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O50061 (RK4_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 95. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
50S ribosomal protein L4, chloroplastic
Alternative name(s):
CL4
R-protein L4
Gene names
Name:RPL4
Ordered Locus Names:At1g07320
ORF Names:F22G5.34, F22G5_28
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length282 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

This protein binds directly and specifically to 23S rRNA By similarity. May play a role in plastid transcriptional regulation. HAMAP-Rule MF_01328_B

Subunit structure

Part of the 50S ribosomal subunit By similarity. HAMAP-Rule MF_01328_B

Subcellular location

Plastidchloroplast HAMAP-Rule MF_01328_B.

Sequence similarities

Belongs to the ribosomal protein L4P family.

Sequence caution

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

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select]

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: O50061-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Transit peptide1 – 4949Chloroplast By similarity
Chain50 – 28223350S ribosomal protein L4, chloroplastic HAMAP-Rule MF_01328_B
PRO_0000030538

Regions

Compositional bias267 – 28216Asp/Glu-rich (acidic) HAMAP-Rule MF_01328_B

Experimental info

Sequence conflict1921F → L in CAA74894. Ref.1
Sequence conflict1921F → L in CAA74895. Ref.1
Sequence conflict2071A → P in AAM61637. Ref.5

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified June 20, 2002. Version 2.
Checksum: 1479CC1CEA75F29C

FASTA28230,559
        10         20         30         40         50         60 
MASSATAPNS LSFFSSSLFL SSSHQIPKTY ISVSKLGSGR VSKPLSVSSQ LATLPILSFE 

        70         80         90        100        110        120 
GEKVGETYLD LKAAPEDTAR AVVHRAIVTD LNNKRRGTAS TLTRGEVRGG GIKPYSQKKT 

       130        140        150        160        170        180 
GHARRGSQRT PLRPGGGVVF GPRPKDWSIK INRKEKKLAI STALSSAASA EGGAIVVEEF 

       190        200        210        220        230        240 
GEKFEKPKTK DFLAAMQRWG LDPKEKAMFL MIDVDENVAK SSRNIGTLRM LTPRTLNLFD 

       250        260        270        280 
ILNADKLVLT PAAVEFLNAR YGVDAVEEED DDEDETEGSE EA 

« Hide

References

« Hide 'large scale' references
[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. expand/collapse author list , 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. expand/collapse author list , 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].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
PIRD86208.
RefSeqNP_001030985.1. NM_001035908.1.
NP_001030986.1. NM_001035909.1.
NP_563786.1. NM_100606.3.
UniGeneAt.10172.
At.68122.

3D structure databases

ProteinModelPortalO50061.
SMRO50061. Positions 50-263.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid22484. 3 interactions.

Proteomic databases

PaxDbO50061.
PRIDEO50061.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT1G07320.1; AT1G07320.1; AT1G07320. [O50061-1]
GeneID837243.
KEGGath:AT1G07320.

Organism-specific databases

GeneFarm65.
TAIRAT1G07320.

Phylogenomic databases

eggNOGCOG0088.
HOGENOMHOG000248767.
InParanoidO50061.
KOK02926.
OMAFTQKINK.
PhylomeDBO50061.
ProtClustDBCLSN2687716.

Gene expression databases

ArrayExpressO50061.
GenevestigatorO50061.

Family and domain databases

Gene3D3.40.1370.10. 1 hit.
HAMAPMF_01328_B. Ribosomal_L4_B.
InterProIPR002136. Ribosomal_L4/L1e.
IPR013005. Ribosomal_L4/L1e_bac-type.
IPR023574. Ribosomal_L4_dom.
[Graphical view]
PANTHERPTHR10746. PTHR10746. 1 hit.
PfamPF00573. Ribosomal_L4. 1 hit.
[Graphical view]
SUPFAMSSF52166. SSF52166. 1 hit.
TIGRFAMsTIGR03953. rplD_bact. 1 hit.
ProtoNetSearch...

Other

PROO50061.

Entry information

Entry nameRK4_ARATH
AccessionPrimary (citable) accession number: O50061
Secondary accession number(s): Q8LF27, Q8VZS1, Q9LNV1
Entry history
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: June 20, 2002
Last modified: April 16, 2014
This is version 95 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Ribosomal proteins

Ribosomal proteins families and list of entries

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names