P53877 (IPI3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pre-rRNA-processing protein IPI3

Alternative name(s):
Involved in processing IST2 protein 3

Gene names

Name:	IPI3
Ordered Locus Names:	YNL182C
ORF Names:	N1636

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	555 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Component of the RIX1 complex required for processing of ITS2 sequences from 35S pre-rRNA. Ref.4 Ref.5
Subunit structure	Component of the RIX1 complex, composed of at least IPI1, IPI3 and RIX1. The complex interacts with MDN1 and the pre-60S ribosome particles. Ref.3 Ref.4 Ref.5 Ref.6
Subcellular location	Nucleus Ref.4.
Sequence similarities	Belongs to the WD repeat IPI3 family. Contains 4 WD repeats.

Ontologies

Keywords
Biological process	Ribosome biogenesis rRNA processing
Cellular component	Nucleus
Domain	Repeat WD repeat
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	pre-replicative complex assembly Inferred from mutant phenotype PubMed 22421151. Source: SGD rRNA processing Inferred from mutant phenotype Ref.5. Source: SGD regulation of DNA-dependent DNA replication initiation Inferred from mutant phenotype PubMed 22421151. Source: SGD ribosomal large subunit assembly Inferred from mutant phenotype Ref.4. Source: SGD
Cellular_component	Rix1 complex Inferred from direct assay Ref.5. Source: SGD pre-replicative complex Inferred from direct assay PubMed 22421151. Source: SGD
Molecular_function	chromatin binding Inferred from direct assay PubMed 22421151. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
ATG17	Q06410	3	EBI-29063,EBI-30856
RIX1	P38883	9	EBI-29063,EBI-24899

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 555	555	Pre-rRNA-processing protein IPI3		PRO_0000051484
Regions
	Repeat	90 – 133	44	WD 1
	Repeat	137 – 176	40	WD 2
	Repeat	187 – 234	48	WD 3
	Repeat	342 – 383	42	WD 4
Amino acid modifications
	Modified residue	388	1	Phosphoserine Ref.7

