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Protein

U3 small nucleolar RNA-associated protein 21

Gene

UTP21

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 and ribosome assembly.1 Publication

GO - Biological processi

  • ribosomal small subunit biogenesis Source: SGD
  • rRNA processing Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

Ribosome biogenesis, rRNA processing

Enzyme and pathway databases

BioCyciYEAST:G3O-32471-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
U3 small nucleolar RNA-associated protein 21
Short name:
U3 snoRNA-associated protein 21
Alternative name(s):
U three protein 21
Gene namesi
Name:UTP21
Ordered Locus Names:YLR409C
ORF Names:L8084.22
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome XII

Organism-specific databases

CYGDiYLR409c.
EuPathDBiFungiDB:YLR409C.
SGDiS000004401. UTP21.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: SGD
  • Pwp2p-containing subcomplex of 90S preribosome Source: SGD
  • small-subunit processome Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 939938U3 small nucleolar RNA-associated protein 21PRO_0000051480Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserine1 Publication
Modified residuei772 – 7721Phosphoserine1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ06078.
PaxDbiQ06078.
PeptideAtlasiQ06078.

Interactioni

Subunit structurei

Interacts with snoRNA U3. Interacts with MPP10. Interacts (via WD repeats) with UTP18. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
PWP2P256357EBI-359,EBI-14332
UTP18P403626EBI-359,EBI-4534

Protein-protein interaction databases

BioGridi31666. 56 interactions.
DIPiDIP-6416N.
IntActiQ06078. 19 interactions.
MINTiMINT-561636.

Structurei

Secondary structure

1
939
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi22 – 3110Combined sources
Beta strandi40 – 445Combined sources
Beta strandi47 – 537Combined sources
Beta strandi58 – 625Combined sources
Turni63 – 653Combined sources
Beta strandi68 – 714Combined sources
Beta strandi82 – 865Combined sources
Beta strandi89 – 946Combined sources
Beta strandi97 – 1026Combined sources
Beta strandi105 – 1117Combined sources
Beta strandi113 – 1164Combined sources
Beta strandi118 – 1247Combined sources
Beta strandi127 – 1326Combined sources
Beta strandi135 – 1417Combined sources
Beta strandi147 – 1493Combined sources
Beta strandi152 – 1587Combined sources
Turni161 – 1633Combined sources
Beta strandi165 – 1717Combined sources
Beta strandi179 – 1868Combined sources
Beta strandi188 – 1925Combined sources
Turni193 – 1953Combined sources
Beta strandi198 – 2014Combined sources
Beta strandi209 – 2146Combined sources
Beta strandi220 – 23415Combined sources
Turni235 – 2384Combined sources
Beta strandi239 – 2457Combined sources
Beta strandi251 – 2566Combined sources
Beta strandi259 – 2613Combined sources
Beta strandi263 – 2686Combined sources
Beta strandi273 – 2775Combined sources
Turni278 – 2814Combined sources
Beta strandi282 – 2876Combined sources
Helixi293 – 2953Combined sources
Beta strandi299 – 3035Combined sources
Beta strandi307 – 3137Combined sources
Beta strandi315 – 3239Combined sources
Beta strandi341 – 3477Combined sources
Beta strandi353 – 3586Combined sources
Beta strandi365 – 3706Combined sources
Beta strandi375 – 3795Combined sources
Beta strandi386 – 3883Combined sources
Beta strandi414 – 4196Combined sources
Turni422 – 4265Combined sources
Beta strandi430 – 4345Combined sources
Beta strandi438 – 4447Combined sources
Turni445 – 4484Combined sources
Beta strandi449 – 4568Combined sources
Beta strandi458 – 4603Combined sources
Beta strandi463 – 4686Combined sources
Beta strandi474 – 4796Combined sources
Beta strandi482 – 4887Combined sources
Turni489 – 4913Combined sources
Beta strandi494 – 4996Combined sources
Beta strandi505 – 5106Combined sources
Beta strandi516 – 5216Combined sources
Beta strandi524 – 53310Combined sources
Beta strandi536 – 5416Combined sources
Beta strandi546 – 5516Combined sources
Turni553 – 5553Combined sources
Beta strandi557 – 5626Combined sources
Beta strandi567 – 5715Combined sources
Turni572 – 5754Combined sources
Beta strandi576 – 5816Combined sources
Beta strandi588 – 5936Combined sources
Beta strandi597 – 6048Combined sources
Beta strandi607 – 6137Combined sources
Turni614 – 6163Combined sources
Beta strandi619 – 6246Combined sources
Beta strandi629 – 6346Combined sources
Beta strandi640 – 6478Combined sources
Beta strandi649 – 6568Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4HNXX-ray2.10A1-684[»]
4NSXX-ray2.10A1-684[»]
ProteinModelPortaliQ06078.
SMRiQ06078. Positions 20-684.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati40 – 7132WD 1PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati81 – 11131WD 2PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati119 – 15840WD 3PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati168 – 20134WD 4PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati208 – 24538WD 5PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati252 – 28736WD 6PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati295 – 34753WD 7PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati354 – 38835WD 8PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati415 – 45440WD 9PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati463 – 49735WD 10PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati505 – 54137WD 11PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati546 – 58136WD 12PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati583 – 62442WD 13PROSITE-ProRule annotation1 PublicationAdd
BLAST
Repeati626 – 66439WD 14PROSITE-ProRule annotation1 PublicationAdd
BLAST

