Q12080 (NOP53_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Ribosome biogenesis protein NOP53

Alternative name(s):
Nucleolar protein 53

Gene names

Name:	NOP53
Ordered Locus Names:	YPL146C
ORF Names:	LPI2C, P2610

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	455 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Late-acting factor in the nuclear maturation of 60S ribosomal subunits, which is required for normal acquisition of export competence. Required for the export of the large subunit. Acts to stimulate the RNase activity of the exosome complex, and may recruit the exosome to 7S pre-rRNA for processing. Associates with numerous RNAs including the 27S and 7S pre-rRNAs and the box H/ACA snoRNA snR37. Also interacts (via N-terminal region) with the mature 25S rRNA and the mature 5.8S rRNA. Ref.5 Ref.6 Ref.7 Ref.9
Subunit structure	Interacts with CBF5, FPR3, FPR4, NOP2, PIH1, RRN3, RRP6 and PAP2. Interacts with pre-60S ribosomal particles. Ref.5 Ref.6 Ref.7 Ref.9
Subcellular location	Nucleus › nucleolus. Nucleus › nucleoplasm. Note: Does not shuttle from the nucleus to the cytoplasm. Ref.5 Ref.6 Ref.7 Ref.9
Disruption phenotype	Inhibition of cell growth. Defects in processing of the rRNA components of the 60S ribosomal subunit and accumulation of the corresponding polyadenylated pre-rRNAs. Some delay in the maturation of the 35S primary transcript and 32S pre-rRNA. Delay in 20S pre-rRNA formation and a severe delay in mature 25S and 5.8S rRNA formation, with accumulation of the 35S, 32S, 27S, 26S and 7S pre-rRNAs and a 5' extended form of the 25S rRNA. Complete loss of synthesis of the mature 25S rRNA. Appearance at a low level of aberrant 23S species. Shorter 18S and 5.8S rRNA at the 5' end. Imbalance in the 40S:60S ratio and defects in progression beyond the 27S stage of 25S rRNA maturation during 60S biogenesis. Decreased ribosomes and polysomes and presence of halfmers. Ref.5 Ref.6 Ref.7 Ref.9
Miscellaneous	Present with 1600 molecules/cell in log phase SD medium. Ref.4
Sequence similarities	Belongs to the GLTSCR2 family.

Ontologies

Keywords
Biological process	Ribosome biogenesis rRNA processing
Cellular component	Nucleus
Ligand	RNA-binding
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Inferred from mutant phenotype Ref.5. Source: SGD ribosomal large subunit export from nucleus Inferred from mutant phenotype Ref.7. Source: SGD
Cellular component	nucleolus Inferred from direct assay Ref.7. Source: SGD nucleoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	rRNA binding Inferred from direct assay Ref.6. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 455	455	Ribosome biogenesis protein NOP53		PRO_0000218965
Regions
	Compositional bias	273 – 276	4	Poly-Glu
	Compositional bias	281 – 293	13	Poly-Glu
Amino acid modifications
	Modified residue	31	1	Phosphoserine Ref.8 Ref.10

