Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

40S ribosomal protein S4-2

Gene

RPS4B

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 S4-2
Gene namesi
Name:RPS4B
Ordered Locus Names:At5g07090
ORF Names:MOJ9.26, T28J14_30
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

TAIRiAT5G07090.

Subcellular locationi

GO - Cellular componenti

  • cytosolic ribosome Source: TAIR
  • vacuolar membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 26226240S ribosomal protein S4-2PRO_0000130832Add
BLAST

Proteomic databases

PaxDbiP49204.
PRIDEiP49204.

Expressioni

Gene expression databases

ExpressionAtlasiP49204. baseline and differential.
GenevisibleiP49204. AT.

Interactioni

Protein-protein interaction databases

BioGridi15879. 1 interaction.
IntActiP49204. 1 interaction.
STRINGi3702.AT5G07090.1.

Structurei

3D structure databases

ProteinModelPortaliP49204.
SMRiP49204. 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.
InParanoidiP49204.
OMAiWWPIPRK.
PhylomeDBiP49204.

Family and domain databases

HAMAPiMF_00485. Ribosomal_S4e.
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.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: P49204-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« 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 KLDLEENKIV EFIKFDVGNV VMVTGGRNRG RVGVIKNREK
210 220 230 240 250
HKGSFETIHI QDSTGHEFAT RLGNVYTIGK GTKPWVSLPK GKGIKLTIIE
260
EARKRLASQQ AA
Length:262
Mass (Da):29,874
Last modified:December 13, 2001 - v4
Checksum:iEF0847171FE9CA67
GO

Sequence cautioni

The sequence BAB11167.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence CAA79086.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281A → G in CAA83563 (PubMed:8580968).Curated
Sequence conflicti31 – 311P → S in CAA83563 (PubMed:8580968).Curated
Sequence conflicti53 – 531K → M in CAA83563 (PubMed:8580968).Curated
Sequence conflicti55 – 551A → S in CAA83563 (PubMed:8580968).Curated
Sequence conflicti92 – 921I → IV in CAA79086 (PubMed:8281187).Curated
Sequence conflicti257 – 2582AS → SA in CAA23384 (PubMed:8580968).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB010697 Genomic DNA. Translation: BAB11167.1. Sequence problems.
AL163652 Genomic DNA. Translation: CAB87265.1.
CP002688 Genomic DNA. Translation: AED91107.1.
AY050933 mRNA. Translation: AAK93610.1.
AY070769 mRNA. Translation: AAL50106.1.
AY079417 mRNA. Translation: AAL85148.1.
AY093715 mRNA. Translation: AAM10339.1.
AY085205 mRNA. Translation: AAM61755.1.
Z17994 mRNA. Translation: CAA79086.1. Different initiation.
Z18498 mRNA. Translation: CAA79206.1.
Z32619 mRNA. Translation: CAA83563.1.
Z32618 mRNA. Translation: CAA83562.1.
F20029 mRNA. Translation: CAA23384.1.
PIRiT48480.
RefSeqiNP_568179.1. NM_120791.3. [P49204-1]
UniGeneiAt.25091.
At.5040.

Genome annotation databases

EnsemblPlantsiAT5G07090.1; AT5G07090.1; AT5G07090. [P49204-1]
GeneIDi830600.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB010697 Genomic DNA. Translation: BAB11167.1. Sequence problems.
AL163652 Genomic DNA. Translation: CAB87265.1.
CP002688 Genomic DNA. Translation: AED91107.1.
AY050933 mRNA. Translation: AAK93610.1.
AY070769 mRNA. Translation: AAL50106.1.
AY079417 mRNA. Translation: AAL85148.1.
AY093715 mRNA. Translation: AAM10339.1.
AY085205 mRNA. Translation: AAM61755.1.
Z17994 mRNA. Translation: CAA79086.1. Different initiation.
Z18498 mRNA. Translation: CAA79206.1.
Z32619 mRNA. Translation: CAA83563.1.
Z32618 mRNA. Translation: CAA83562.1.
F20029 mRNA. Translation: CAA23384.1.
PIRiT48480.
RefSeqiNP_568179.1. NM_120791.3. [P49204-1]
UniGeneiAt.25091.
At.5040.

3D structure databases

ProteinModelPortaliP49204.
SMRiP49204. Positions 2-262.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi15879. 1 interaction.
IntActiP49204. 1 interaction.
STRINGi3702.AT5G07090.1.

Proteomic databases

PaxDbiP49204.
PRIDEiP49204.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G07090.1; AT5G07090.1; AT5G07090. [P49204-1]
GeneIDi830600.

Organism-specific databases

TAIRiAT5G07090.

Phylogenomic databases

eggNOGiKOG0378. Eukaryota.
COG1471. LUCA.
HOGENOMiHOG000231325.
InParanoidiP49204.
OMAiWWPIPRK.
PhylomeDBiP49204.

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

PROiP49204.

Gene expression databases

ExpressionAtlasiP49204. baseline and differential.
GenevisibleiP49204. AT.

Family and domain databases

HAMAPiMF_00485. Ribosomal_S4e.
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...

Publicationsi

« Hide 'large scale' publications
  1. "Structural analysis of Arabidopsis thaliana chromosome 5. V. Sequence features of the regions of 1,381,565 bp covered by twenty one physically assigned P1 and TAC clones."
    Kaneko T., Kotani H., Nakamura Y., Sato S., Asamizu E., Miyajima N., Tabata S.
    DNA Res. 5:131-145(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
    Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K.
    , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
    Nature 408:823-826(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Full-length cDNA from Arabidopsis thaliana."
    Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
    Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-122 AND 236-262.
    Strain: cv. Columbia.
  7. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-72 AND 133-262.
    Strain: cv. Columbia.
    Tissue: Green siliques.
  8. "The organization of cytoplasmic ribosomal protein genes in the Arabidopsis genome."
    Barakat A., Szick-Miranda K., Chang I.-F., Guyot R., Blanc G., Cooke R., Delseny M., Bailey-Serres J.
    Plant Physiol. 127:398-415(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY ORGANIZATION, NOMENCLATURE.

Entry informationi

Entry nameiRS42_ARATH
AccessioniPrimary (citable) accession number: P49204
Secondary accession number(s): Q42346, Q9FL39, Q9LYQ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: December 13, 2001
Last modified: May 11, 2016
This is version 133 of the entry and version 4 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.