Domaini

The WD repeats are grouped into two tandem seven-bladed beta-propeller regions.

Sequence similaritiesi

Contains 14 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00390000004976.
HOGENOMiHOG000217777.
InParanoidiQ06078.
KOiK14554.
OMAiHVPTRQI.
OrthoDBiEOG7MSMX8.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR011047. Quinonprotein_ADH-like_supfam.
IPR007319. SSU_processome_Utp21.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF04192. Utp21. 1 hit.
PF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 9 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
SSF50998. SSF50998. 2 hits.
PROSITEiPS00678. WD_REPEATS_1. 1 hit.
PS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q06078-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSIDLKKRKV EEDVRSRGKN SKIFSPFRII GNVSNGVPFA TGTLGSTFYI
60 70 80 90 100
VTCVGKTFQI YDANTLHLLF VSEKETPSSI VALSAHFHYV YAAYENKVGI
110 120 130 140 150
YKRGIEEHLL ELETDANVEH LCIFGDYLCA STDDNSIFIY KKSDPQDKYP
160 170 180 190 200
SEFYTKLTVT EIQGGEIVSL QHLATYLNKL TVVTKSNVLL FNVRTGKLVF
210 220 230 240 250
TSNEFPDQIT TAEPAPVLDI IALGTVTGEV IMFNMRKGKR IRTIKIPQSR
260 270 280 290 300
ISSLSFRTDG SSHLSVGTSS GDLIFYDLDR RSRIHVLKNI HRESYGGVTQ
310 320 330 340 350
ATFLNGQPII VTSGGDNSLK EYVFDPSLSQ GSGDVVVQPP RYLRSRGGHS
360 370 380 390 400
QPPSYIAFAD SQSHFMLSAS KDRSLWSFSL RKDAQSQEMS QRLHKKQDGG
410 420 430 440 450
RVGGSTIKSK FPEIVALAIE NARIGEWENI ITAHKDEKFA RTWDMRNKRV
460 470 480 490 500
GRWTFDTTDD GFVKSVAMSQ CGNFGFIGSS NGSITIYNMQ SGILRKKYKL
510 520 530 540 550
HKRAVTGISL DGMNRKMVSC GLDGIVGFYD FNKSTLLGKL KLDAPITAMV
560 570 580 590 600
YHRSSDLFAL ALDDLSIVVI DAVTQRVVRQ LWGHSNRITA FDFSPEGRWI
610 620 630 640 650
VSASLDSTIR TWDLPTGGCI DGIIVDNVAT NVKFSPNGDL LATTHVTGNG
660 670 680 690 700
ICIWTNRAQF KTVSTRTIDE SEFARMALPS TSVRGNDSML SGALESNGGE
710 720 730 740 750
DLNDIDFNTY TSLEQIDKEL LTLSIGPRSK MNTLLHLDVI RKRSKPKEAP
760 770 780 790 800
KKSEKLPFFL QLSGEKVGDE ASVREGIAHE TPEEIHRRDQ EAQKKLDAEE
810 820 830 840 850
QMNKFKVTGR LGFESHFTKQ LREGSQSKDY SSLLATLINF SPAAVDLEIR
860 870 880 890 900
SLNSFEPFDE IVWFIDALTQ GLKSNKNFEL YETFMSLLFK AHGDVIHANN
910 920 930
KNQDIASALQ NWEDVHKKED RLDDLVKFCM GVAAFVTTA
Length:939
Mass (Da):104,791
Last modified:November 1, 1996 - v1
Checksum:iF1F856EF28369351
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U19729 Genomic DNA. Translation: AAB82361.1.
BK006945 Genomic DNA. Translation: DAA09709.1.
PIRiS55965.
RefSeqiNP_013513.3. NM_001182297.3.