Sequences

	Sequence		Length	Mass (Da)
	Q12080 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 9B761BB0318EFFC8	FASTA	455	52,556
	10 20 30 40 50 60 MAPTNLTKKP SQYKQSSRKG KKAWRKNIDL SDVEQYMEKK IDHEITHGTS DITSLQNDAL 70 80 90 100 110 120 FHVDVEGDEI LKNKLIKRKQ IKKVLKSKEI LDAVKTNSKI AALNHHKNSS GNPNKIQGVS 130 140 150 160 170 180 KHELKKLMAL AGRVHGESKI KNRVAKDGLV KTTAGDLWGE ESNSKKQKVK LPSGIKLDVE 190 200 210 220 230 240 KKDQIPEELL KKSTTSWSTA SVRPSTLDIE PIAVKEFTEI PHAGKSYNPN NKAWSELINK 250 260 270 280 290 300 EYKEEKARED ERIALEKYKE RIRHLMETLD DNEEEESSSN EEEEEEEEEN ENENESTQCS 310 320 330 340 350 360 GSDKEIKLSI NKPVKNKKKT KYQRNKAKRH EEKVKLQQEL KELRQRVKDL EEVINSEETE 370 380 390 400 410 420 ILSAIESDSN KVKKSKKNKK HKLGTKYSVI DERLEIKFSD ELSDSLRKLK PEGNLLYDTV 430 440 450 RKLQSSGKVE TRVPVRKGRK YKQKITEKWT HKDFK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The sequence of 55 kb on the left arm of yeast chromosome XVI identifies a small nuclear RNA, a new putative protein kinase and two new putative regulators." Purnelle B., Coster F., Goffeau A. Yeast 12:1483-1492(1996) [PubMed: 8948103] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI." Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M. , Coster F., Davis K., Davis R.W., Dietrich F.S., Delius H., DiPaolo T., Dubois E., Duesterhoeft A., Duncan M., Floeth M., Fortin N., Friesen J.D., Fritz C., Goffeau A., Hall J., Hebling U., Heumann K., Hilbert H., Hillier L.W., Hunicke-Smith S., Hyman R.W., Johnston M., Kalman S., Kleine K., Komp C., Kurdi O., Lashkari D., Lew H., Lin A., Lin D., Louis E.J., Marathe R., Messenguy F., Mewes H.-W., Mirtipati S., Moestl D., Mueller-Auer S., Namath A., Nentwich U., Oefner P., Pearson D., Petel F.X., Pohl T.M., Purnelle B., Rajandream M.A., Rechmann S., Rieger M., Riles L., Roberts D., Schaefer M., Scharfe M., Scherens B., Schramm S., Schroeder M., Sdicu A.-M., Tettelin H., Urrestarazu L.A., Ushinsky S., Vierendeels F., Vissers S., Voss H., Walsh S.V., Wambutt R., Wang Y., Wedler E., Wedler H., Winnett E., Zhong W.-W., Zollner A., Vo D.H., Hani J. Nature 387:103-105(1997) [PubMed: 9169875] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[5]	"Nop53p is a novel nucleolar 60S ribosomal subunit biogenesis protein." Sydorskyy Y., Dilworth D.J., Halloran B., Yi E.C., Makhnevych T., Wozniak R.W., Aitchison J.D. Biochem. J. 388:819-826(2005) [PubMed: 15686447] [Abstract] Cited for: FUNCTION, INTERACTION WITH CBF5, FPR3, FPR4 AND NOP2, SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE, MASS SPECTROMETRY.
[6]	"Nop53p, an essential nucleolar protein that interacts with Nop17p and Nip7p, is required for pre-rRNA processing in Saccharomyces cerevisiae." Granato D.C., Gonzales F.A., Luz J.S., Cassiola F., Machado-Santelli G.M., Oliveira C.C. FEBS J. 272:4450-4463(2005) [PubMed: 16128814] [Abstract] Cited for: FUNCTION, INTERACTION WITH PIH1, PRE-RIBOSOMAL RNAS AND 5.8S RIBOSOMAL RNA, SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE.
[7]	"Nop53p is required for late 60S ribosome subunit maturation and nuclear export in yeast." Thomson E., Tollervey D. RNA 11:1215-1224(2005) [PubMed: 16043506] [Abstract] Cited for: FUNCTION, INTERACTION WITH PRE-60S RIBOSOMAL COMPLEXES, SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE.
[8]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-31, MASS SPECTROMETRY.
[9]	"Nop53p interacts with 5.8S rRNA co-transcriptionally, and regulates processing of pre-rRNA by the exosome." Granato D.C., Machado-Santelli G.M., Oliveira C.C. FEBS J. 275:4164-4178(2008) [PubMed: 18631361] [Abstract] Cited for: FUNCTION, INTERACTION WITH RRN3, RRP6, PAP2 AND RIBOSOMAL RNAS, SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE.
[10]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-31, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U43703 Genomic DNA. Translation: AAB68216.1. X96770 Genomic DNA. Translation: CAA65547.1. Z73502 Genomic DNA. Translation: CAA97850.1. BK006949 Genomic DNA. Translation: DAA11289.1.
PIR	S65157.
RefSeq	NP_015179.1. NM_001183960.1.
3D structure databases
ProteinModelPortal	Q12080.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-993N.
IntAct	Q12080. 4 interactions.
MINT	MINT-520998.
STRING	Q12080.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YPL146C; YPL146C; YPL146C.
GeneID	855957.
KEGG	sce:YPL146C.
NMPDR	fig|4932.3.peg.6309.
Organism-specific databases
CYGD	YPL146c.
SGD	S000006067. NOP53.
Phylogenomic databases
eggNOG	fuNOG05571.
GeneTree	EFGT00050000000442.
HOGENOM	HBG330550.
OMA	ITHGTSD.
OrthoDB	EOG4HHSB2.
Gene expression databases
ArrayExpress	Q12080.
Genevestigator	Q12080.
GermOnline	YPL146C. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR011211. Gltscr2. IPR011687. P60-like. [Graphical view]
KO	K14840.
PANTHER	PTHR14211. P60_like. 1 hit.
Pfam	PF07767. Nop53. 1 hit. [Graphical view]
PIRSF	PIRSF017302. Gltscr2. 1 hit.
ProtoNet	Search...
Other
NextBio	980750.

Entry information

Entry name

NOP53_YEAST

Accession

Primary (citable) accession number: Q12080
Secondary accession number(s): D6W3M3

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 26, 2001
Last sequence update:	November 1, 1996
Last modified:	December 14, 2011
This is version 92 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program