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Protein

Ribosomal RNA-processing protein 9

Gene

RRP9

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 efficient pre-rRNA cleavage at sites A0, A1 and A2, and biosynthesis of 18S rRNA.1 Publication

GO - Molecular functioni

  • snoRNA binding Source: SGD

GO - Biological processi

  • rRNA methylation Source: Reactome
  • rRNA modification 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-34272-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus and cytosol.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal RNA-processing protein 9
Gene namesi
Name:RRP9
Ordered Locus Names:YPR137W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XVI

Organism-specific databases

EuPathDBiFungiDB:YPR137W.
SGDiS000006341. RRP9.

Subcellular locationi

GO - Cellular componenti

  • box C/D snoRNP complex Source: SGD
  • nucleolus Source: SGD
  • nucleoplasm Source: Reactome
  • small-subunit processome Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002694822 – 573Ribosomal RNA-processing protein 9Add BLAST572

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineCombined sources1
Modified residuei50PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ06506.
PRIDEiQ06506.

PTM databases

iPTMnetiQ06506.

Interactioni

Subunit structurei

Interacts with UTP25. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.2 Publications

Protein-protein interaction databases

BioGridi36303. 56 interactors.
DIPiDIP-6537N.
IntActiQ06506. 37 interactors.
MINTiMINT-671209.

Structurei

Secondary structure

1573
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni137 – 139Combined sources3
Beta strandi141 – 151Combined sources11
Beta strandi153 – 155Combined sources3
Beta strandi157 – 163Combined sources7
Beta strandi186 – 191Combined sources6
Beta strandi194 – 200Combined sources7
Beta strandi209 – 215Combined sources7
Helixi218 – 220Combined sources3
Beta strandi239 – 244Combined sources6
Beta strandi248 – 255Combined sources8
Beta strandi258 – 264Combined sources7
Turni265 – 268Combined sources4
Beta strandi269 – 275Combined sources7
Beta strandi283 – 288Combined sources6
Beta strandi292 – 299Combined sources8
Beta strandi302 – 308Combined sources7
Turni309 – 312Combined sources4
Beta strandi313 – 319Combined sources7
Beta strandi327 – 329Combined sources3
Beta strandi332 – 339Combined sources8
Beta strandi345 – 350Combined sources6
Turni351 – 354Combined sources4
Beta strandi355 – 360Combined sources6
Helixi365 – 372Combined sources8
Beta strandi402 – 409Combined sources8
Beta strandi412 – 417Combined sources6
Beta strandi422 – 426Combined sources5
Beta strandi433 – 436Combined sources4
Turni437 – 440Combined sources4
Beta strandi477 – 480Combined sources4
Beta strandi484 – 490Combined sources7
Beta strandi492 – 494Combined sources3
Beta strandi496 – 501Combined sources6
Beta strandi508 – 514Combined sources7
Beta strandi519 – 528Combined sources10
Beta strandi537 – 546Combined sources10
Beta strandi562 – 569Combined sources8

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4J0XX-ray2.50A/B127-573[»]
5JPQelectron microscopy7.30Y1-573[»]
ProteinModelPortaliQ06506.
SMRiQ06506.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati234 – 273WD 1Add BLAST40
Repeati278 – 317WD 2Add BLAST40
Repeati320 – 359WD 3Add BLAST40
Repeati397 – 435WD 4Add BLAST39
Repeati471 – 509WD 5Add BLAST39
Repeati516 – 562WD 6Add BLAST47

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili32 – 106Sequence analysisAdd BLAST75

Domaini

The WD domains are required for nucleolar localization and U3 small nucleolar RNAs binding.By similarity

Sequence similaritiesi

Belongs to the WD repeat RRP9 family.Curated
Contains 6 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Repeat, WD repeat

Phylogenomic databases

GeneTreeiENSGT00860000133882.
HOGENOMiHOG000188732.
InParanoidiQ06506.
KOiK14793.
OMAiKLIVWST.
OrthoDBiEOG092C2YT9.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 5 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 3 hits.
PROSITEiPS50082. 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.