Genome annotation databases

EnsemblFungiiYLR409C; YLR409C; YLR409C.
GeneIDi851125.
KEGGisce:YLR409C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U19729 Genomic DNA. Translation: AAB82361.1.
BK006945 Genomic DNA. Translation: DAA09709.1.
PIRiS55965.
RefSeqiNP_013513.3. NM_001182297.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4HNXX-ray2.10A1-684[»]
4NSXX-ray2.10A1-684[»]
ProteinModelPortaliQ06078.
SMRiQ06078. Positions 20-684.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31666. 56 interactions.
DIPiDIP-6416N.
IntActiQ06078. 19 interactions.
MINTiMINT-561636.

Proteomic databases

MaxQBiQ06078.
PaxDbiQ06078.
PeptideAtlasiQ06078.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR409C; YLR409C; YLR409C.
GeneIDi851125.
KEGGisce:YLR409C.

Organism-specific databases

CYGDiYLR409c.
EuPathDBiFungiDB:YLR409C.
SGDiS000004401. UTP21.

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00390000004976.
HOGENOMiHOG000217777.
InParanoidiQ06078.
KOiK14554.
OMAiHVPTRQI.
OrthoDBiEOG7MSMX8.

Enzyme and pathway databases

BioCyciYEAST:G3O-32471-MONOMER.

Miscellaneous databases

NextBioi967857.
PROiQ06078.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR011047. Quinonprotein_ADH-like_supfam.
IPR007319. SSU_processome_Utp21.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF04192. Utp21. 1 hit.
PF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 9 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
SSF50998. SSF50998. 2 hits.
PROSITEiPS00678. WD_REPEATS_1. 1 hit.
PS50082. 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 XII."
    Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
    , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
    Nature 387:87-90(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: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  5. "The small-subunit processome is a ribosome assembly intermediate."
    Bernstein K.A., Gallagher J.E.G., Mitchell B.M., Granneman S., Baserga S.J.
    Eukaryot. Cell 3:1619-1626(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH MPP10 AND SNORNA U3, IDENTIFICATION IN SSU PROCESSOME, SUBCELLULAR LOCATION.
  6. "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-772, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  7. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].
  8. "Structure of Utp21 tandem WD domain provides insight into the organization of the UTPB complex involved in ribosome synthesis."
    Zhang C., Lin J., Liu W., Chen X., Chen R., Ye K.
    PLoS ONE 9:E86540-E86540(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 1-684, SUBUNIT, WD REPEATS.

Entry informationi

Entry nameiUTP21_YEAST
AccessioniPrimary (citable) accession number: Q06078
Secondary accession number(s): D6VZ43
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 14, 2001
Last sequence update: November 1, 1996
Last modified: July 22, 2015
This is version 145 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 2020 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

External Data

Dasty 3

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 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.