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Protein

40S ribosomal protein S4-3

Gene

RPS4D

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Keywords - Ligandi

RNA-binding, rRNA-binding

Enzyme and pathway databases

ReactomeiR-ATH-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-ATH-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-ATH-72689. Formation of a pool of free 40S subunits.
R-ATH-72695. Formation of the ternary complex, and subsequently, the 43S complex.
R-ATH-72702. Ribosomal scanning and start codon recognition.
R-ATH-72706. GTP hydrolysis and joining of the 60S ribosomal subunit.
R-ATH-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-ATH-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Names & Taxonomyi

Protein namesi
Recommended name:
40S ribosomal protein S4-3
Gene namesi
Name:RPS4D
Ordered Locus Names:At5g58420
ORF Names:MQJ2_10
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G58420.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: TAIR
  • cytosolic ribosome Source: TAIR
  • cytosolic small ribosomal subunit Source: TAIR
  • membrane Source: TAIR
  • nucleolus Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 26226240S ribosomal protein S4-3PRO_0000250182Add
BLAST

Proteomic databases

PaxDbiQ8VYK6.
PRIDEiQ8VYK6.

PTM databases

iPTMnetiQ8VYK6.

Expressioni

Gene expression databases

GenevisibleiQ8VYK6. AT.

Interactioni

Protein-protein interaction databases

STRINGi3702.AT5G58420.1.

Structurei

3D structure databases

ProteinModelPortaliQ8VYK6.
SMRiQ8VYK6. Positions 2-262.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini42 – 10463S4 RNA-bindingAdd
BLAST

Sequence similaritiesi

Belongs to the ribosomal protein S4e family.Curated
Contains 1 S4 RNA-binding domain.Curated

Phylogenomic databases

eggNOGiKOG0378. Eukaryota.
COG1471. LUCA.
HOGENOMiHOG000231325.
InParanoidiQ8VYK6.
KOiK02987.
OMAiRFTTHRI.
OrthoDBiEOG09360KDQ.
PhylomeDBiQ8VYK6.

Family and domain databases

HAMAPiMF_00485. Ribosomal_S4e. 1 hit.
InterProiIPR032277. 40S_S4_C.
IPR005824. KOW.
IPR000876. Ribosomal_S4e.
IPR013845. Ribosomal_S4e_central_region.
IPR013843. Ribosomal_S4e_N.
IPR018199. Ribosomal_S4e_N_CS.
IPR002942. S4_RNA-bd.
[Graphical view]
PANTHERiPTHR11581. PTHR11581. 1 hit.
PfamiPF16121. 40S_S4_C. 1 hit.
PF00467. KOW. 1 hit.
PF00900. Ribosomal_S4e. 1 hit.
PF08071. RS4NT. 1 hit.
PF01479. S4. 1 hit.
[Graphical view]
PIRSFiPIRSF002116. Ribosomal_S4. 1 hit.
ProDomiPD002667. Ribosomal_S4e_central. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00739. KOW. 1 hit.
[Graphical view]
PROSITEiPS00528. RIBOSOMAL_S4E. 1 hit.
PS50889. S4. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8VYK6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARGLKKHLK RLNAPKHWML DKLGGAFAPK PSSGPHKSRE CLPLVLIIRN
60 70 80 90 100
RLKYALTYRE VISILMQRHI QVDGKVRTDK TYPAGFMDVV SIPKTNENFR
110 120 130 140 150
LLYDTKGRFR LHSIKDEEAK FKLCKVRSIQ FGQKGIPYLN TYDGRTIRYP
160 170 180 190 200
DPLIKPNDTI KLDLEANKIV EFIKFDVGNV VMVTGGRNRG RVGVIKNREK
210 220 230 240 250
HKGSFETIHI QDSTGHEFAT RLGNVYTIGK GTKPWVSLPK GKGIKLTIIE
260
EARKRLASQQ AA
Length:262
Mass (Da):29,816
Last modified:September 19, 2006 - v2
Checksum:iE9A281BB752F60A7
GO

Sequence cautioni

The sequence BAB10257 differs from that shown. Reason: Erroneous gene model prediction. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti53 – 531K → E in AAL49933 (PubMed:14593172).Curated
Sequence conflicti53 – 531K → E in AAN28773 (PubMed:14593172).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB025632 Genomic DNA. Translation: BAB10257.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED97051.1.
AF428285 mRNA. Translation: AAL16117.1.
AY070467 mRNA. Translation: AAL49933.1.
AY143834 mRNA. Translation: AAN28773.1.
AY086206 mRNA. Translation: AAM64284.1.
RefSeqiNP_200650.1. NM_125228.3.
UniGeneiAt.25091.
At.9748.

