (atezolizumab) 68230-0.0830.328
> Mutation difference between responders and non-responders
 

There is no record.
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between abundance of tumor-infiltrating lymphocytes (TILs) and expression, copy number, methylation, or mutation of NPM1. The immune-related signatures of 28 TIL types from Charoentong's study, which can be viewed in the download page. For each cancer type, the relative abundance of TILs were inferred by using gene set variation analysis (GSVA) based on gene expression profile. In this tab, users can examine which kinds of TILs might be regulated by the current gene.
> Lymphocyte
 
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between three kinds of immunomodulators and expression, copy number, methylation, or mutation of NPM1. These immunomo-dulators were collected from Charoentong's study. In this tab, users can examine which immunomodulators might be regulated by NPM1.
> Immunoinhibitor
> Immunostimulator
> MHC molecule
> Immunoinhibitor
 
> Immunostimulator
 
> MHC molecule
 
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Relations between chemokines (or receptors) and expression, copy number, methylation, or mutation of NPM1. In this tab, users can examine which chemokines (or receptors) might be regulated by the current gene.
> Chemokine
> Receptor
> Chemokine
 
> Receptor
 
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Distribution of NPM1 expression across immune and molecular subtypes.
> Immune subtype
> Molecular subtype
> Immune subtype
 
> Molecular subtype
 
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Associations between NPM1 and clinical features.
> Overall survival analysis
> Cancer stage
> Tumor grade
> Overall survival
 
> Stage
 
> Grade
 
Summary
SymbolNPM1
Namenucleophosmin (nucleolar phosphoprotein B23, numatrin)
Aliases B23; NPM; nucleolar phosphoprotein B23; numatrin; nucleophosmin/nucleoplasmin family, member 1; nucleolar pr ......
Chromosomal Location5q35.1
External Links HGNC, NCBI, Ensembl, Uniprot, GeneCards
Content Drugs targeting NPM1 collected from DrugBank database.
> Drugs from DrugBank database
 

  Details on drugs targeting NPM1.
ID Name Drug Type Targets #Targets
DB11638ArtenimolSmall MoleculeACTG1, ALB, ALDH7A1, ALDOA, ANXA2, ATP5A1, ATP5L, ATP5O, CAST, CCT ......79