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O50061

- RK4_ARATH

UniProt

O50061 - RK4_ARATH

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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

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
Complete GO annotation...

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
Complete GO annotation...

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

ExpressionAtlasiO50061. baseline and differential.
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

        10         20         30         40         50
MASSATAPNS LSFFSSSLFL SSSHQIPKTY ISVSKLGSGR VSKPLSVSSQ
60 70 80 90 100
LATLPILSFE GEKVGETYLD LKAAPEDTAR AVVHRAIVTD LNNKRRGTAS
110 120 130 140 150
TLTRGEVRGG GIKPYSQKKT GHARRGSQRT PLRPGGGVVF GPRPKDWSIK
160 170 180 190 200
INRKEKKLAI STALSSAASA EGGAIVVEEF GEKFEKPKTK DFLAAMQRWG
210 220 230 240 250
LDPKEKAMFL MIDVDENVAK SSRNIGTLRM LTPRTLNLFD ILNADKLVLT
260 270 280
PAAVEFLNAR YGVDAVEEED DDEDETEGSE EA
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. Curated

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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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

ExpressionAtlasi O50061. baseline and differential.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 98 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