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 NameCount
rRNA binding55
Annotation ExtensionEvidenceWith/FromReference
structural constituent of ribosome255
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation462
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 latrunculin Arps401ΔNull24
viable vegetative cell populationrps401ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
abnormal vegetative cell shaperps401ΔNull1434
viable vegetative cell with normal cell morphologyrps401ΔNull3093
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons3245085..3246030
mRNA3245085..3246030
5' UTR3245085..3245142PMID:21511999
CDS3245143..3245931
3' UTR3245932..3246030PMID: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
PF08071 Pfam IPR013843 Ribosomal protein S4e, N-terminal 3 40 3
PF01479 Pfam IPR002942 RNA-binding S4 domain 43 90 7
PF00900 Pfam IPR013845 Ribosomal protein S4e, central region 94 169 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 113.32 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 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 bytea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withago1argonaute Negative GeneticPMID:22681890
negative genetic interaction witharp8actin-like protein, Ino80 complex subunit Arp8 Negative GeneticPMID:22681890
negative genetic interaction withask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
negative genetic interaction withbdc1bromodomain containing protein 1, Bdc1 Negative GeneticPMID:22681890
negative genetic interaction withbdf1Swr1 complex bromodomain subunit Brf1 Negative GeneticPMID:22681890
negative genetic interaction withcdc18MCM loader Negative GeneticPMID:22681890
positive genetic interaction withcdc42Rho family GTPase Cdc42 Positive GeneticPMID:22681890
negative genetic interaction withcdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
negative genetic interaction withckb2CK2 family regulatory subunit Ckb2 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withcrb2DNA repair protein Rad9 homolog Crb2 Negative GeneticPMID:22681890
negative genetic interaction withdad2DASH complex subunit Dad2 Negative GeneticPMID:22681890
negative genetic interaction withdad3DASH complex subunit Dad3 Negative GeneticPMID:22681890
negative genetic interaction withdad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
negative genetic interaction withdam1DASH complex subunit Dam1 Negative GeneticPMID:22681890
positive genetic interaction withdot2ESCRT II complex subunit Dot2 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
negative genetic interaction withfhl1forkhead transcription factor Fhl1 Negative GeneticPMID:22681890
negative genetic interaction withgcn2eIF2 alpha kinase Gcn2 Negative GeneticPMID:22681890
positive genetic interaction withgim3prefoldin subunit 4, Gim3 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withhip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
positive genetic interaction withhrq1RecQ type DNA helicase Hrq1 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withmkh1MEK kinase (MEKK) Mkh1 Negative GeneticPMID:22681890
negative genetic interaction withmsh3MutS protein homolog 3 Negative GeneticPMID:22681890
negative genetic interaction withmug154conserved fungal protein Negative GeneticPMID:22681890
positive genetic interaction withnop10snoRNP pseudouridylase box H/ACA snoRNP complex protein (predicted) Positive GeneticPMID:22681890
negative genetic interaction withpab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
positive genetic interaction withpck1protein kinase C (PKC)-like Pck1 Positive GeneticPMID:22681890
positive genetic interaction withpef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Positive GeneticPMID:22681890
negative genetic interaction withpit1serine/threonine protein kinase, meiotic Pit1 Negative GeneticPMID:22681890
negative genetic interaction withpnk1DNA kinase/phosphatase Pnk1 Negative GeneticPMID:22681890
negative genetic interaction withprp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
negative genetic interaction withprw1Clr6 histone deacetylase complex subunit Prw1 Negative GeneticPMID:22681890
negative genetic interaction withpst2Clr6 histone deacetylase complex subunit Pst2 Negative GeneticPMID:22681890
negative genetic interaction withptc1protein phosphatase 2C Ptc1 Negative GeneticPMID:22681890
negative genetic interaction withpub3HECT-type ubiquitin-protein ligase E3 Pub3 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withpzh1serine/threonine protein phosphatase Pzh1 Positive GeneticPMID:22681890
negative genetic interaction withrad55RecA family ATPase Rad55/Rhp55 Negative GeneticPMID:22681890
negative genetic interaction withrad57RecA family ATPase Rad57/Rhp57 Negative GeneticPMID:22681890
negative genetic interaction withrem1meiosis-specific cyclin Rem1 Negative GeneticPMID:22681890
negative genetic interaction withres1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
positive genetic interaction withres2MBF transcription factor complex subunit Res2 Positive GeneticPMID:22681890
positive genetic interaction withrok1ATP-dependent RNA helicase Rok1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withrpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withsnf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
positive genetic interaction withsod1superoxide dismutase Sod1 Positive GeneticPMID:22681890
positive genetic interaction withSPAC1486.03cRNA-binding splicing factor (predicted) Positive GeneticPMID:22681890
negative genetic interaction withSPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:22681890
negative genetic interaction withSPBC31F10.10czf-MYND type zinc finger protein Negative GeneticPMID:22681890
negative genetic interaction withspc19DASH complex subunit Spc19 Negative GeneticPMID:22681890
negative genetic interaction withspc34DASH complex subunit Spc34 Negative GeneticPMID:22681890
negative genetic interaction withsrb11cyclin CycC, Srb mediator subunit Srb11 Negative GeneticPMID:22681890
negative genetic interaction withswd2Set1C complex subunit Swd2.1 Negative GeneticPMID:22681890
negative genetic interaction withtbf1DNA binding factor Trf1 Negative GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withubc6ubiquitin conjugating enzyme E2 Ubc6 (predicted) Positive GeneticPMID:22681890
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)
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
SYSGRO SPBC19F8.08 Fission yeast phenotypic data & analysis
Cyclebase SPBC19F8.08.1 Cell Cycle Data
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:26_52 - 11 May 2015