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Protein

Ribosome biogenesis protein NOP53

Gene

NOP53

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Nucleolar protein which is involved in the integration of the 5S RNP into the ribosomal large subunit during ribosome biogenesis (PubMed:24120868). In ribosome biogenesis, may also play a role in rRNA transcription (PubMed:27729611). Also functions as a nucleolar sensor that regulates the activation of p53/TP53 in response to ribosome biogenesis perturbation, DNA damage and other stress conditions (PubMed:21741933, PubMed:24120868, PubMed:27829214). DNA damage or perturbation of ribosome biogenesis disrupt the interaction between NOP53 and RPL11 allowing RPL11 transport to the nucleoplasm where it can inhibit MDM2 and allow p53/TP53 activation (PubMed:24120868, PubMed:27829214). It may also positively regulate the function of p53/TP53 in cell cycle arrest and apoptosis through direct interaction, preventing its MDM2-dependent ubiquitin-mediated proteasomal degradation (PubMed:22522597). Originally identified as a tumor suppressor, it may also play a role in cell proliferation and apoptosis by positively regulating the stability of PTEN, thereby antagonizing the PI3K-AKT/PKB signaling pathway (PubMed:15355975, PubMed:16971513, PubMed:27729611). May also inhibit cell proliferation and increase apoptosis through its interaction with NF2 (PubMed:21167305). May negatively regulate NPM1 by regulating its nucleoplasmic localization, oligomerization and ubiquitin-mediated proteasomal degradation (PubMed:25818168). Thereby, may prevent NPM1 interaction with MYC and negatively regulate transcription mediated by the MYC-NPM1 complex (PubMed:25956029). May also regulate cellular aerobic respiration (PubMed:24556985). In the cellular response to viral infection, may play a role in the attenuation of interferon-beta through the inhibition of DDX58/RIG-1 (PubMed:27824081).12 Publications

GO - Molecular functioni

  • 5S rRNA binding Source: HGNC
  • identical protein binding Source: UniProtKB
  • p53 binding Source: UniProtKB
  • RNA binding Source: UniProtKB

GO - Biological processi

  • cellular response to DNA damage stimulus Source: UniProtKB
  • cellular response to hypoxia Source: UniProtKB
  • DNA repair Source: UniProtKB
  • mitotic G2 DNA damage checkpoint Source: UniProtKB
  • negative regulation of phosphatidylinositol 3-kinase signaling Source: UniProtKB
  • negative regulation of proteasomal ubiquitin-dependent protein catabolic process Source: UniProtKB
  • negative regulation of protein complex assembly Source: UniProtKB
  • negative regulation of protein kinase B signaling Source: UniProtKB
  • negative regulation of signal transduction by p53 class mediator Source: Ensembl
  • negative regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  • negative regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter Source: UniProtKB
  • positive regulation of proteasomal ubiquitin-dependent protein catabolic process Source: UniProtKB
  • positive regulation of protein K63-linked deubiquitination Source: UniProtKB
  • protein localization to nucleolus Source: Ensembl
  • protein localization to nucleoplasm Source: UniProtKB
  • protein stabilization Source: UniProtKB
  • regulation of aerobic respiration Source: UniProtKB
  • regulation of apoptotic process Source: UniProtKB
  • regulation of cell cycle Source: UniProtKB
  • regulation of protein phosphorylation Source: UniProtKB
  • regulation of RIG-I signaling pathway Source: UniProtKB
  • regulation of signal transduction by p53 class mediator Source: UniProtKB
  • ribosomal large subunit assembly Source: HGNC
  • ribosomal large subunit export from nucleus Source: GO_Central

Keywordsi

Biological processRibosome biogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosome biogenesis protein NOP53Curated
Alternative name(s):
Glioma tumor suppressor candidate region gene 2 proteinImported
Protein interacting with carboxyl terminus 11 Publication
Short name:
PICT-11 Publication
p601 Publication
Gene namesi
Name:NOP53Imported
Synonyms:GLT1 Publication, GLTSCR21 Publication, PICT11 Publication
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

EuPathDBiHostDB:ENSG00000105373.18.
HGNCiHGNC:4333. NOP53.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi233S → A: Decreased phosphorylation, degradation and increased interaction with RPL11 in response to DNA damage; when associated with A-289. 1 Publication1
Mutagenesisi233S → D: Loss of localization to the nucleolus and in response to DNA damage increased degradation and decreased interaction with RPL11; when associated with D-289. 1 Publication1
Mutagenesisi289T → A: Decreased degradation in response to DNA damage. Decreased phosphorylation, degradation and increased interaction with RPL11 in response to DNA damage; when associated with A-233. 1 Publication1
Mutagenesisi289T → D: Loss of localization to the nucleolus and in response to DNA damage increased degradation and decreased interaction with RPL11; when associated with D-233. 1 Publication1

Organism-specific databases

DisGeNETi29997.
OpenTargetsiENSG00000105373.
PharmGKBiPA28736.

