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Entry version 139 (16 Oct 2019)
Sequence version 1 (01 Feb 1995)
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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

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionRibonucleoprotein, Ribosomal protein

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
60S ribosomal protein L13-1
Alternative name(s):
Protein BBC1 homolog
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:RPL13B
Synonyms:BBC1
Ordered Locus Names:At3g49010
ORF Names:T2J13.150
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiArabidopsis thaliana (Mouse-ear cress)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri3702 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000006548 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 3

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT3G49010

The Arabidopsis Information Resource

More...
TAIRi
locus:2101283 AT3G49010

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001929301 – 20660S ribosomal protein L13-1Add BLAST206

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P41127

PRoteomics IDEntifications database

More...
PRIDEi
P41127

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
P41127

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section provides information on the expression of the gene product at various stages of a cell, tissue or organism development. By default, the information is derived from experiments at the mRNA level, unless specified ‘at the protein level’.<p><a href='/help/developmental_stage' target='_top'>More...</a></p>Developmental stagei

Regulated during fruit maturation.1 Publication

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
P41127 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
P41127 AT

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
9380, 3 interactors

Protein interaction database and analysis system

More...
IntActi
P41127, 1 interactor

STRING: functional protein association networks

More...
STRINGi
3702.AT3G49010.3

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P41127

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG3295 Eukaryota
COG4352 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000170452

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P41127

KEGG Orthology (KO)

More...
KOi
K02873

Identification of Orthologs from Complete Genome Data

More...
OMAi
FRKDWQS

Database of Orthologous Groups

More...
OrthoDBi
1239434at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P41127

Family and domain databases

HAMAP database of protein families

More...
HAMAPi
MF_00499 Ribosomal_L13e, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001380 Ribosomal_L13e
IPR018256 Ribosomal_L13e_CS

The PANTHER Classification System

More...
PANTHERi
PTHR11722 PTHR11722, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01294 Ribosomal_L13e, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS01104 RIBOSOMAL_L13E, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry describes 1 <p>This subsection of the ‘Sequence’ section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoform i produced by alternative splicing. AlignAdd to basket
Note: A number of isoforms are produced. According to EST sequences.

This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P41127-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali 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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iC67BA5E5534114C2
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A8MQA1A8MQA1_ARATH
60S ribosomal protein L13
BBC1 40S RIBOSOMAL PROTEIN, ATBBC1, breast basic conserved 1, RSU2, At3g49010
204Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F4IWP7F4IWP7_ARATH
Breast basic conserved 1
BBC1 40S RIBOSOMAL PROTEIN, ATBBC1, breast basic conserved 1, RSU2, At3g49010
153Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti125F → S (PubMed:8580968).Curated1
Sequence conflicti175K → M in AAM61490 (Ref. 5) Curated1
Sequence conflicti197A → V in CAA84015 (PubMed:8580968).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
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
CP002686 Genomic DNA Translation: ANM65192.1
CP002686 Genomic DNA Translation: ANM65193.1
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

Protein sequence database of the Protein Information Resource

More...
PIRi
S37271

NCBI Reference Sequences

More...
RefSeqi
NP_001030831.1, NM_001035754.1 [P41127-1]
NP_001327179.1, NM_001339393.1 [P41127-1]
NP_001327180.1, NM_001339394.1 [P41127-1]
NP_190470.1, NM_114760.4 [P41127-1]
NP_850672.1, NM_180341.3 [P41127-1]

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT3G49010.1; AT3G49010.1; AT3G49010 [P41127-1]
AT3G49010.2; AT3G49010.2; AT3G49010 [P41127-1]
AT3G49010.3; AT3G49010.3; AT3G49010 [P41127-1]
AT3G49010.6; AT3G49010.6; AT3G49010 [P41127-1]
AT3G49010.7; AT3G49010.7; AT3G49010 [P41127-1]

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
824062

Gramene; a comparative resource for plants

More...
Gramenei
AT3G49010.1; AT3G49010.1; AT3G49010 [P41127-1]
AT3G49010.2; AT3G49010.2; AT3G49010 [P41127-1]
AT3G49010.3; AT3G49010.3; AT3G49010 [P41127-1]
AT3G49010.6; AT3G49010.6; AT3G49010 [P41127-1]
AT3G49010.7; AT3G49010.7; AT3G49010 [P41127-1]

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT3G49010

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>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
CP002686 Genomic DNA Translation: ANM65192.1
CP002686 Genomic DNA Translation: ANM65193.1
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_001327179.1, NM_001339393.1 [P41127-1]
NP_001327180.1, NM_001339394.1 [P41127-1]
NP_190470.1, NM_114760.4 [P41127-1]
NP_850672.1, NM_180341.3 [P41127-1]

3D structure databases

SMRiP41127
ModBaseiSearch...

Protein-protein interaction databases

BioGridi9380, 3 interactors
IntActiP41127, 1 interactor
STRINGi3702.AT3G49010.3

PTM databases

iPTMnetiP41127

Proteomic databases

PaxDbiP41127
PRIDEiP41127

Genome annotation databases

EnsemblPlantsiAT3G49010.1; AT3G49010.1; AT3G49010 [P41127-1]
AT3G49010.2; AT3G49010.2; AT3G49010 [P41127-1]
AT3G49010.3; AT3G49010.3; AT3G49010 [P41127-1]
AT3G49010.6; AT3G49010.6; AT3G49010 [P41127-1]
AT3G49010.7; AT3G49010.7; AT3G49010 [P41127-1]
GeneIDi824062
GrameneiAT3G49010.1; AT3G49010.1; AT3G49010 [P41127-1]
AT3G49010.2; AT3G49010.2; AT3G49010 [P41127-1]
AT3G49010.3; AT3G49010.3; AT3G49010 [P41127-1]
AT3G49010.6; AT3G49010.6; AT3G49010 [P41127-1]
AT3G49010.7; AT3G49010.7; AT3G49010 [P41127-1]
KEGGiath:AT3G49010

Organism-specific databases

AraportiAT3G49010
TAIRilocus:2101283 AT3G49010

Phylogenomic databases

eggNOGiKOG3295 Eukaryota
COG4352 LUCA
HOGENOMiHOG000170452
InParanoidiP41127
KOiK02873
OMAiFRKDWQS
OrthoDBi1239434at2759
PhylomeDBiP41127

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P41127

Gene expression databases

ExpressionAtlasiP41127 baseline and differential
GenevisibleiP41127 AT

Family and domain databases

HAMAPiMF_00499 Ribosomal_L13e, 1 hit
InterProiView protein in InterPro
IPR001380 Ribosomal_L13e
IPR018256 Ribosomal_L13e_CS
PANTHERiPTHR11722 PTHR11722, 1 hit
PfamiView protein in Pfam
PF01294 Ribosomal_L13e, 1 hit
PROSITEiView protein in PROSITE
PS01104 RIBOSOMAL_L13E, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRL131_ARATH
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P41127
Secondary accession number(s): Q42280, Q8LFC4
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: October 16, 2019
This is version 139 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  3. Ribosomal proteins
    Ribosomal proteins families and list of entries
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