Last updated: 2025-04-08 434609 annotations 4751 curated publications
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Gene: rrp9 / SPAC2E1P5.05
Gene symbol
rrp9
Characterisation status
biological role inferred
Product
U3 snoRNP-associated protein Rrp9
Feature type
protein coding
Systematic ID
SPAC2E1P5.05
Product size
524 aa, 59.13 kDa
Genomic location
I, 3329362-3330936 (1575nt) coding start to stop
3329341-3331216 (1876nt) including UTRs
Predicted structure
Protein features
Genome browser
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Model Confidence:
  Very high
  Confident
  Low
  Very low
GO molecular function
This gene product is not currently assigned to any molecular function GO Slim category
Binding
Show details ...
Filters: (No slim terms)
+ U3 snoRNA binding
Target of
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Send causally upstream genes to the Advanced Search: Gene Ontology | Phenotype
Ontology Relationship Gene/genotype Product
GO promoter bound by mca1 DNA-binding transcription factor, zf-fungal binuclear cluster type, meiosis-specific copper activator, Mca1
Single locus phenotype
Gene Deletion Viability: Inviable
View all alleles of rrp9
Population
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Filters: Term
+ inviable vegetative cell population
rrp9Δ
Cell
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Filters: Term
+ decreased chromatin silencing at centromere outer repeat
rrp9::Tn-seq
+ inviable spore
rrp9Δ
Protein domains and features
Protein families and domains
Match ID Source Name InterPro ID Start End Count
PF00400 Pfam WD40 repeat IPR001680
206
241
412
234
278
438
113
PS50082 Prosite WD40 repeat IPR001680
246
407
287
440
113
SM00320 SMART WD40 repeat IPR001680
194
239
281
333
400
236
278
320
371
439
113
PR00320 PRINTS G-protein beta WD-40 repeat IPR020472
265
440
43
SSF50978 SUPERFAMILY WD40-repeat-containing domain superfamily IPR036322
152
198
407
170
380
493
135
G3DSA:2.130.10.10 Gene3D WD40/YVTN repeat-like-containing domain superfamily IPR015943
95
510
144
PTHR19865 PANTHER Ribosomal RNA-processing protein Rrp9-like IPR039241
12
506
1
Coil COILS Coil
13
65
33
85
975
mobidb-lite-Disorder MOBIDB-Disorder disorder_prediction
1
65
2040
mobidb-lite-Negative-Polyelectrolyte MOBIDB-Negative-Polyelectrolyte disorder_prediction
51
64
301
mobidb-lite-Polyampholyte MOBIDB-Polyampholyte disorder_prediction
21
32
907
Domain organization at InterPro ...
No predicted trans-membrane domains
Families and domain annotated by PomBase
  Term ID Term name Reference Count
PBO:0111751 124
Protein properties
Molecular weight 59.13 kDa
Number of residues 524
Average residue weight 113 Da
Charge at pH 7 -7.04
Isoelectric point 6.09
Physical interaction
Source: Interactions curated by BioGRID and PomBase
View interactions for rrp9 at BioGRID ...
Filters: Throughput
Query using interacting genes ...
Interacting gene Interacting product Evidence Reference Interaction note
affinity captured by bdf2 BET family double bromodomain protein Bdf2 Affinity Capture-MS Wang J et al. (2013)
affinity captured by dis3 exosome 3'-5' exoribonuclease subunit Dis3 Affinity Capture-MS Telekawa C et al. (2018)
affinity captured by epe1 histone demethylase, Jmjc domain Epe1 Affinity Capture-MS Wang J et al. (2013)
binds activation domain construct with fap7 RNA mimic/ribosome assembly chaperone for Rps14 Two-hybrid Vo TV et al. (2016)
binds DNA-binding domain construct with gmf1 cofilin/tropomyosin family Glia Maturation Factor homolog Gmf1 Two-hybrid Vo TV et al. (2016)
affinity captured by mtl1 MTREC (exosome adaptor) complex RNA helicase subunit Mtl1 Affinity Capture-MS Egan ED et al. (2014) View ...
affinity captured by pir2 MTREC (exosome adaptor) complex zf-C2H2 type zinc finger subunit Pir2 Affinity Capture-MS Egan ED et al. (2014) View ...
