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Protein

60S ribosomal protein L13-1

Gene

RPL13B

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

GO - Biological processi

  • response to cytokinin Source: TAIR
  • translation Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

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-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:
60S ribosomal protein L13-1
Alternative name(s):
Protein BBC1 homolog
Gene namesi
Name:RPL13B
Synonyms:BBC1
Ordered Locus Names:At3g49010
ORF Names:T2J13.150
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G49010.

Subcellular locationi

GO - Cellular componenti

  • cell wall Source: TAIR
  • cytosol Source: TAIR
  • cytosolic large ribosomal subunit Source: TAIR
  • cytosolic ribosome Source: TAIR
  • membrane Source: TAIR
  • nucleolus Source: TAIR
  • plasma membrane Source: TAIR
  • plasmodesma Source: TAIR
  • vacuolar membrane Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 20620660S ribosomal protein L13-1PRO_0000192930Add
BLAST

Proteomic databases

PaxDbiP41127.
PRIDEiP41127.

PTM databases

iPTMnetiP41127.

Expressioni

Developmental stagei

Regulated during fruit maturation.1 Publication

Gene expression databases

ExpressionAtlasiP41127. baseline and differential.
GenevisibleiP41127. AT.

Interactioni

Protein-protein interaction databases

BioGridi9380. 3 interactions.
IntActiP41127. 1 interaction.
STRINGi3702.AT3G49010.1.

Structurei

3D structure databases

ProteinModelPortaliP41127.
SMRiP41127. Positions 1-196.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L13e family.Curated

Phylogenomic databases

eggNOGiKOG3295. Eukaryota.
COG4352. LUCA.
HOGENOMiHOG000170452.
InParanoidiP41127.
KOiK02873.
OMAiKPTMELV.
PhylomeDBiP41127.

Family and domain databases

InterProiIPR001380. Ribosomal_L13e.
IPR018256. Ribosomal_L13e_CS.
[Graphical view]
PANTHERiPTHR11722. PTHR11722. 1 hit.
PfamiPF01294. Ribosomal_L13e. 1 hit.
[Graphical view]
PROSITEiPS01104. RIBOSOMAL_L13E. 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: P41127-1) [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
MKHNNVIPNG HFKKHWQNYV KTWFNQPARK TRRRIARQKK AVKIFPRPTS
60 70 80 90 100
GPLRPVVHGQ TLKYNMKVRT GKGFTLEELK AAGIPKKLAP TIGIAVDHRR
110 120 130 140 150
KNRSLEGLQT NVQRLKTYKT KLVIFPRRAR KVKAGDSTPE ELANATQVQG
160 170 180 190 200
DYLPIVREKP TMELVKLTSE MKSFKAFDKI RLERTNKRHA GARAKRAAEA

EKEEKK
Length:206
Mass (Da):23,767
Last modified:February 1, 1995 - v1
Checksum:iC67BA5E5534114C2
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti125 – 1251F → S (PubMed:8580968).Curated
Sequence conflicti175 – 1751K → M in AAM61490 (Ref. 5) Curated
Sequence conflicti197 – 1971A → V in CAA84015 (PubMed:8580968).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X75162 mRNA. Translation: CAA53005.1.
AL132967 Genomic DNA. Translation: CAB62009.1.
CP002686 Genomic DNA. Translation: AEE78482.1.
CP002686 Genomic DNA. Translation: AEE78483.1.
CP002686 Genomic DNA. Translation: AEE78484.1.
AF428384 mRNA. Translation: AAL16152.1.
AY050854 mRNA. Translation: AAK92791.1.
AY065137 mRNA. Translation: AAL38313.1.
AY079381 mRNA. Translation: AAL85112.1.
AY081595 mRNA. Translation: AAM10157.1.
AY084928 mRNA. Translation: AAM61490.1.
Z34257 mRNA. Translation: CAA84015.1.
PIRiS37271.
RefSeqiNP_001030831.1. NM_001035754.1. [P41127-1]
NP_190470.1. NM_114760.4. [P41127-1]
NP_850672.1. NM_180341.2. [P41127-1]
UniGeneiAt.22360.

