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O50061

- RK4_ARATH

UniProt

O50061 - RK4_ARATH

Protein

50S ribosomal protein L4, chloroplastic

Gene

RPL4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 97 (01 Oct 2014)
      Sequence version 2 (20 Jun 2002)
      Previous versions | rss
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    Functioni

    This protein binds directly and specifically to 23S rRNA By similarity. May play a role in plastid transcriptional regulation.By similarity

    GO - Molecular functioni

    1. poly(U) RNA binding Source: TAIR
    2. rRNA binding Source: UniProtKB-KW
    3. structural constituent of ribosome Source: TAIR

    GO - Biological processi

    1. translation Source: TAIR

    Keywords - Molecular functioni

    Ribonucleoprotein, Ribosomal protein

    Keywords - Ligandi

    RNA-binding, rRNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    50S ribosomal protein L4, chloroplastic
    Alternative name(s):
    CL4
    R-protein L4
    Gene namesi
    Name:RPL4
    Ordered Locus Names:At1g07320
    ORF Names:F22G5.34, F22G5_28
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 1

    Organism-specific databases

    TAIRiAT1G07320.

    Subcellular locationi

    GO - Cellular componenti

    1. chloroplast Source: TAIR
    2. chloroplast stroma Source: TAIR
    3. chloroplast thylakoid membrane Source: TAIR
    4. cytosolic ribosome Source: TAIR
    5. membrane Source: TAIR
    6. nucleus Source: TAIR
    7. plastid large ribosomal subunit Source: TAIR
    8. plastid ribosome Source: TAIR
    9. thylakoid Source: TAIR

    Keywords - Cellular componenti

    Chloroplast, Plastid

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 4949ChloroplastBy similarityAdd
    BLAST
    Chaini50 – 28223350S ribosomal protein L4, chloroplasticPRO_0000030538Add
    BLAST

    Proteomic databases

    PaxDbiO50061.
    PRIDEiO50061.

    Expressioni

    Gene expression databases

    ArrayExpressiO50061.
    GenevestigatoriO50061.

    Interactioni

    Subunit structurei

    Part of the 50S ribosomal subunit.By similarity

    Protein-protein interaction databases

    BioGridi22484. 3 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliO50061.
    SMRiO50061. Positions 50-263.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi267 – 28216Asp/Glu-rich (acidic)Add
    BLAST

    Sequence similaritiesi

    Belongs to the ribosomal protein L4P family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG0088.
    HOGENOMiHOG000248767.
    InParanoidiO50061.
    KOiK02926.
    OMAiFDEYLYL.
    PhylomeDBiO50061.

    Family and domain databases

    Gene3Di3.40.1370.10. 1 hit.
    HAMAPiMF_01328_B. Ribosomal_L4_B.
    InterProiIPR002136. Ribosomal_L4/L1e.
    IPR013005. Ribosomal_L4/L1e_bac-type.
    IPR023574. Ribosomal_L4_dom.
    [Graphical view]
    PANTHERiPTHR10746. PTHR10746. 1 hit.
    PfamiPF00573. Ribosomal_L4. 1 hit.
    [Graphical view]
    SUPFAMiSSF52166. SSF52166. 1 hit.
    TIGRFAMsiTIGR03953. rplD_bact. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    This entry describes 1 isoform i produced by alternative splicing. Align

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

    Isoform 1 (identifier: O50061-1) [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

    MASSATAPNS LSFFSSSLFL SSSHQIPKTY ISVSKLGSGR VSKPLSVSSQ    50
    LATLPILSFE GEKVGETYLD LKAAPEDTAR AVVHRAIVTD LNNKRRGTAS 100
    TLTRGEVRGG GIKPYSQKKT GHARRGSQRT PLRPGGGVVF GPRPKDWSIK 150
    INRKEKKLAI STALSSAASA EGGAIVVEEF GEKFEKPKTK DFLAAMQRWG 200
    LDPKEKAMFL MIDVDENVAK SSRNIGTLRM LTPRTLNLFD ILNADKLVLT 250
    PAAVEFLNAR YGVDAVEEED DDEDETEGSE EA 282
    Length:282
    Mass (Da):30,559
    Last modified:June 20, 2002 - v2
    Checksum:i1479CC1CEA75F29C
    GO

