rps403 (SPAC959.07)


Gene Standard Namerps403 Characterisation Statusbiological_role_inferred
Systematic IDSPAC959.07 Feature Typeprotein coding
Synonymsrps4, rps4-3 Name Description
Product40S ribosomal protein S4 (predicted) Product Size262aa, 29.67 kDa
Genomic Location Chromosome I, 3399174-3400238 (1065nt); CDS:3399256-3400044 (789nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
rRNA binding55
Annotation ExtensionEvidenceWith/FromReference
structural constituent of ribosome255
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation465
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2314
Annotation ExtensionEvidenceWith/FromReference
cytosolic small ribosomal subunit65
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
sensitive to bortezomibrps403ΔNull256
sensitive to camptothecinrps403ΔNull225
viable vegetative cell populationrps403ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
viable vegetative cell with normal cell morphologyrps403ΔNull3094
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons3399174..3400238
mRNA3399174..3400238
5' UTR3399174..3399255PMID:21511999
CDS3399256..3400044
3' UTR3400045..3400238PMID: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
PF00467 Pfam IPR005824 KOW 180 210 9
PF00900 Pfam IPR013845 Ribosomal protein S4e, central region 94 169 3
PF01479 Pfam IPR002942 RNA-binding S4 domain 43 90 7
PF08071 Pfam IPR013843 Ribosomal protein S4e, N-terminal 3 40 3
SM00363 SMART IPR002942 RNA-binding S4 domain 42 106 6
PS50889 Prosite Profiles IPR002942 RNA-binding S4 domain 42 105 8
PS00528 Prosite Patterns IPR018199 Ribosomal protein S4e, N-terminal, conserved site 8 22 3
PTHR11581 HMMPANTHER IPR000876 Ribosomal protein S4e 2 261 3
PD002667 blastprodom IPR013845 Ribosomal protein S4e, central region 87 177 3
PIRSF002116 PIRSF IPR000876 Ribosomal protein S4e 1 241 3
MF_00485 hamap IPR000876 Ribosomal protein S4e 7 238 3

View domain organization at Pfam

Protein Properties

Ave. residue weight 113.26 Da
Charge 29.50
Isoelectric point 10.96
Molecular weight 29.67 kDa
Number of residues 262
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
52815during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
46654during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
44208during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
49457during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
45668during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
8925.16during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
72during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
6.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4603
conserved in eukaryotes4514
conserved in metazoa3424
conserved in vertebrates3399
conserved in archaea238
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bycka1serine/threonine protein kinase Cka1 Affinity Capture-MSPMID:23462181
affinity captured bynak1PAK-related kinase Nak1 Affinity Capture-MSPMID:23462181
affinity captured bysog2leucine-rich repeat protein Lrp1 Affinity Capture-MSPMID:23462181
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
positive genetic interaction withatp11mitochondrial F1-ATPase chaperone Atp11 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withcdc18MCM loader Positive GeneticPMID:22681890
negative genetic interaction withdsk1SR protein-specific kinase Dsk1 Negative GeneticPMID:22681890
positive genetic interaction withelp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withies2Ino80 complex subunit Ies2 Positive GeneticPMID:22681890
negative genetic interaction withmph1dual specificity protein kinase Mph1 Negative GeneticPMID:22681890
negative genetic interaction withmug154conserved fungal protein Negative GeneticPMID:22681890
positive genetic interaction withphp3CCAAT-binding factor complex subunit Php3 Positive GeneticPMID:22681890
negative genetic interaction withprp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
negative genetic interaction withprz1calcineurin responsive transcription factor Prz1 Negative GeneticPMID:22681890
negative genetic interaction withptc1protein phosphatase 2C Ptc1 Negative GeneticPMID:22681890
negative genetic interaction withpyp2tyrosine phosphatase Pyp2 Negative GeneticPMID:22681890
positive genetic interaction withrpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPBC1861.07elongin C (predicted) Positive GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withvps35retromer complex subunit Vps35 Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPAC959.07 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC959.07 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC959.07 BioGRID Interaction Datasets
Expression Viewer SPAC959.07 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC959.07 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC959.07 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC959.07 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC959.07 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC959.07 Transcriptome Viewer (Bähler Lab)
GEO SPAC959.07 GEO profiles
PInt SPAC959.07 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC959.07 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC959.07 Fission yeast phenotypic data & analysis
Cyclebase SPAC959.07.1 Cell Cycle Data
SPD / RIKEN09/09H06Orfeome Localization Data
UniProtKB/SwissProtQ9P4W940S ribosomal protein S4-C
ModBaseQ9P4W9Database of comparative protein structure models
STRINGQ9P4W9Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_59417440S ribosomal protein S4
RefSeq mRNANM_001019599972h- 40S ribosomal protein S4 (rps403), mRNA
European Nucleotide ArchiveAB018354ENA EMBL mapping
European Nucleotide ArchiveCAB93014.1ENA Protein Mapping
UniParcUPI0000134FCEUniProt Archive

Literature for rps403

Search: Europe PMC or PubMed

Release Version: PomBase:26_53 - 27 May 2015