Genome annotation databases

EnsemblPlantsiAT5G58420.1; AT5G58420.1; AT5G58420.
GeneIDi835955.
GrameneiAT5G58420.1; AT5G58420.1; AT5G58420.
KEGGiath:AT5G58420.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB025632 Genomic DNA. Translation: BAB10257.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED97051.1.
AF428285 mRNA. Translation: AAL16117.1.
AY070467 mRNA. Translation: AAL49933.1.
AY143834 mRNA. Translation: AAN28773.1.
AY086206 mRNA. Translation: AAM64284.1.
RefSeqiNP_200650.1. NM_125228.3.
UniGeneiAt.25091.
At.9748.

3D structure databases

ProteinModelPortaliQ8VYK6.
SMRiQ8VYK6. Positions 2-262.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT5G58420.1.

PTM databases

iPTMnetiQ8VYK6.

Proteomic databases

PaxDbiQ8VYK6.
PRIDEiQ8VYK6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G58420.1; AT5G58420.1; AT5G58420.
GeneIDi835955.
GrameneiAT5G58420.1; AT5G58420.1; AT5G58420.
KEGGiath:AT5G58420.

Organism-specific databases

TAIRiAT5G58420.

Phylogenomic databases

eggNOGiKOG0378. Eukaryota.
COG1471. LUCA.
HOGENOMiHOG000231325.
InParanoidiQ8VYK6.
KOiK02987.
OMAiRFTTHRI.
OrthoDBiEOG09360KDQ.
PhylomeDBiQ8VYK6.

Enzyme and pathway databases

ReactomeiR-ATH-156827. L13a-mediated translational silencing of Ceruloplasmin expression.
R-ATH-1799339. SRP-dependent cotranslational protein targeting to membrane.
R-ATH-72689. Formation of a pool of free 40S subunits.
R-ATH-72695. Formation of the ternary complex, and subsequently, the 43S complex.
R-ATH-72702. Ribosomal scanning and start codon recognition.
R-ATH-72706. GTP hydrolysis and joining of the 60S ribosomal subunit.
R-ATH-975956. Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC).
R-ATH-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Miscellaneous databases

PROiQ8VYK6.

Gene expression databases

GenevisibleiQ8VYK6. AT.

Family and domain databases

HAMAPiMF_00485. Ribosomal_S4e. 1 hit.
InterProiIPR032277. 40S_S4_C.
IPR005824. KOW.
IPR000876. Ribosomal_S4e.
IPR013845. Ribosomal_S4e_central_region.
IPR013843. Ribosomal_S4e_N.
IPR018199. Ribosomal_S4e_N_CS.
IPR002942. S4_RNA-bd.
[Graphical view]
PANTHERiPTHR11581. PTHR11581. 1 hit.
PfamiPF16121. 40S_S4_C. 1 hit.
PF00467. KOW. 1 hit.
PF00900. Ribosomal_S4e. 1 hit.
PF08071. RS4NT. 1 hit.
PF01479. S4. 1 hit.
[Graphical view]
PIRSFiPIRSF002116. Ribosomal_S4. 1 hit.
ProDomiPD002667. Ribosomal_S4e_central. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00739. KOW. 1 hit.
[Graphical view]
PROSITEiPS00528. RIBOSOMAL_S4E. 1 hit.
PS50889. S4. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRS43_ARATH
AccessioniPrimary (citable) accession number: Q8VYK6
Secondary accession number(s): Q944M1, Q9FGI0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2006
Last sequence update: September 19, 2006
Last modified: September 7, 2016
This is version 100 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. Ribosomal proteins
    Ribosomal proteins families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.