Polymorphism and mutation databases

BioMutaiGLTSCR2.
DMDMi93141272.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002189602 – 478Ribosome biogenesis protein NOP53Add BLAST477

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1
Modified residuei29PhosphoserineCombined sources1
Modified residuei93PhosphoserineCombined sources1
Modified residuei305PhosphoserineBy similarity1

Post-translational modificationi

Ubiquitin-mediated proteasomal degradation is regulated by c-JUN. It is associated with relocalization to the nucleoplasm and decreased homooligomerization.1 Publication
Phosphorylated upon DNA damage probably by ATM and DNA-PK; may regulate NOP53 degradation.1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9NZM5.
MaxQBiQ9NZM5.
PaxDbiQ9NZM5.
PeptideAtlasiQ9NZM5.
PRIDEiQ9NZM5.

2D gel databases

SWISS-2DPAGEiQ9NZM5.

PTM databases

iPTMnetiQ9NZM5.
PhosphoSitePlusiQ9NZM5.

Expressioni

Tissue specificityi

Expressed at high levels in heart and pancreas, moderate levels in placenta, liver, skeletal muscle, and kidney, and low levels in brain and lung.1 Publication

Inductioni

Down-regulated by nucleolar stress through ubiquitin-independent proteasomal degradation (at protein level) (PubMed:24923447). Up-regulated upon mitochondrial stress (at protein level) (PubMed:24556985). Expression of the protein might be regulated by DNA damage but results are not consistent (PubMed:21741933, PubMed:27829214).4 Publications

Gene expression databases

BgeeiENSG00000105373.
CleanExiHS_GLTSCR2.
ExpressionAtlasiQ9NZM5. baseline and differential.
GenevisibleiQ9NZM5. HS.

Organism-specific databases

HPAiHPA018999.
HPA049600.

Interactioni

Subunit structurei

Homooligomer (PubMed:24735870, PubMed:26903295). Interacts with PTEN; regulates PTEN phosphorylation and increases its stability (PubMed:15355975). Interacts with RPL11; retains RPL11 into the nucleolus (PubMed:24556985, PubMed:27829214). Interacts with CDKN2A/isoform tumor suppressor ARF; the interaction is direct and promotes ARF nucleoplasmic relocalization and ubiquitin-mediated proteasomal degradation (PubMed:27323397). Interacts with NPM1; the interaction is direct and competitive with MYC (PubMed:25956029). Interacts with NF2 (via FERM domain); the interaction is direct (PubMed:21167305). Interacts with p53/TP53 (via the oligomerization region); the interaction is direct and may prevent the MDM2-mediated proteasomal degradation of p53/TP53 (PubMed:22522597). Interacts with DDX58; may regulate DDX58 through USP15-mediated 'Lys-63'-linked deubiquitination (PubMed:27824081). Interacts with UBTF (PubMed:27729611).11 Publications
(Microbial infection) Interacts with herpes simplex virus 1 early proteins ICP22 and ICP0 (PubMed:10196275). Interacts with human herpesvirus 8 protein ORF16; may sequester ORF16 in host nucleolus and reduce its antiapoptotic activity (PubMed:20042497).2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
DDX58O957862EBI-720156,EBI-995350

GO - Molecular functioni

  • identical protein binding Source: UniProtKB
  • p53 binding Source: UniProtKB

Protein-protein interaction databases

BioGridi119021. 145 interactors.
IntActiQ9NZM5. 25 interactors.
MINTiMINT-1410423.
STRINGi9606.ENSP00000246802.

Structurei

3D structure databases

ProteinModelPortaliQ9NZM5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni148 – 431Mediates interaction with CDKN2A/isoform tumor suppressor ARF1 PublicationAdd BLAST284
Regioni181 – 478Mediates interaction with NF21 PublicationAdd BLAST298
Regioni342 – 386Mediates interaction with human herpesvirus 8 protein ORF161 PublicationAdd BLAST45
Regioni347 – 395Nucleolar localization signal1 PublicationAdd BLAST49
Regioni396 – 478Nucleolar localization signal1 PublicationAdd BLAST83

Sequence similaritiesi

Belongs to the NOP53 family.Curated

Phylogenomic databases

eggNOGiKOG2823. Eukaryota.
ENOG4111GSN. LUCA.
GeneTreeiENSGT00390000017267.
HOGENOMiHOG000070127.
HOVERGENiHBG051849.
InParanoidiQ9NZM5.
KOiK14840.
OMAiKSAWRKT.
OrthoDBiEOG091G0BKI.
PhylomeDBiQ9NZM5.
TreeFamiTF313004.

