Ribosome biogenesis protein ERB1 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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Q04660 (ERB1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 115. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Ribosome biogenesis protein ERB1

Alternative name(s):
Eukaryotic ribosome biogenesis protein 1

Gene names

Name:	ERB1
Ordered Locus Names:	YMR049C
ORF Names:	YM9796.02C

Organism

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

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	807 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Component of the NOP7 complex, which is required for maturation of the 25S and 5.8S ribosomal RNAs and formation of the 60S ribosome. Ref.3 Ref.11
Subunit structure	Component of the NOP7 complex, composed of ERB1, NOP7 and YTM1. Within the NOP7 complex ERB1 appears to interact directly with NOP7 and YTM1. The NOP7 complex also associates with the 66S pre-ribosome. Also interacts with NOG1. Ref.4 Ref.6 Ref.7
Subcellular location	Nucleus › nucleolus. Nucleus › nucleoplasm Ref.11.
Miscellaneous	Present with 2680 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the WD repeat BOP1/ERB1 family. Contains 7 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	rRNA processing Inferred from mutant phenotype Ref.3. Source: SGD ribosomal large subunit biogenesis Inferred from physical interaction Ref.6. Source: SGD
Cellular_component	PeBoW complex Inferred from direct assay Ref.6. Source: SGD nucleoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell preribosome, large subunit precursor Inferred from direct assay PubMed 11583614 PubMed 17443350. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
YTM1	Q12024	6	EBI-28098,EBI-29589

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 807

807

Ribosome biogenesis protein ERB1

PRO_0000050968

Regions

Repeat

435 – 474

WD 1

Repeat

483 – 523

WD 2

Repeat

592 – 634

WD 3

Repeat

637 – 675

WD 4

Repeat

678 – 717

WD 5

Repeat

721 – 760

WD 6

Repeat

776 – 807

WD 7

Region

265 – 383

119

Required for interaction with NOP7

Region

383 – 419

Required for interaction with YTM1

Amino acid modifications

Modified residue

Phosphoserine Ref.9

Modified residue

Phosphoserine Ref.8 Ref.9 Ref.12

Modified residue

Phosphoserine Ref.9

Modified residue

Phosphoserine Ref.9

Modified residue

146

Phosphoserine Ref.12

Modified residue

149

Phosphoserine Ref.12

Modified residue

418

Phosphoserine Ref.8 Ref.10 Ref.12

Sequences

Sequence

Length

Mass (Da)

Tools

Q04660 [UniParc].

Last modified November 1, 1997. Version 1.
Checksum: 6542DFE4670341CA
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FASTA

807

91,705

        10         20         30         40         50         60 
MMAKNNKTTE AKMSKKRAAS EESDVEEDED KLLSVDGLID AEASESDEDD DEYESAVEEK 

        70         80         90        100        110        120 
ESSSDKEAQD DSDDDSDAEL NKLLAEEEGD GEEDYDSSEF SDDTTSLTDR LSGVKLQTIV 

       130        140        150        160        170        180 
DPNIYSKYAD GSDRIIKPEI NPVYDSDDSD AETQNTIGNI PLSAYDEMPH IGYDINGKRI 

       190        200        210        220        230        240 
MRPAKGSALD QLLDSIELPE GWTGLLDKNS GSSLNLTKEE LELISKIQRN EQTDDSINPY 

       250        260        270        280        290        300 
EPLIDWFTRH EEVMPLTAVP EPKRRFVPSK NEAKRVMKIV RAIREGRIIP PKKLKEMKEK 

       310        320        330        340        350        360 
EKIENYQYDL WGDSTETNDH VMHLRAPKLP PPTNEESYNP PEEYLLSPEE KEAWENTEYS 

       370        380        390        400        410        420 
ERERNFIPQK YSALRKVPGY GESIRERFER SLDLYLAPRV RKNKLNIDPN SLIPELPSPK 

       430        440        450        460        470        480 
DLRPFPIRCS TIYAGHKGKV RTLSIDPSGL WLATGSDDGT VRVWEILTGR EVYRTTLIDD 

       490        500        510        520        530        540 
EENPDYHIEC IEWNPDANNG ILAVAVGENI HLIVPPIFGY DIENNGKTKI EDGFGYDTFG 

       550        560        570        580        590        600 
TVKKSNLEVN ENGDGDEDGE NESAKNAVKK QVAQWNKPSQ KQLEKDICIT ISCKKTVKKL 

       610        620        630        640        650        660 
SWHRKGDYFV TVQPDSGNTS VLIHQVSKHL TQSPFKKSKG IIMDAKFHPF KPQLFVCSQR 

       670        680        690        700        710        720 
YVRIYDLSQQ ILVKKLLPGA RWLSKIDIHP RGDNLIASSF DKRVLWHDLD LASTPYKTLR 

