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 IDTerm NameEvidenceWith/FromReferenceCount
GO:0019843rRNA bindingIEAUniProtKB-KW:KW-0699GO_REF:000003746
GO:0003735structural constituent of ribosomeISOSGD:S000001246GO_REF:0000024255
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0002181cytoplasmic translationNASGO_REF:0000051445
GO:0006412translationISOSGD:S000001246GO_REF:0000024597
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005829cytosolIDAPMID:168233722316
GO:0022627cytosolic small ribosomal subunitISOSGD:S000001246GO_REF:000002464
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001701sensitive to bortezomib256
expressivity FYPO_EXT:0000003Cell growth assayrps403ΔNullPECO:0000005, PECO:0000137PMID:21760946
FYPO:0000085sensitive to camptothecincompetitive growth assay evidencerps403ΔNullPMID:20537132211
FYPO:0002060viable vegetative cell populationMicroscopyrps403ΔNullPECO:0000005, PECO:0000137PMID:236978063730
Microscopyrps403ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3088
penetrance FYPO_EXT:0000001Microscopyrps403ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
133991743400238

UTRs

Region Coordinates Reference
five_prime_UTR3399174..3399255PMID:21511999
three_prime_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
PF01479 Pfam IPR002942 RNA-binding S4 domain 43 90 7
PF08071 Pfam IPR013843 Ribosomal protein S4e, N-terminal 3 40 3
PF00900 Pfam IPR013845 Ribosomal protein S4e, central region 94 169 3
PF00467 Pfam IPR005824 KOW 180 210 9
SM00363 SMART IPR002942 RNA-binding S4 domain 42 106 6
PS00528 Prosite Patterns IPR018199 Ribosomal protein S4e, N-terminal, conserved site 8 22 3
PS50889 Prosite Profiles IPR002942 RNA-binding S4 domain 42 105 8
PTHR11581 HMMPANTHER IPR000876 Ribosomal protein S4e 2 261 3
PIRSF002116 PIRSF IPR000876 Ribosomal protein S4e 1 241 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)DuringConditionScaleEvidenceReference
52815during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
46654during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
44208during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
49457during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
NDduring GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
45668during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
8925.16during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
72during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
6.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in archaea237
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
vps35retromer complex subunit Vps35 Negative GeneticPMID:22681890
ptc1protein phosphatase 2C Ptc1 Negative GeneticPMID:22681890
dsk1SR protein-specific kinase Dsk1 Negative GeneticPMID:22681890
php3CCAAT-binding factor complex subunit Php3 Positive GeneticPMID:22681890
prp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
mph1dual specificity protein kinase Mph1 Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
rpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
prz1calcineurin responsive transcription factor Prz1 Negative GeneticPMID:22681890
atp11F1-ATPase chaperone Atp11 (predicted) Positive GeneticPMID:22681890
cdc18MCM loader Positive GeneticPMID:22681890
elp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
ask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
SPBC1861.07elongin C (predicted) Positive GeneticPMID:22681890
pyp2tyrosine phosphatase Pyp2 Negative GeneticPMID:22681890
ies2Ino80 complex subunit Ies2 Positive GeneticPMID:22681890
mug154conserved fungal protein Negative GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
bdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
sog2leucine-rich repeat protein Lrp1 Affinity Capture-MSPMID:23462181
nak1PAK-related kinase Nak1 Affinity Capture-MSPMID:23462181
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
cka1serine/threonine protein kinase Cka1 Affinity Capture-MSPMID:23462181
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
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)
Cyclebase SPAC959.07 Cell Cycle Data
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
WikiGene254348640S ribosomal protein S4
EntrezGene254348640S ribosomal protein S4
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 ArchiveBAA33778ENA Protein Mapping
European Nucleotide ArchiveCAB93014ENA Protein Mapping
European Nucleotide ArchiveCAB93014.1ENA Protein Mapping
ReactomeREACT_188294
ReactomeREACT_188542
ReactomeREACT_188560
ReactomeREACT_206850
ReactomeREACT_210923
ReactomeREACT_215930
ReactomeREACT_226552
UniParcUPI0000134FCEUniProt Archive

Literature for rps403

Search: Europe PMC or PubMed

Release Version: PomBase:22_45 - 08 Aug 2014