Family and domain databases

InterProiView protein in InterPro
IPR011687. Nop53/GLTSCR2.
PANTHERiPTHR14211. PTHR14211. 1 hit.
PfamiView protein in Pfam
PF07767. Nop53. 1 hit.
PIRSFiPIRSF017302. Gltscr2. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9NZM5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAAGGSGVGG KRSSKSDADS GFLGLRPTSV DPALRRRRRG PRNKKRGWRR
60 70 80 90 100
LAQEPLGLEV DQFLEDVRLQ ERTSGGLLSE APNEKLFFVD TGSKEKGLTK
110 120 130 140 150
KRTKVQKKSL LLKKPLRVDL ILENTSKVPA PKDVLAHQVP NAKKLRRKEQ
160 170 180 190 200
LWEKLAKQGE LPREVRRAQA RLLNPSATRA KPGPQDTVER PFYDLWASDN
210 220 230 240 250
PLDRPLVGQD EFFLEQTKKK GVKRPARLHT KPSQAPAVEV APAGASYNPS
260 270 280 290 300
FEDHQTLLSA AHEVELQRQK EAEKLERQLA LPATEQAATQ ESTFQELCEG
310 320 330 340 350
LLEESDGEGE PGQGEGPEAG DAEVCPTPAR LATTEKKTEQ QRRREKAVHR
360 370 380 390 400
LRVQQAALRA ARLRHQELFR LRGIKAQVAL RLAELARRQR RRQARREAEA
410 420 430 440 450
DKPRRLGRLK YQAPDIDVQL SSELTDSLRT LKPEGNILRD RFKSFQRRNM
460 470
IEPRERAKFK RKYKVKLVEK RAFREIQL
Length:478
Mass (Da):54,389
Last modified:April 18, 2006 - v2
Checksum:i7F1BA13D04BFB618
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti9G → R in AAG30413 (PubMed:10196275).Curated1
Sequence conflicti146 – 191RRKEQ…TVERP → SGRSSYGRSWPSRASSPGGA QGPSPVAQPFCNKGPNPAPG HRIAA in AAG30413 (PubMed:10196275).CuratedAdd BLAST46
Sequence conflicti198 – 215SDNPL…EFFLE → LNNPDKPVVWPGCLFPG in AAG30413 (PubMed:10196275).CuratedAdd BLAST18
Sequence conflicti235A → S in AAH04229 (PubMed:15489334).Curated1
Sequence conflicti417D → H in AAG30413 (PubMed:10196275).Curated1
Sequence conflicti433 – 477PEGNI…FREIQ → VLTVSCRGAPCPVMTPSLLP VPPRGYGRHHGCPWAGPVGP MPRG in CAB59242 (PubMed:17974005).CuratedAdd BLAST45
Sequence conflicti434 – 478EGNIL…REIQL → RGQHSFETGSRAFRGGI in AAG30413 (PubMed:10196275).CuratedAdd BLAST45

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02445616S → R. Corresponds to variant dbSNP:rs1042401Ensembl.1
Natural variantiVAR_011486389Q → R4 PublicationsCorresponds to variant dbSNP:rs1804994Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF182076 mRNA. Translation: AAF62873.1.
BC004229 mRNA. Translation: AAH04229.2.
BC006311 mRNA. Translation: AAH06311.1.
BC010095 mRNA. Translation: AAH10095.1.
AF296124 mRNA. Translation: AAG30413.1.
AL359335 mRNA. Translation: CAB94786.1.
AL359336 mRNA. Translation: CAB94787.1.
AL122063 mRNA. Translation: CAB59242.1.
CCDSiCCDS12705.1.
RefSeqiNP_056525.2. NM_015710.4.
UniGeneiHs.421907.

Genome annotation databases

EnsembliENST00000246802; ENSP00000246802; ENSG00000105373.
GeneIDi29997.
KEGGihsa:29997.
UCSCiuc002phm.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Entry informationi

Entry nameiNOP53_HUMAN
AccessioniPrimary (citable) accession number: Q9NZM5
Secondary accession number(s): Q9BTC6
, Q9HAX6, Q9NPP1, Q9NPR4, Q9UFI2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: April 18, 2006
Last modified: October 25, 2017
This is version 149 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families