    Sequence cautioni

    The sequence AAF79563.1 differs from that shown. Reason: Erroneous gene model prediction.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti192 – 1921F → L in CAA74894. (PubMed:9461586)Curated
    Sequence conflicti192 – 1921F → L in CAA74895. (PubMed:9461586)Curated
    Sequence conflicti207 – 2071A → P in AAM61637. 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y14565 mRNA. Translation: CAA74894.1.
    Y14566 Genomic DNA. Translation: CAA74895.1.
    AC022464 Genomic DNA. Translation: AAF79563.1. Sequence problems.
    CP002684 Genomic DNA. Translation: AEE28106.1.
    AY063889 mRNA. Translation: AAL36245.1.
    AY117317 mRNA. Translation: AAM51392.1.
    AY085081 mRNA. Translation: AAM61637.1.
    PIRiD86208.
    RefSeqiNP_001030985.1. NM_001035908.1.
    NP_001030986.1. NM_001035909.1.
    NP_563786.1. NM_100606.3. [O50061-1]
    UniGeneiAt.10172.
    At.68122.

    Genome annotation databases

    EnsemblPlantsiAT1G07320.1; AT1G07320.1; AT1G07320. [O50061-1]
    GeneIDi837243.
    KEGGiath:AT1G07320.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y14565 mRNA. Translation: CAA74894.1 .
    Y14566 Genomic DNA. Translation: CAA74895.1 .
    AC022464 Genomic DNA. Translation: AAF79563.1 . Sequence problems.
    CP002684 Genomic DNA. Translation: AEE28106.1 .
    AY063889 mRNA. Translation: AAL36245.1 .
    AY117317 mRNA. Translation: AAM51392.1 .
    AY085081 mRNA. Translation: AAM61637.1 .
    PIRi D86208.
    RefSeqi NP_001030985.1. NM_001035908.1.
    NP_001030986.1. NM_001035909.1.
    NP_563786.1. NM_100606.3. [O50061-1 ]
    UniGenei At.10172.
    At.68122.

    3D structure databases

    ProteinModelPortali O50061.
    SMRi O50061. Positions 50-263.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 22484. 3 interactions.

    Proteomic databases

    PaxDbi O50061.
    PRIDEi O50061.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT1G07320.1 ; AT1G07320.1 ; AT1G07320 . [O50061-1 ]
    GeneIDi 837243.
    KEGGi ath:AT1G07320.

    Organism-specific databases

    GeneFarmi 65.
    TAIRi AT1G07320.

    Phylogenomic databases

    eggNOGi COG0088.
    HOGENOMi HOG000248767.
    InParanoidi O50061.
    KOi K02926.
    OMAi FDEYLYL.
    PhylomeDBi O50061.

    Miscellaneous databases

    PROi O50061.

    Gene expression databases

    ArrayExpressi O50061.
    Genevestigatori O50061.

    Family and domain databases

    Gene3Di 3.40.1370.10. 1 hit.
    HAMAPi MF_01328_B. Ribosomal_L4_B.
    InterProi IPR002136. Ribosomal_L4/L1e.
    IPR013005. Ribosomal_L4/L1e_bac-type.
    IPR023574. Ribosomal_L4_dom.
    [Graphical view ]
    PANTHERi PTHR10746. PTHR10746. 1 hit.
    Pfami PF00573. Ribosomal_L4. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52166. SSF52166. 1 hit.
    TIGRFAMsi TIGR03953. rplD_bact. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "The nuclear RPL4 gene encodes a chloroplast protein that co-purifies with the T7-like transcription complex as well as plastid ribosomes."
      Trifa Y., Privat I., Gagnon J., Baeza L., Lerbs-Mache S.
      J. Biol. Chem. 273:3980-3985(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
      Strain: cv. Columbia.
    2. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
      Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
      , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
      Nature 408:816-820(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].

    Entry informationi

    Entry nameiRK4_ARATH
    AccessioniPrimary (citable) accession number: O50061
    Secondary accession number(s): Q8LF27, Q8VZS1, Q9LNV1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: June 20, 2002
    Last modified: October 1, 2014
    This is version 97 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

    External Data

    Dasty 3