rps001 (SPBC685.06)


Gene Standard Namerps001 Characterisation Statuspublished
Systematic IDSPBC685.06 Feature Typeprotein coding
Synonymsrps0, rps0-1, rpsa-1 Name Description
Product40S ribosomal protein S0A (p40) Product Size292aa, 31.76 kDa
Genomic Location Chromosome II, 2778868-2779942 (1075nt); CDS:2778923-2779856 (934nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding872
Annotation ExtensionEvidenceWith/FromReference
structural constituent of ribosome257
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation470
Annotation ExtensionEvidenceWith/FromReference
ribosomal small subunit assembly5
Annotation ExtensionEvidenceWith/FromReference
ribosomal small subunit biogenesis55
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
cytosolic small ribosomal subunit64
Annotation ExtensionEvidenceWith/FromReference
nucleus2691
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
slow vegetative cell population growthrps001Δ361
viable vegetative cell populationrps001Δ3844

Cell Phenotype

Term NameGenotypesCount
viable vegetative cell with normal cell morphologyrps001Δ3100
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2778868..2778961, 2779017..2779942
Intron2778962..2779016
mRNA2778868..2779942
5' UTR2778868..2778922PMID:21511999
CDS2778923..2778961, 2779017..2779856
3' UTR2779857..2779942PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF16122 Pfam IPR032281 40S ribosomal protein SA, C-terminal domain 204 291 2
PF00318 Pfam IPR001865 Ribosomal protein S2 116 184 3
PF00318 Pfam IPR001865 Ribosomal protein S2 20 115 3
PS00963 Prosite Patterns IPR018130 Ribosomal protein S2, conserved site 121 145 2
PTHR11489 HMMPANTHER IPR005707 Ribosomal protein S2, eukaryotic/archaeal 5 292 2
PTHR11489:SF9 HMMPANTHER 5 292 1
3.40.50.10490 Gene3D Uncharacterised protein family UPF0309 34 217 5
SSF52313 SuperFamily IPR023591 Ribosomal protein S2, flavodoxin-like domain 14 202 3
Coil ncoils Predicted coiled-coil protein (DUF2205) 212 232 1057
MF_03015 HAMAP IPR027498 Ribosomal protein S2, eukaryotic 4 271 2
PR00395 PRINTS IPR001865 Ribosomal protein S2 159 173 3
PR00395 PRINTS IPR001865 Ribosomal protein S2 96 113 3
PR00395 PRINTS IPR001865 Ribosomal protein S2 17 35 3
PR00395 PRINTS IPR001865 Ribosomal protein S2 138 149 3
PR00395 PRINTS IPR001865 Ribosomal protein S2 47 56 3
PR00395 PRINTS IPR001865 Ribosomal protein S2 121 138 3
TIGR01012 TIGRFAM IPR005707 Ribosomal protein S2, eukaryotic/archaeal 14 207 2