       730        740        750        760        770        780 
YHEKAVRSVN FHKKLPLFSS AADDGTIHVF HATVYDDMMK NPMIVPLKKL TGHKVINSLG 

       790        800 
VLDAIWHPRE AWLFSAGADN TARLWTT

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII." Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T., Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K., Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P. Barrell B.G. Nature 387:90-93(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"ERB1, the yeast homolog of mammalian Bop1, is an essential gene required for maturation of the 25S and 5.8S ribosomal RNAs." Pestov D.G., Stockelman M.G., Strezoska Z., Lau L.F. Nucleic Acids Res. 29:3621-3630(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[4]	"Yph1p, an ORC-interacting protein: potential links between cell proliferation control, DNA replication, and ribosome biogenesis." Du Y.-C.N., Stillman B. Cell 109:835-848(2002) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE NOP7 COMPLEX.
[5]	"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] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[6]	"Ytm1, Nop7, and Erb1 form a complex necessary for maturation of yeast 66S preribosomes." Miles T.D., Jakovljevic J., Horsey E.W., Harnpicharnchai P., Tang L., Woolford J.L. Jr. Mol. Cell. Biol. 25:10419-10432(2005) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE NOP7 COMPLEX, ASSOCIATION OF THE NOP7 COMPLEX WITH 66S PRE-RIBOSOMES.
[7]	"TOR regulates late steps of ribosome maturation in the nucleoplasm via Nog1 in response to nutrients." Honma Y., Kitamura A., Shioda R., Maruyama H., Ozaki K., Oda Y., Mini T., Jenoe P., Maki Y., Yonezawa K., Hurt E., Ueno M., Uritani M., Hall M.N., Ushimaru T. EMBO J. 25:3832-3842(2006) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH NOG1.
[8]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae." Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P. J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-23 AND SER-418, MASS SPECTROMETRY. Strain: ADR376.
[9]	"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry." Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F. Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-20; SER-23; SER-72 AND SER-76, MASS SPECTROMETRY.
[10]	"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] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-418, MASS SPECTROMETRY.
[11]	"Interactions among Ytm1, Erb1, and Nop7 required for assembly of the Nop7-subcomplex in yeast preribosomes." Tang L., Sahasranaman A., Jakovljevic J., Schleifman E., Woolford J.L. Jr. Mol. Biol. Cell 19:2844-2856(2008) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, CHARACTERIZATION OF THE NOP7 COMPLEX, SUBCELLULAR LOCATION.
[12]	"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-23; SER-146; SER-149 AND SER-418, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z49703 Genomic DNA. Translation: CAA89759.1. BK006946 Genomic DNA. Translation: DAA09948.1.
PIR	S54549.
RefSeq	NP_013764.1. NM_001182546.1.
3D structure databases
ProteinModelPortal	Q04660.
SMR	Q04660. Positions 429-498, 638-807.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-3970N.
IntAct	Q04660. 86 interactions.
MINT	MINT-575265.
STRING	4932.YMR049C.
Proteomic databases
PaxDb	Q04660.
PeptideAtlas	Q04660.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YMR049C; YMR049C; YMR049C.
GeneID	855068.
KEGG	sce:YMR049C.
Organism-specific databases
CYGD	YMR049c.
SGD	S000004652. ERB1.
Phylogenomic databases
eggNOG	COG2319.
GeneTree	ENSGT00390000018422.
HOGENOM	HOG000029368.
KO	K14824.
OMA	PPPEYLF.
OrthoDB	EOG4PK5H1.
Enzyme and pathway databases
BioCyc	YEAST:G3O-32754-MONOMER.
Gene expression databases
Genevestigator	Q04660.
GermOnline	YMR049C. Saccharomyces cerevisiae.
Family and domain databases
Gene3D	2.130.10.10. 2 hits.
InterPro	IPR012953. BOP1_N_dom. IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. IPR019775. WD40_repeat_CS. IPR017986. WD40_repeat_dom. [Graphical view]
Pfam	PF08145. BOP1NT. 1 hit. PF00400. WD40. 3 hits. [Graphical view]
SMART	SM01035. BOP1NT. 1 hit. SM00320. WD40. 5 hits. [Graphical view]
SUPFAM	SSF50978. WD40_like. 1 hit.
PROSITE	PS00678. WD_REPEATS_1. 1 hit. PS50082. WD_REPEATS_2. 2 hits. PS50294. WD_REPEATS_REGION. 2 hits. [Graphical view]
ProtoNet	Search...
Other
NextBio	978335.

Entry information

Entry name

ERB1_YEAST

Accession

Primary (citable) accession number: Q04660
Secondary accession number(s): D6VZM4

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	May 29, 2013
This is version 115 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome XIII

Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents