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Protein

U3 small nucleolar RNA-associated protein 4

Gene

UTP4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in nucleolar processing of pre-18S ribosomal RNA. Required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs).2 Publications

GO - Biological processi

  • maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • positive regulation of transcription from RNA polymerase I promoter Source: SGD
  • rRNA methylation Source: Reactome
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

Ribosome biogenesis, rRNA processing, Transcription

Enzyme and pathway databases

BioCyciYEAST:G3O-29881-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus.

Names & Taxonomyi

Protein namesi
Recommended name:
U3 small nucleolar RNA-associated protein 4
Short name:
U3 snoRNA-associated protein 4
Alternative name(s):
U three protein 4
U3 protein 4 required for transcription
t-UTP4
Gene namesi
Name:UTP4
Ordered Locus Names:YDR324C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDR324C.
SGDiS000002732. UTP4.

Subcellular locationi

GO - Cellular componenti

  • 90S preribosome Source: GO_Central
  • nucleolus Source: SGD
  • nucleoplasm Source: Reactome
  • small-subunit processome Source: SGD
  • t-UTP complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 776776U3 small nucleolar RNA-associated protein 4PRO_0000051317Add
BLAST

Proteomic databases

MaxQBiQ06679.
PRIDEiQ06679.

PTM databases

iPTMnetiQ06679.

Interactioni

Subunit structurei

Interacts with snoRNA U3. Interacts with MPP10. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3. In the absence of snoRNA3, forms a complex with other t-UTPs. This complex can associate with pre-18S ribosomal RNAs.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
UTP10P429454EBI-35712,EBI-1884
UTP18P403625EBI-35712,EBI-4534
UTP8P532763EBI-35712,EBI-23301

Protein-protein interaction databases

BioGridi32382. 93 interactions.
DIPiDIP-6436N.
IntActiQ06679. 36 interactions.
MINTiMINT-661282.

Structurei

3D structure databases

ProteinModelPortaliQ06679.
SMRiQ06679. Positions 144-305, 426-453, 571-596.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati35 – 406WD 1
Repeati132 – 16938WD 2Add
BLAST
Repeati178 – 21437WD 3Add
BLAST
Repeati230 – 26637WD 4Add
BLAST
Repeati271 – 30838WD 5Add
BLAST
Repeati417 – 45236WD 6Add
BLAST

Sequence similaritiesi

Contains 6 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

GeneTreeiENSGT00390000008662.
HOGENOMiHOG000246731.
InParanoidiQ06679.
KOiK14548.
OMAiRINEATM.
OrthoDBiEOG71VT28.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 9 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 2 hits.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q06679-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSSLLSVLK EKSRSLKIRN KPVKMTSQER MIVHRCRFVD FTPATITSLA
60 70 80 90 100
FSHKSNINKL TPSDLRLAIG RSNGNIEIWN PRNNWFQEMV IEGGKDRSIE
110 120 130 140 150
GLCWSNVNGE SLRLFSIGGS TVVTEWDLAT GLPLRNYDCN SGVIWSISIN
160 170 180 190 200
DSQDKLSVGC DNGTVVLIDI SGGPGVLEHD TILMRQEARV LTLAWKKDDF
210 220 230 240 250
VIGGCSDGRI RIWSAQKNDE NMGRLLHTMK VDKAKKESTL VWSVIYLPRT
260 270 280 290 300
DQIASGDSTG SIKFWDFQFA TLNQSFKAHD ADVLCLTTDT DNNYVFSAGV
310 320 330 340 350
DRKIFQFSQN TNKSQKNNRW VNSSNRLLHG NDIRAICAYQ SKGADFLVSG
360 370 380 390 400
GVEKTLVINS LTSFSNGNYR KMPTVEPYSK NVLVNKEQRL VVSWSESTVK
410 420 430 440 450
IWTMGTDSST EQNYKLVCKL TLKDDQNIST CSLSPDGQVL VVGRPSTTKV
460 470 480 490 500
FHLQPVGNKL KVTKLDNDLL LRTSTKLVKF IDNSKIVICS CEDDVFIVDL
510 520 530 540 550
ESEEDEKPQE VELLEVTSTK SSIKVPYINR INHLEVDQNI AVISRGCGVV
560 570 580 590 600
DILDLKARIS KPLARLNNFI TAVHINTSRK SVVVITADNK IYEFNMNLNS
610 620 630 640 650
EAENEDSESV LTQWSKNNTD NLPKEWKTLK ENCVGIFSDI ENSSRLWFWG
660 670 680 690 700
ATWISRIDFD VDFPINKRRK QKKRTHEGLT ITDESNFMND EEDDEDDDID
710 720 730 740 750
MEISENLNVL LNQGNKIKST DVQRNEESSG HFFFTDKYKP LLFVDLISSN
760 770
ELAIIERNPL TFHSKQKAFI QPKLVF
Length:776
Mass (Da):87,801
Last modified:November 1, 1996 - v1
Checksum:i5D1C77899CABB40B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U32517 Genomic DNA. Translation: AAB64760.1.
BK006938 Genomic DNA. Translation: DAA12167.1.
PIRiS59790.
RefSeqiNP_010611.3. NM_001180632.3.

Genome annotation databases

EnsemblFungiiYDR324C; YDR324C; YDR324C.
GeneIDi851924.
KEGGisce:YDR324C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U32517 Genomic DNA. Translation: AAB64760.1.
BK006938 Genomic DNA. Translation: DAA12167.1.
PIRiS59790.
RefSeqiNP_010611.3. NM_001180632.3.

3D structure databases

ProteinModelPortaliQ06679.
SMRiQ06679. Positions 144-305, 426-453, 571-596.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32382. 93 interactions.
DIPiDIP-6436N.
IntActiQ06679. 36 interactions.
MINTiMINT-661282.

PTM databases

iPTMnetiQ06679.

Proteomic databases

MaxQBiQ06679.
PRIDEiQ06679.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDR324C; YDR324C; YDR324C.
GeneIDi851924.
KEGGisce:YDR324C.

Organism-specific databases

EuPathDBiFungiDB:YDR324C.
SGDiS000002732. UTP4.

Phylogenomic databases

GeneTreeiENSGT00390000008662.
HOGENOMiHOG000246731.
InParanoidiQ06679.
KOiK14548.
OMAiRINEATM.
OrthoDBiEOG71VT28.

Enzyme and pathway databases

BioCyciYEAST:G3O-29881-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus.

Miscellaneous databases

PROiQ06679.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 9 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 2 hits.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
    Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
    , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
    Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: FUNCTION, INTERACTION WITH MPP10 AND SNORNA U3, IDENTIFICATION IN SSU PROCESSOME BY MASS SPECTROMETRY, SUBCELLULAR LOCATION.
  4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  5. "RNA polymerase I transcription and pre-rRNA processing are linked by specific SSU processome components."
    Gallagher J.E.G., Dunbar D.A., Granneman S., Mitchell B.M., Osheim Y., Beyer A.L., Baserga S.J.
    Genes Dev. 18:2506-2517(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, IDENTIFICATION IN COMPLEX WITH OTHER T-UTPS.

Entry informationi

Entry nameiUTP4_YEAST
AccessioniPrimary (citable) accession number: Q06679
Secondary accession number(s): D6VSV7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: November 1, 1996
Last modified: July 6, 2016
This is version 139 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 5440 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.