View domain organization at Pfam

Protein Properties

Ave. residue weight 108.77 Da
Charge -6.50
Codon Adaptation Index 0.74
Isoelectric point 4.95
Molecular weight 31.76 kDa
Number of residues 292
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1677
present during cellular response to thiabendazoleS45
present during cellular response to thiabendazoleT106
Annotation ExtensionEvidenceResidueReference
present during cellular response to thiabendazole IDA S45 PMID:18257517
present during cellular response to thiabendazole IDA T106 PMID:18257517
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for rps001 (SPBC685.06)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
650318during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
633405during GO:0000084PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
642540during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
643587during GO:0000087PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
636115during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
77480.18during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
15421.55during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
93during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
7.9during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi4606
conserved in eukaryotes4516
conserved in bacteria1002
conserved in metazoa3424
conserved in vertebrates3399
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC685.06 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured byrps2140S ribosomal protein S21 Affinity Capture-WesternPMID:14623272
affinity captured bypaa1protein phosphatase regulatory subunit Paa1 Affinity Capture-MSPMID:24634168
binds DNA-binding domain construct withrps2140S ribosomal protein S21 Two-hybridPMID:26771498
binds DNA-binding domain construct withnse1Smc5-6 complex ubiquitin-protein ligase E3 subunit 1 Two-hybridPMID:15331764
binds activation domain construct withrps2140S ribosomal protein S21 Two-hybridPMID:14623272
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC685.06 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
positive genetic interaction withreb1RNA polymerase I transcription termination factor/ RNA polymerase II transcription factor Reb1 Positive GeneticPMID:22681890
positive genetic interaction withcph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Positive GeneticPMID:22681890
positive genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:22681890
positive genetic interaction withatg6autophagy associated beclin family protein Atg6 Positive GeneticPMID:22681890
positive genetic interaction withbob1prefoldin subunit 5 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withtma23ribosome biogenesis protein Tma23 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withxap5xap-5-like protein Positive GeneticPMID:24957674
positive genetic interaction withrok1ATP-dependent RNA helicase Rok1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withvps35retromer complex subunit Vps35 Positive GeneticPMID:22681890
positive genetic interaction withrpb7DNA-directed RNA polymerase complex II subunit Rpb7 Positive GeneticPMID:22681890
positive genetic interaction withelp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withypa1protein phosphatase type 2A regulator, PTPA family Ypa1 Positive GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withgcn20AAA family ATPase Gcn20 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withmug154conserved fungal protein Negative GeneticPMID:22681890
negative genetic interaction withrsv2transcription factor Rsv2 Negative GeneticPMID:22681890
negative genetic interaction withres1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
negative genetic interaction withtrt1telomerase reverse transcriptase 1 protein Trt1 Negative GeneticPMID:22681890
negative genetic interaction withsre2membrane-tethered transcription factor Sre2 Negative GeneticPMID:22681890
negative genetic interaction withpar1protein phosphatase PP2A regulatory subunit B-56 Par1 Negative GeneticPMID:22681890
negative genetic interaction withdcr1dicer Negative GeneticPMID:22681890
negative genetic interaction withprw1Clr6 histone deacetylase complex subunit Prw1 Negative GeneticPMID:22681890
negative genetic interaction withrik1silencing protein Rik1 Negative GeneticPMID:22681890
negative genetic interaction withprp43ATP-dependent RNA helicase Prp43 Negative GeneticPMID:22681890
negative genetic interaction withhrr1Helicase Required for RNAi-mediated heterochromatin assembly Hrr1 Negative GeneticPMID:22681890
negative genetic interaction withcdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
negative genetic interaction withspc34DASH complex subunit Spc34 Negative GeneticPMID:22681890
negative genetic interaction withdsk1SR protein-specific kinase Dsk1 Negative GeneticPMID:22681890
negative genetic interaction withace2transcription factor Ace2 Negative GeneticPMID:22681890
negative genetic interaction withmed14mediator complex subunit Med14 Negative GeneticPMID:22681890
negative genetic interaction withask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
negative genetic interaction withdad2DASH complex subunit Dad2 Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPBC685.06 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC685.06 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC685.06 BioGRID Interaction Datasets
Expression Viewer SPBC685.06 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC685.06 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC685.06 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC685.06 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC685.06 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC685.06 Transcriptome Viewer (Bähler Lab)
GEO SPBC685.06 GEO profiles
PInt SPBC685.06 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC685.06 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC685.06 Fission yeast phenotypic data & analysis
Cyclebase SPBC685.06.1 Cell Cycle Data
SPD / RIKEN13/13A11Orfeome Localization Data
UniProtKB/SwissProtQ9Y7L840S ribosomal protein S0-A
ModBaseQ9Y7L8Database of comparative protein structure models
STRINGQ9Y7L8Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_59614040S ribosomal protein S0A
RefSeq mRNANM_001022058972h- 40S ribosomal protein S0A (rps001), mRNA
European Nucleotide ArchiveCAB39363.1ENA Protein Mapping
UniParcUPI0000134B8DUniProt Archive

Literature for rps001

Search: Europe PMC or PubMed

Release Version: PomBase:30_60 - 12 May 2016