rps402 (SPBC21B10.10)


Gene Standard Namerps402 Characterisation Statusbiological role inferred
Systematic IDSPBC21B10.10 Feature Typeprotein coding
Synonymsrps4-2 Name Description
Product40S ribosomal protein S4 (predicted) Product Size262aa, 29.66 kDa
Genomic Location Chromosome II, 1651961-1650825 (1137nt); CDS:1651810-1651022 (789nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
rRNA binding57
Annotation ExtensionEvidenceWith/FromReference
structural constituent of ribosome257
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation469
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
cytosolic small ribosomal subunit64
Annotation ExtensionEvidenceWith/FromReference
nucleolus365
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
sensitive to 4-nitroquinoline N-oxiderps402Δ159
sensitive to camptothecinrps402Δ257
sensitive to hydroxyurearps402Δ594
sensitive to methyl methanesulfonaterps402Δ331
viable vegetative cell populationrps402Δ3850

Cell Phenotype

Term NameGenotypesCount
viable vegetative cell with normal cell morphologyrps402Δ3102
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1651961..1650825
mRNA1651961..1650825
5' UTR1651961..1651811PMID:21511999
CDS1651810..1651022
3' UTR1651021..1650825PMID: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
PF00900 Pfam IPR013845 Ribosomal protein S4e, central region 95 169 3
PF16121 Pfam IPR032277 40S ribosomal protein S4, C-terminal domain 212 258 3
PF08071 Pfam IPR013843 Ribosomal protein S4e, N-terminal 3 39 3
PF01479 Pfam IPR002942 RNA-binding S4 domain 43 90 7
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 113.20 Da
Charge 28.50
Codon Adaptation Index 0.70
Isoelectric point 10.94
Molecular weight 29.66 kDa
Number of residues 262
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS223 2289
Annotation ExtensionEvidenceResidueReference
IDA S223 PMID:25720772
sumoylated lysine 174
Annotation ExtensionEvidenceResidueReference
IDA PMID:26404184
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for rps402 (SPBC21B10.10)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
315874during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
294845during GO:0000084PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
304922during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
302897during GO:0000087PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
18272.39during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
306562during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
7776.84during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
37during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
3.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi4607
conserved in eukaryotes4517
conserved in metazoa3427
conserved in vertebrates3402
conserved in archaea242
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC21B10.10 into the Query Builder
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
affinity captured bysog2leucine-rich repeat protein Lrp1 Affinity Capture-MSPMID:23462181
affinity captured bynak1PAK-related kinase Nak1 Affinity Capture-MSPMID:23462181
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC21B10.10 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
positive genetic interaction withprw1Clr6 histone deacetylase complex subunit Prw1 Positive GeneticPMID:22681890
positive genetic interaction withdbl8tRNA-splicing endonuclease positive effector Dbl8 Positive GeneticPMID:22681890
positive genetic interaction withutp16U3 snoRNP-associated protein Utp16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPBC1861.07elongin C (predicted) Positive GeneticPMID:22681890
positive genetic interaction withwdr21WD repeat protein, human DDB1 and CUL4-associated factor 4 ortholog Wdr21 Positive GeneticPMID:22681890
positive genetic interaction withvps35retromer complex subunit Vps35 Positive GeneticPMID:22681890
positive genetic interaction withrpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withelp3elongator complex subunit Elp3 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withpac10prefoldin subunit 3 Pac10 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withccr4CCR4-Not complex subunit Ccr4 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withhrq1RecQ type DNA helicase Hrq1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withaut12autophagy associated protein Aut12 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPAC23A1.07ubiquitin-protein ligase E3 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withelp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPCC737.07cDNA polymerase alpha-associated DNA helicase A (predicted) Positive GeneticPMID:22681890
positive genetic interaction withcph2Clr6 histone deacetylase associated PHD protein Cph2 Positive GeneticPMID:22681890
positive genetic interaction withgnr1heterotrimeric G protein beta subunit Gnr1 Positive GeneticPMID:22681890
positive genetic interaction withsdc1Dpy-30 domain protein Sdc1 Positive GeneticPMID:22681890
positive genetic interaction withres2MBF transcription factor complex subunit Res2 Positive GeneticPMID:22681890
positive genetic interaction withpar1protein phosphatase PP2A regulatory subunit B-56 Par1 Positive GeneticPMID:22681890
negative genetic interaction withfhl1forkhead transcription factor Fhl1 Negative GeneticPMID:22681890
negative genetic interaction withago1argonaute Negative GeneticPMID:22681890
negative genetic interaction withace2transcription factor Ace2 Negative GeneticPMID:22681890
negative genetic interaction withdsk1SR protein-specific kinase Dsk1 Negative GeneticPMID:22681890
negative genetic interaction withSPBC660.05WW domain containing conserved fungal protein Negative GeneticPMID:22681890
negative genetic interaction withhrp3ATP-dependent DNA helicase Hrp3 Negative GeneticPMID:22681890
negative genetic interaction withpyp1tyrosine phosphatase Pyp1 Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPBC21B10.10 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC21B10.10 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC21B10.10 BioGRID Interaction Datasets
Expression Viewer SPBC21B10.10 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC21B10.10 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC21B10.10 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC21B10.10 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC21B10.10 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC21B10.10 Transcriptome Viewer (Bähler Lab)
GEO SPBC21B10.10 GEO profiles
PInt SPBC21B10.10 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC21B10.10 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC21B10.10 Fission yeast phenotypic data & analysis
Cyclebase SPBC21B10.10.1 Cell Cycle Data
SPD / RIKEN43/43C02Orfeome Localization Data
UniProtKB/SwissProtQ9USW540S ribosomal protein S4-B
ModBaseQ9USW5Database of comparative protein structure models
STRINGQ9USW5Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_59567740S ribosomal protein S4
RefSeq mRNANM_001021572972h- 40S ribosomal protein S4 (rps402), mRNA
European Nucleotide ArchiveCAB57920.1ENA Protein Mapping
UniParcUPI0000134FCCUniProt Archive

Literature for rps402

Search: Europe PMC or PubMed

Release Version: PomBase:30_61 - 12 Sep 2016