rps401 (SPBC19F8.08)


Gene Standard Namerps401 Characterisation Statusbiological_role_inferred
Systematic IDSPBC19F8.08 Feature Typeprotein coding
Synonymsrps4, rps4-1, SPBC25H2.17c Name Description
Product40S ribosomal protein S4 (predicted) Product Size262aa, 29.69 kDa
Genomic Location Chromosome II, 3245085-3246030 (946nt); CDS:3245143-3245931 (789nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0019843rRNA bindingIEAUniProtKB-KW:KW-0699GO_REF:000003756
GO:0003735structural constituent of ribosomeISOSGD:S000003906GO_REF:0000024255
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0002181cytoplasmic translationNASGO_REF:0000051446
GO:0006412translationISOSGD:S000003906GO_REF:0000024599
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005829cytosolIDAPMID:168233722319
GO:0022627cytosolic small ribosomal subunitISOSGD:S000003906GO_REF:000002464
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopyrps401ΔNullPMID:204732893751
Microscopyrps401ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3088
penetrance FYPO_EXT:0000001Microscopyrps401ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
132450853246030
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
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
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:SF0 HMMPANTHER 2 262 3
PTHR11581 HMMPANTHER IPR000876 Ribosomal protein S4e 2 262 3
PIRSF002116 PIRSF IPR000876 Ribosomal protein S4e 1 241 3

View domain organization at Pfam

Protein Properties

Ave. residue weight 113.32 Da
Charge 29.50
Isoelectric point 10.96
Molecular weight 29.69 kDa
Number of residues 262
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
177737.66during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
49129.12during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
66during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4599
conserved in eukaryotes4514
conserved in metazoa3428
conserved in vertebrates3402
conserved in archaea237
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
swd2Set1C complex subunit Swd2.1 Negative GeneticPMID:22681890
pnk1DNA kinase/phosphatase Pnk1 Negative GeneticPMID:22681890
cdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
prp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
gcn2eIF2 alpha kinase Gcn2 Negative GeneticPMID:22681890
bdc1bromodomain containing protein 1, Bdc1 Negative GeneticPMID:22681890
ago1argonaute Negative GeneticPMID:22681890
tbf1DNA binding factor Trf1 Negative GeneticPMID:22681890
pab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
pef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Positive GeneticPMID:22681890
rok1ATP-dependent RNA helicase Rok1 (predicted) Positive GeneticPMID:22681890
SPAC227.05prefoldin subunit 4 (predicted) Positive GeneticPMID:22681890
rem1meiosis-specific cyclin Rem1 Negative GeneticPMID:22681890
SPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:22681890
ckb2CK2 family regulatory subunit Ckb2 (predicted) Negative GeneticPMID:22681890
msh3MutS protein homolog 3 Negative GeneticPMID:22681890
snf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
pck1protein kinase C (PKC)-like Pck1 Positive GeneticPMID:22681890
rad55RecA family ATPase Rad55/Rhp55 Negative GeneticPMID:22681890
cdc18MCM loader Negative GeneticPMID:22681890
mkh1MEK kinase (MEKK) Mkh1 Negative GeneticPMID:22681890
ask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
hrq1RecQ type DNA helicase Hrq1 (predicted) Positive GeneticPMID:22681890
dad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
pst2Clr6 histone deacetylase complex subunit Pst2 Negative GeneticPMID:22681890
spc19DASH complex subunit Spc19 Negative GeneticPMID:22681890
cdc42Rho family GTPase Cdc42 Positive GeneticPMID:22681890
dad2DASH complex subunit Dad2 Negative GeneticPMID:22681890
crb2DNA repair protein Rad9 homolog, Rhp9 Negative GeneticPMID:22681890
mug154conserved fungal protein Negative GeneticPMID:22681890
SPBC31F10.10czf-MYND type zinc finger protein Negative GeneticPMID:22681890
ptc1protein phosphatase 2C Ptc1 Negative GeneticPMID:22681890
dsk1SR protein-specific kinase Dsk1 Negative GeneticPMID:22681890
nop10snoRNP pseudouridylase box H/ACA snoRNP complex protein (predicted) Positive GeneticPMID:22681890
pzh1serine/threonine protein phosphatase Pzh1 Positive GeneticPMID:22681890
pit1serine/threonine protein kinase, meiotic Pit1 Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
dad3DASH complex subunit Dad3 Negative GeneticPMID:22681890
rpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
pub3HECT-type ubiquitin-protein ligase E3 Pub3 (predicted) Negative GeneticPMID:22681890
arp8actin-like protein, Ino80 complex subunit Arp8 Negative GeneticPMID:22681890
hip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
spc34DASH complex subunit Spc34 Negative GeneticPMID:22681890
res2MBF transcription factor complex subunit Res2 Positive GeneticPMID:22681890
rad57RecA family ATPase Rad57/Rhp57 Negative GeneticPMID:22681890
ubc6ubiquitin conjugating enzyme Ubc6 (predicted) Positive GeneticPMID:22681890
res1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
srb11cyclin CycC, Srb mediator subunit Srb11 Negative GeneticPMID:22681890
prw1Clr6 histone deacetylase complex subunit Prw1 Negative GeneticPMID:22681890
sod1superoxide dismutase Sod1 Positive GeneticPMID:22681890
SPAC1486.03cRNA-binding splicing factor (predicted) Positive GeneticPMID:22681890
elp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
dot2ESCRT II complex subunit Dot2 Positive GeneticPMID:22681890
fhl1forkhead transcription factor Fhl1 Negative GeneticPMID:22681890
dam1DASH complex subunit Dam1 Negative GeneticPMID:22681890
bdf1Swr1 complex bromodomain subunit Brf1 Negative GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
bdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
tea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
External References
Database Identifier Description
NBRP SPBC19F8.08 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC19F8.08 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC19F8.08 BioGRID Interaction Datasets
Expression Viewer SPBC19F8.08 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC19F8.08 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC19F8.08 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC19F8.08 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC19F8.08 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC19F8.08 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC19F8.08 Cell Cycle Data
GEO SPBC19F8.08 GEO profiles
PInt SPBC19F8.08 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC19F8.08 Peptides identified in tandem mass spectrometry proteomics experiments
SPD / RIKEN40/40B03Orfeome Localization Data
UniProtKB/SwissProtP8715840S ribosomal protein S4-A
ModBaseP87158Database of comparative protein structure models
STRINGP87158Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_59635040S ribosomal protein S4
RefSeq mRNANM_001022270972h- 40S ribosomal protein S4 (rps401), mRNA
European Nucleotide ArchiveU97374ENA EMBL mapping
European Nucleotide ArchiveCAA19128.1ENA Protein Mapping
UniParcUPI0000134FC9UniProt Archive

Literature for rps401

Search: Europe PMC or PubMed

Release Version: PomBase:23_46 - 30 Aug 2014