Sequences

	Sequence		Length	Mass (Da)
	P53877 [UniParc]. Last modified October 1, 1996. Version 1. Checksum: 8EED6854DF9405A6	FASTA	555	61,773
	10 20 30 40 50 60 MDEQVIFTTN TSGTIASVHS FEQINLRQCS TQSRNSCVQV GNKYLFIAQA QKALINVYNL 70 80 90 100 110 120 SGSFKRESVE QRLPLPEILK CLEVVENDGV QYDRIQGVNH NLPDFNLPYL LLGSTESGKL 130 140 150 160 170 180 YIWELNSGIL LNVKPMAHYQ SITKIKSILN GKYIITSGND SRVIIWQTVD LVSASNDDPK 190 200 210 220 230 240 PLCILHDHTL PVTDFQVSSS QGKFLSCTDT KLFTVSQDAT IRCYDLSLIG SKKKQKANEN 250 260 270 280 290 300 DVSIGKTPVL LATFTTPYSI KSIVLDPADR ACYIGTAEGC FSLNLFYKLK GNAIVNLLQS 310 320 330 340 350 360 AGVNTVQKGR VFSLVQRNSL TGGENEDLDA LYAMGQLVCE NVLNSNVSCL EISMDGTLLL 370 380 390 400 410 420 IGDTEGKVSI AEIYSKQIIR TIQTLTTSQD SVGEVTNLLT NPYRLERGNL LFEGESKGKQ 430 440 450 460 470 480 PSNNNGHNFM KIPNLQRVIF DGKNKGHLHD IWYQIGEPEA ETDPNLALPL NDFNAYLEQV 490 500 510 520 530 540 KTQESIFSHI GKVSSNVKVI DNKIDATSSL DSNAAKDEEI TELKTNIEAL THAYKELRDM 550 HEKLYEEHQQ MLDKQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications." Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J. , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J. Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"Assigning function to yeast proteins by integration of technologies." Hazbun T.R., Malmstroem L., Anderson S., Graczyk B.J., Fox B., Riffle M., Sundin B.A., Aranda J.D., McDonald W.H., Chiu C.-H., Snydsman B.E., Bradley P., Muller E.G.D., Fields S., Baker D., Yates J.R. III, Davis T.N. Mol. Cell 12:1353-1365(2003) [PubMed] [Europe PMC] [Abstract] Cited for: MASS SPECTROMETRY, IDENTIFICATION IN THE RIX1 COMPLEX.
[4]	"Rea1, a dynein-related nuclear AAA-ATPase, is involved in late rRNA processing and nuclear export of 60 S subunits." Galani K., Nissan T.A., Petfalski E., Tollervey D., Hurt E. J. Biol. Chem. 279:55411-55418(2004) [PubMed] [Europe PMC] [Abstract] Cited for: MASS SPECTROMETRY, IDENTIFICATION IN THE RIX1 COMPLEX, SUBCELLULAR LOCATION, FUNCTION OF THE RIX1 COMPLEX.
[5]	"High-definition macromolecular composition of yeast RNA-processing complexes." Krogan N.J., Peng W.-T., Cagney G., Robinson M.D., Haw R., Zhong G., Guo X., Zhang X., Canadien V., Richards D.P., Beattie B.K., Lalev A., Zhang W., Davierwala A.P., Mnaimneh S., Starostine A., Tikuisis A.P., Grigull J. , Datta N., Bray J.E., Hughes T.R., Emili A., Greenblatt J.F. Mol. Cell 13:225-239(2004) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE RIX1 COMPLEX, FUNCTION OF THE RIX1 COMPLEX.
[6]	"A pre-ribosome with a tadpole-like structure functions in ATP-dependent maturation of 60S subunits." Nissan T.A., Galani K., Maco B., Tollervey D., Aebi U., Hurt E. Mol. Cell 15:295-301(2004) [PubMed] [Europe PMC] [Abstract] Cited for: MASS SPECTROMETRY, IDENTIFICATION IN THE RIX1 COMPLEX, INTERACTION WITH MDN1 AND PRE-60S RIBOSOMAL PARTICLES.
[7]	"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] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-388, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z71458 Genomic DNA. Translation: CAA96075.1. BK006947 Genomic DNA. Translation: DAA10370.1.
PIR	S63137.
RefSeq	NP_014217.1. NM_001183020.1.
3D structure databases
ProteinModelPortal	P53877.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-4297N.
IntAct	P53877. 22 interactions.
MINT	MINT-529654.
STRING	4932.YNL182C.
Proteomic databases
PaxDb	P53877.
PeptideAtlas	P53877.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YNL182C; YNL182C; YNL182C.
GeneID	855539.
KEGG	sce:YNL182C.
Organism-specific databases
CYGD	YNL182c.
SGD	S000005126. IPI3.
Phylogenomic databases
eggNOG	COG2319.
GeneTree	ENSGT00390000000289.
HOGENOM	HOG000113091.
KO	K14829.
OMA	KLYIWEL.
OrthoDB	EOG4M68SG.
Gene expression databases
Genevestigator	P53877.
GermOnline	YNL182C. Saccharomyces cerevisiae.
Family and domain databases
Gene3D	2.130.10.10. 2 hits.
InterPro	IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. IPR017986. WD40_repeat_dom. [Graphical view]
Pfam	PF00400. WD40. 2 hits. [Graphical view]
SMART	SM00320. WD40. 3 hits. [Graphical view]
SUPFAM	SSF50978. WD40_like. 1 hit.
PROSITE	PS00678. WD_REPEATS_1. False negative. PS50082. WD_REPEATS_2. 1 hit. PS50294. WD_REPEATS_REGION. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	979601.

Entry information

Entry name

IPI3_YEAST

Accession

Primary (citable) accession number: P53877
Secondary accession number(s): D6W104

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	October 1, 1996
Last modified:	May 1, 2013
This is version 103 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program