Q06506-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDVTQQKKR KRSKGEVNPS KPTVDEEITD PSSNEDEQLE VSDEEDALES
60 70 80 90 100
EEEFEGENPA DKRRRLAKQY LENLKSEAND ILTDNRNAEE KDLNNLKERT
110 120 130 140 150
IDEYNNFDAG DLDKDIIASR LKEDVAEQQG RVFRYFGDKL LISEAKQSFT
160 170 180 190 200
RVGENNLTCI SCFQPVLNKY TFEESSNGDK NKGRLFAYTV SKDLQLTKYD
210 220 230 240 250
ITDFSKRPKK LKYAKGGAKY IPTSKHEYEN TTEGHYDEIL TVAASPDGKY
260 270 280 290 300
VVTGGRDRKL IVWSTESLSP VKVIPTKDRR GEVLSLAFRK NSDQLYASCA
310 320 330 340 350
DFKIRTYSIN QFSQLEILYG HHDIVEDISA LAMERCVTVG ARDRTAMLWK
360 370 380 390 400
IPDETRLTFR GGDEPQKLLR RWMKENAKEG EDGEVKYPDE SEAPLFFCEG
410 420 430 440 450
SIDVVSMVDD FHFITGSDNG NICLWSLAKK KPIFTERIAH GILPEPSFND
460 470 480 490 500
ISGETDEELR KRQLQGKKLL QPFWITSLYA IPYSNVFISG SWSGSLKVWK
510 520 530 540 550
ISDNLRSFEL LGELSGAKGV VTKIQVVESG KHGKEKFRIL ASIAKEHRLG
560 570
RWIANVSGAR NGIYSAVIDQ TGF
Length:573
Mass (Da):65,054
Last modified:November 1, 1996 - v1
Checksum:i96BEAB7DC338E70E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U40829 Genomic DNA. Translation: AAB68277.1.
BK006949 Genomic DNA. Translation: DAA11549.1.
PIRiS69026.
RefSeqiNP_015463.1. NM_001184234.1.

Genome annotation databases

EnsemblFungiiYPR137W; YPR137W; YPR137W.
GeneIDi856255.
KEGGisce:YPR137W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U40829 Genomic DNA. Translation: AAB68277.1.
BK006949 Genomic DNA. Translation: DAA11549.1.
PIRiS69026.
RefSeqiNP_015463.1. NM_001184234.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4J0XX-ray2.50A/B127-573[»]
5JPQelectron microscopy7.30Y1-573[»]
ProteinModelPortaliQ06506.
SMRiQ06506.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36303. 56 interactors.
DIPiDIP-6537N.
IntActiQ06506. 37 interactors.
MINTiMINT-671209.

PTM databases

iPTMnetiQ06506.

Proteomic databases

MaxQBiQ06506.
PRIDEiQ06506.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPR137W; YPR137W; YPR137W.
GeneIDi856255.
KEGGisce:YPR137W.

Organism-specific databases

EuPathDBiFungiDB:YPR137W.
SGDiS000006341. RRP9.

Phylogenomic databases

GeneTreeiENSGT00860000133882.
HOGENOMiHOG000188732.
InParanoidiQ06506.
KOiK14793.
OMAiKLIVWST.
OrthoDBiEOG092C2YT9.

Enzyme and pathway databases

BioCyciYEAST:G3O-34272-MONOMER.
ReactomeiR-SCE-6790901. rRNA modification in the nucleus and cytosol.
R-SCE-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.

Miscellaneous databases

PROiQ06506.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 5 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 3 hits.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRRP9_YEAST
AccessioniPrimary (citable) accession number: Q06506
Secondary accession number(s): D6W4D3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 12, 2006
Last sequence update: November 1, 1996
Last modified: November 30, 2016
This is version 135 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 5130 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 XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: 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.