affinity captured by rrp4 exosome subunit Rrp4 Affinity Capture-MS Telekawa C et al. (2018)
affinity captured by rrp6 exosome 3'-5' exoribonuclease subunit Rrp6 Proximity Label-MS Larochelle M et al. (2019) View ...
binds activation domain construct with tas3 RITS complex subunit 3 Two-hybrid Vo TV et al. (2016)
binds activation domain construct with tif223 translation initiation factor eIF2B gamma subunit Two-hybrid Vo TV et al. (2016)
Orthologs
Manually assigned orthologs
Ortholog species Ortholog gene Ortholog description Reference
Homo sapiens RRP9 (HGNC:16829) ribosomal RNA processing 9, U3 small nucleolar RNA binding protein
Schizosaccharomyces japonicus rrp9 (SJAG_03028) U3 snoRNP-associated protein Rrp9 Rhind N et al. (2011)
Saccharomyces cerevisiae RRP9 (YPR137W) Protein involved in pre-rRNA processing more ...
Ortholog prediction resources
DIOPT SPAC2E1P5.05 DRSC Integrative Ortholog Prediction Tool
HCOP SPAC2E1P5.05 Integrated human orthologs
Ensembl Fungal Compara SPAC2E1P5.05 Alignments, gene trees, orthologs, families
Ensembl Pan-taxonomic Compara SPAC2E1P5.05 Gene tree, orthologs
PANTHER Q9P7C0 Orthologs, gene trees, alignments
Transcript details
Key:
 
UTR
 
exon
mRNA SPAC2E1P5.05.1
U3 snoRNP-associated protein Rrp9
Location: 3329341-3331216 (1876nt), chromosome I forward strand     Product size: 524 aa, 59.13 kDa
 
 
 
Sequence
Manually select residues
>SPAC2E1P5.05.1 length:524
MSDPFFTRPEHRKRKARSATSKREKENQKLERNGPANEDLASISSESEFNGFEDEIDEENEDTYETAAEKRLRLAREYLDEVKNELVEDGGFDAKEVDRELLASRLKEDVLEKKGQMYLDYTSKINPDVKIETAQLRGRHMRPLVGVVAYENFVYSADKSGLIQKWEALQEKDTENRENDDHEIGKAIKLHFRPIKFSRSRRGENDHVKEITCLAISNDGRWIVTGGLDHRIVIRDSVTLEPQHCWKHHRDAVMGLAMRRGTNEMFSCSADRSIKVWSLDQMSYIETLFGHQDVIFGVDALARERCVSVGGRDRTSRLWKIVEESQLVFRSGGTSMKATAGYMEGSVDCVAMIDEDHFVTGSDNGVIALWSVQRKKPLFTYPLAHGLDPILAPGRHSAETSPDPVTIPPQPRWITSLAAIPYSNLFASGSWDGNIRLWKIAEGLRSFEPLTIATPLSVYGCINSLSLSLQGKGKQSEVRVFAACGRETRVGRWKTLRGIPNSGFVFNIPLTVIPSVTDGDEIDE*
External references
Sequence resources UniProtKB/SwissProt Q9P7C0 Protein database
Sequence resources InterPro Q9P7C0 Classification of protein families
Sequence resources NCBI rrp9 Query all NCBI databases
Sequence resources Ensembl SPAC2E1P5.05 Genome browser
Phenotype resources Monarch SPAC2E1P5.05 Phenotype driven discovery
Structure AlphaFold Q9P7C0 AlphaFold structure predictions
Structure ModBase Q9P7C0 Comparative protein structure models
Structure SWISS-MODEL Repository Q9P7C0 Automated protein structure homology modelling
Localization SPD / RIKEN 45/45B11 Riken Orfeome Localization Data
Strain and reagents National BioResource Project (NBRP) SPAC2E1P5.05 Strains and clones
Strain and reagents Image Data Resource SPAC2E1P5.05 Microscopy data
GO annotation QuickGO Q9P7C0 QuickGO Gene Ontology annotation viewer
GO annotation AmiGO SPAC2E1P5.05 GO Consortium browser
Interactions BioGRID 277978 Physical and genetic interactions
Interactions STRING Q9P7C0 Network display of known and predicted interactions and functional associations
Interactions IntAct Q9P7C0 IntAct Interaction Network
Modifications iPTMnet Q9P7C0 Protein modifications
Expression Gene Expression Omnibus SPAC2E1P5.05 GEO profiles
Expression pombeTV (v1) SPAC2E1P5.05 Tiling array & Illumina sequencing profiles
Expression pombeNcTV (pombeTV v2) SPAC2E1P5.05 Illumina RNA sequencing profiles
Expression Bähler Expression viewer SPAC2E1P5.05 RNA expression during the cell cycle
Expression Bähler Expression viewer SPAC2E1P5.05 RNA expression during stress
Expression Bähler Expression viewer SPAC2E1P5.05 RNA expression during meiosis
Expression Bähler Expression viewer SPAC2E1P5.05 RNA expression during mating
Expression Cyclebase SPAC2E1P5.05 Genome-wide cell-cycle-related experimental results
