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 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 translationISOSGD:S000003906GO_REF:0000024473
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005829cytosolIDAPMID:168233722315
GO:0022627cytosolic small ribosomal subunitISOSGD:S000003906GO_REF:000002465
GO:0005730nucleolusIDAPMID:16823372343
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001098sensitive to 4-nitroquinoline N-oxide159
expressivity FYPO_EXT:0000003Cell growth assayrps402ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000085sensitive to camptothecin211
expressivity FYPO_EXT:0000003Cell growth assayrps402ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000088sensitive to hydroxyureaCell growth assayrps402ΔNullPECO:0000137, PECO:0000005PMID:23173672514
expressivity FYPO_EXT:0000003Cell growth assayrps402ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000089sensitive to methyl methanesulfonateCell growth assayrps402ΔNullPECO:0000137, PECO:0000005PMID:23173672219
FYPO:0002060viable vegetative cell populationMicroscopyrps402ΔNullPMID:204732893759
Microscopyrps402ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3089
penetrance FYPO_EXT:0000001Microscopyrps402ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
116519611650825

UTRs

Region Coordinates Reference
five_prime_UTR1651961..1651811PMID:21511999
three_prime_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 94 169 3
PF01479 Pfam IPR002942 RNA-binding S4 domain 43 90 7
PF00467 Pfam IPR005824 KOW 180 210 9
PF08071 Pfam IPR013843 Ribosomal protein S4e, N-terminal 3 40 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 113.20 Da
Charge 28.50
Isoelectric point 10.94
Molecular weight 29.66 kDa
Number of residues 262
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
37during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
3.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in archaea237
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
vps35retromer complex subunit Vps35 Positive GeneticPMID:22681890
par1protein phosphatase regulatory subunit Par1 Positive GeneticPMID:22681890
ace2transcription factor Ace2 Negative GeneticPMID:22681890
ago1argonaute Negative GeneticPMID:22681890
hrp3ATP-dependent DNA helicase Hrp3 Negative GeneticPMID:22681890
pyp1tyrosine phosphatase Pyp1 Negative GeneticPMID:22681890
aut12autophagy associated protein Aut12 (predicted) Positive GeneticPMID:22681890
elp3elongator complex subunit Elp3 (predicted) Positive GeneticPMID:22681890
dbl8tRNA-splicing endonuclease positive effector Dbl8 Positive GeneticPMID:22681890
hrq1RecQ type DNA helicase Hrq1 (predicted) Positive GeneticPMID:22681890
wdr21WD repeat protein, human WDR21 family Positive GeneticPMID:22681890
dsk1SR protein-specific kinase Dsk1 Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
pac10prefoldin subunit 3 Pac10 (predicted) Positive GeneticPMID:22681890
ccr4CCR4-Not complex subunit Ccr4 (predicted) Positive GeneticPMID:22681890
rpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
utp16U3 snoRNP-associated protein Utp16 (predicted) Positive GeneticPMID:22681890
sdc1Dpy-30 domain protein Sdc1 Positive GeneticPMID:22681890
SPBC1861.07elongin C (predicted) Positive GeneticPMID:22681890
SPAC23A1.07ubiquitin-protein ligase E3 (predicted) Positive GeneticPMID:22681890
res2MBF transcription factor complex subunit Res2 Positive GeneticPMID:22681890
cph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Positive GeneticPMID:22681890
SPBC660.05WW domain containing conserved fungal protein Negative GeneticPMID:22681890
prw1Clr6 histone deacetylase complex subunit Prw1 Positive GeneticPMID:22681890
elp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
SPCC737.07cDNA polymerase alpha-associated DNA helicase A (predicted) Positive GeneticPMID:22681890
fhl1forkhead transcription factor Fhl1 Negative GeneticPMID:22681890
gnr1heterotrimeric G protein beta subunit Gnr1 Positive GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
nak1PAK-related kinase Nak1 Affinity Capture-MSPMID:23462181
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
tea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
sog2leucine-rich repeat protein Lrp1 Affinity Capture-MSPMID:23462181
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)
Cyclebase SPBC21B10.10 Cell Cycle Data
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
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:23_47 - 27 Oct 2014