Genome annotation databases

EnsemblPlantsiAT3G49010.1; AT3G49010.1; AT3G49010. [P41127-1]
AT3G49010.2; AT3G49010.2; AT3G49010. [P41127-1]
AT3G49010.3; AT3G49010.3; AT3G49010. [P41127-1]
GeneIDi824062.
KEGGiath:AT3G49010.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X75162 mRNA. Translation: CAA53005.1.
AL132967 Genomic DNA. Translation: CAB62009.1.
CP002686 Genomic DNA. Translation: AEE78482.1.
CP002686 Genomic DNA. Translation: AEE78483.1.
CP002686 Genomic DNA. Translation: AEE78484.1.
AF428384 mRNA. Translation: AAL16152.1.
AY050854 mRNA. Translation: AAK92791.1.
AY065137 mRNA. Translation: AAL38313.1.
AY079381 mRNA. Translation: AAL85112.1.
AY081595 mRNA. Translation: AAM10157.1.
AY084928 mRNA. Translation: AAM61490.1.
Z34257 mRNA. Translation: CAA84015.1.
PIRiS37271.
RefSeqiNP_001030831.1. NM_001035754.1. [P41127-1]
NP_190470.1. NM_114760.4. [P41127-1]
NP_850672.1. NM_180341.2. [P41127-1]
UniGeneiAt.22360.

3D structure databases

ProteinModelPortaliP41127.
SMRiP41127. Positions 1-196.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi9380. 3 interactions.
IntActiP41127. 1 interaction.
STRINGi3702.AT3G49010.1.

PTM databases

iPTMnetiP41127.

Proteomic databases

PaxDbiP41127.
PRIDEiP41127.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G49010.1; AT3G49010.1; AT3G49010. [P41127-1]
AT3G49010.2; AT3G49010.2; AT3G49010. [P41127-1]
AT3G49010.3; AT3G49010.3; AT3G49010. [P41127-1]
GeneIDi824062.
KEGGiath:AT3G49010.

Organism-specific databases

TAIRiAT3G49010.

Phylogenomic databases

eggNOGiKOG3295. Eukaryota.
COG4352. LUCA.
HOGENOMiHOG000170452.
InParanoidiP41127.
KOiK02873.
OMAiKPTMELV.
PhylomeDBiP41127.

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-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

PROiP41127.

Gene expression databases

ExpressionAtlasiP41127. baseline and differential.
GenevisibleiP41127. AT.

Family and domain databases

InterProiIPR001380. Ribosomal_L13e.
IPR018256. Ribosomal_L13e_CS.
[Graphical view]
PANTHERiPTHR11722. PTHR11722. 1 hit.
PfamiPF01294. Ribosomal_L13e. 1 hit.
[Graphical view]
PROSITEiPS01104. RIBOSOMAL_L13E. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Conservation of the human breast basic conserved 1 gene in the plant kingdom: characterization of a cDNA clone from Arabidopsis thaliana."
    Bertauche N., Leung J., Giraudat J.
    Gene 141:211-214(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], DEVELOPMENTAL STAGE.
    Strain: cv. Columbia.
  2. "Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana."
    Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F.
    , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    Nature 408:820-822(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 125-206.
    Strain: cv. Columbia.
  7. "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.
  8. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Root.
  9. "Phosphoproteomic analysis of nuclei-enriched fractions from Arabidopsis thaliana."
    Jones A.M.E., MacLean D., Studholme D.J., Serna-Sanz A., Andreasson E., Rathjen J.P., Peck S.C.
    J. Proteomics 72:439-451(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: cv. Columbia.
  10. "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: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiRL131_ARATH
AccessioniPrimary (citable) accession number: P41127
Secondary accession number(s): Q42280, Q8LFC4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: February 17, 2016
This is version 118 of the entry and version 1 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.