Expression Butter Lab (Öztürk et al. 2022) SPAC2E1P5.05 Changes in protein level of this gene product when deleting other protein coding genes
Expression Butter Lab (Öztürk et al. 2022) SPAC2E1P5.05 Proteomic changes resulting from the deletion of this gene
Proteomics PeptideAtlas SPAC2E1P5.05 Peptides identified in tandem mass spectrometry
Pathways Reactome Q9P7C0 Manually curated and peer-reviewed pathways
Orthologs DIOPT SPAC2E1P5.05 DRSC Integrative Ortholog Prediction Tool
Orthologs HCOP SPAC2E1P5.05 Integrated human orthologs
Orthologs Ensembl Fungal Compara SPAC2E1P5.05 Alignments, gene trees, orthologs, families
Orthologs Ensembl Pan-taxonomic Compara SPAC2E1P5.05 Gene tree, orthologs
Orthologs PANTHER Q9P7C0 Orthologs, gene trees, alignments
Promoters Eukaryotic Promoter Database SPAC2E1P5.05 Experimentally validated promoters
Literature
Search PubMed for rrp9
Sort by: Publication gene count | Authors | Year: Ascending / Descending
Details Genes
High Confidence Fission Yeast SUMO Conjugates Identified by Tandem Denaturing Affinity Purification.
Nie M et al. Sci Rep 2015 Sep 25;5:14389 PMID:26404184 Curated details ...
166
Dense Transposon Integration Reveals Essential Cleavage and Polyadenylation Factors Promote Heterochromatin Formation.
Lee SY et al. Cell Rep 2020 Feb 25;30(8):2686-2698.e8 PMID:32101745 Curated details ...
202
Epe1 recruits BET family bromodomain protein Bdf2 to establish heterochromatin boundaries.
Wang J et al. Genes Dev 2013 Sep 01;27(17):1886-902 PMID:24013502 Curated details ...
206
Proximity-dependent biotinylation mediated by TurboID to identify protein-protein interaction networks in yeast.
Larochelle M et al. J Cell Sci 2019 May 31;132(11) PMID:31064814 details ...
269
Proteomic profiling and functional characterization of post-translational modifications of the fission yeast RNA exosome.
Telekawa C et al. Nucleic Acids Res 2018 Nov 30;46(21):11169-11183 PMID:30321377 details ...
379
Post-transcriptional regulation of meiotic genes by a nuclear RNA silencing complex.
Egan ED et al. RNA 2014 Jun;20(6):867-81 PMID:24713849 Curated details ...
422
Targeting of SUMO substrates to a Cdc48-Ufd1-Npl4 segregase and STUbL pathway in fission yeast.
Køhler JB et al. Nat Commun 2015 Nov 05;6:8827 PMID:26537787 Curated details ...
491
A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.
Vo TV et al. Cell 2016 Jan 14;164(1-2):310-323 PMID:26771498 Curated details ...
1305
Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.
Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399 PMID:33313903 Curated details ...
1631
A comprehensive Schizosaccharomyces pombe atlas of physical transcription factor interactions with proteins and chromatin.
Skribbe M et al. Mol Cell 2025 Feb 19; PMID:40015273 Curated details ...
1868
A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405 PMID:33823663 Curated details ...
1887
Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87 PMID:25720772 Curated details ...
2119
Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.
Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7 PMID:30726745 Curated details ...
2520
Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36 PMID:24763107 Curated details ...
3394
ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7 PMID:16823372 Curated details ...
4032
Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6 PMID:21511999 Curated details ...
4422
Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623 PMID:20473289 Curated details ...
4806
A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053 PMID:23697806 Curated details ...
4837
Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83 PMID:23101633 Curated details ...
6891
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