O50061 (RK4_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended 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

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Viridiplantae › Streptophyta › Streptophytina › Embryophyta › Tracheophyta › Euphyllophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	282 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	This protein binds directly and specifically to 23S rRNA By similarity. May play a role in plastid transcriptional regulation.
Subunit structure	Part of the 50S ribosomal subunit By similarity.
Subcellular location	Plastid › chloroplast.
Sequence similarities	Belongs to the ribosomal protein L4P family.
Sequence caution	The sequence AAF79563.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Cellular component	Chloroplast Plastid
Coding sequence diversity	Alternative splicing
Domain	Transit peptide
Ligand	RNA-binding rRNA-binding
Molecular function	Ribonucleoprotein Ribosomal protein
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	translation Traceable author statement Ref.1. Source: TAIR
Cellular_component	chloroplast stroma Inferred from direct assay PubMed 16207701PubMed 18633119PubMed 20061580. Source: TAIR chloroplast thylakoid membrane Inferred from direct assay PubMed 15322131. Source: TAIR cytosolic ribosome Inferred from direct assay PubMed 15821981. Source: TAIR nucleus Inferred from direct assay PubMed 14617066. Source: TAIR plastid large ribosomal subunit Traceable author statement Ref.1. Source: TAIR
Molecular_function	poly(U) RNA binding Inferred from direct assay PubMed 17511964. Source: TAIR rRNA binding Inferred from electronic annotation. Source: UniProtKB-KW structural constituent of ribosome Inferred from sequence or structural similarity Ref.1. Source: TAIR
Complete GO annotation...

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 key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Transit peptide	1 – 49	49	Chloroplast By similarity
	Chain	50 – 282	233	50S ribosomal protein L4, chloroplastic		PRO_0000030538
Regions
	Compositional bias	267 – 282	16	Asp/Glu-rich (acidic)
Amino acid modifications
	Modified residue	279	1	Phosphoserine Ref.6
Experimental info
	Sequence conflict	192	1	F → L in CAA74894. Ref.1
	Sequence conflict	192	1	F → L in CAA74895. Ref.1
	Sequence conflict	207	1	A → P in AAM61637. Ref.5

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified June 20, 2002. Version 2. Checksum: 1479CC1CEA75F29C	FASTA	282	30,559
	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

References

	« Hide 'large scale' referencesShow '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. , 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].
[6]	"Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks." Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S. Plant Physiol. 150:889-903(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-279, MASS SPECTROMETRY. Strain: cv. Columbia. Tissue: Seedling.
+	Additional computationally mapped references.

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.
IPI	IPI00519853.
PIR	D86208.
RefSeq	NP_001030985.1. NM_001035908.1. NP_001030986.1. NM_001035909.1. NP_563786.1. NM_100606.3.
UniGene	At.10172. At.68122.
3D structure databases
ProteinModelPortal	O50061.
SMR	O50061. Positions 50-263.
ModBase	Search...
Proteomic databases
PaxDb	O50061.
PRIDE	O50061.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT1G07320.1; AT1G07320.1; AT1G07320.
GeneID	837243.
KEGG	ath:AT1G07320.
Organism-specific databases
GeneFarm	65.
TAIR	At1g07320.
Phylogenomic databases
eggNOG	COG0088.
HOGENOM	HOG000248767.
InParanoid	O50061.
KO	K02926.
OMA	FDILNAN.
PhylomeDB	O50061.
ProtClustDB	CLSN2687716.
Gene expression databases
ArrayExpress	O50061.
Genevestigator	O50061.
Family and domain databases
Gene3D	3.40.1370.10. 1 hit.
InterPro	IPR002136. Ribosomal_L4/L1e. IPR013005. Ribosomal_L4/L1e_bac-type. IPR023574. Ribosomal_L4_dom. [Graphical view]
PANTHER	PTHR10746. PTHR10746. 1 hit.
Pfam	PF00573. Ribosomal_L4. 1 hit. [Graphical view]
SUPFAM	SSF52166. Ribosomal_L4/L1E. 1 hit.
TIGRFAMs	TIGR03953. rplD_bact. 1 hit.
ProtoNet	Search...

Entry information

Entry name

RK4_ARATH

Accession

Primary (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:	May 1, 2013
This is version 89 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program