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Entry version 110 (07 Oct 2020)
Sequence version 1 (01 Oct 2002)
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Protein

Pentatricopeptide repeat-containing protein At5g24830

Gene

At5g24830

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation 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 evidence at transcript 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 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%5Fand%5Ftaxonomy%5Fsection">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:
Pentatricopeptide repeat-containing protein At5g24830
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
Ordered Locus Names:At5g24830
ORF Names:F6A4_40, T4C12.4
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fand%5Ftaxonomy%5Fsection">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%5Fmanual">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 5

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT5G24830

The Arabidopsis Information Resource

More...
TAIRi
locus:2149433, AT5G24830

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003635331 – 593Pentatricopeptide repeat-containing protein At5g24830Add BLAST593

Proteomic databases

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

More...
PaxDbi
Q8L6Y3

PRoteomics IDEntifications database

More...
PRIDEi
Q8L6Y3

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
249277

<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

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q8L6Y3, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q8L6Y3, AT

<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
Q8L6Y3

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section indicates the positions and types of repeated sequence motifs or repeated domains within the protein.<p><a href='/help/repeat' target='_top'>More...</a></p>Repeati120 – 154PPR 1Add BLAST35
Repeati155 – 189PPR 2Add BLAST35
Repeati190 – 224PPR 3Add BLAST35
Repeati225 – 256PPR 4Add BLAST32
Repeati264 – 298PPR 5Add BLAST35
Repeati299 – 333PPR 6Add BLAST35
Repeati334 – 368PPR 7Add BLAST35
Repeati369 – 403PPR 8Add BLAST35
Repeati404 – 438PPR 9Add BLAST35
Repeati439 – 473PPR 10Add BLAST35
Repeati474 – 508PPR 11Add BLAST35
Repeati509 – 543PPR 12Add BLAST35

<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

Belongs to the PPR family. P subfamily.Curated

<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>Keywords - Domaini

Repeat

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG4197, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_002706_49_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q8L6Y3

Identification of Orthologs from Complete Genome Data

More...
OMAi
DVITHNY

Database of Orthologous Groups

More...
OrthoDBi
1344243at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q8L6Y3

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 5 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002885, Pentatricopeptide_repeat
IPR011990, TPR-like_helical_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF12854, PPR_1, 1 hit
PF13041, PPR_2, 5 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00756, PPR, 8 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51375, PPR, 12 hits

<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%5Flength">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>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

Q8L6Y3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MALLISCGEV TSSQFTVFRL LNQSLDFVSD NVSRLLAPIF TNLRDFEMRL
60 70 80 90 100
SCIERPPSIS GNHSHLCTEK WFSDQKDYDQ KEDPEAIFNV LDYILKSSLD
110 120 130 140 150
RLASLRESVC QTKSFDYDDC LSIHSSIMRD LCLQGKLDAA LWLRKKMIYS
160 170 180 190 200
GVIPGLITHN HLLNGLCKAG YIEKADGLVR EMREMGPSPN CVSYNTLIKG
210 220 230 240 250
LCSVNNVDKA LYLFNTMNKY GIRPNRVTCN IIVHALCQKG VIGNNNKKLL
260 270 280 290 300
EEILDSSQAN APLDIVICTI LMDSCFKNGN VVQALEVWKE MSQKNVPADS
310 320 330 340 350
VVYNVIIRGL CSSGNMVAAY GFMCDMVKRG VNPDVFTYNT LISALCKEGK
360 370 380 390 400
FDEACDLHGT MQNGGVAPDQ ISYKVIIQGL CIHGDVNRAN EFLLSMLKSS
410 420 430 440 450
LLPEVLLWNV VIDGYGRYGD TSSALSVLNL MLSYGVKPNV YTNNALIHGY
460 470 480 490 500
VKGGRLIDAW WVKNEMRSTK IHPDTTTYNL LLGAACTLGH LRLAFQLYDE
510 520 530 540 550
MLRRGCQPDI ITYTELVRGL CWKGRLKKAE SLLSRIQATG ITIDHVPFLI
560 570 580 590
LAKKYTRLQR PGEAYLVYKK WLATRNRGVS CPSILNHMHT EEQ
Length:593
Mass (Da):66,536
Last modified:October 1, 2002 - 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:iA5C1D7937A16A2C5
GO

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 conflicti46F → L in BAC41999 (PubMed:11910074).Curated1
Sequence conflicti112T → A in BAC41999 (PubMed:11910074).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AF069716 Genomic DNA No translation available.
AL392145 Genomic DNA No translation available.
CP002688 Genomic DNA Translation: AED93367.1
AK117329 mRNA Translation: BAC41999.1
AY140089 mRNA Translation: AAM98230.1
BT008362 mRNA Translation: AAP37721.1

NCBI Reference Sequences

More...
RefSeqi
NP_568460.1, NM_122392.5

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT5G24830.1; AT5G24830.1; AT5G24830

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
832552

Gramene; a comparative resource for plants

More...
Gramenei
AT5G24830.1; AT5G24830.1; AT5G24830

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT5G24830

<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

<p>This subsection of the <a href="http://www.uniprot.org/manual/cross%5Freferences%5Fsection">Cross-references</a> section provides links to various web resources that are relevant for a specific protein.<p><a href='/help/web_resource' target='_top'>More...</a></p>Web resourcesi

Pentatricopeptide repeat proteins

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF069716 Genomic DNA No translation available.
AL392145 Genomic DNA No translation available.
CP002688 Genomic DNA Translation: AED93367.1
AK117329 mRNA Translation: BAC41999.1
AY140089 mRNA Translation: AAM98230.1
BT008362 mRNA Translation: AAP37721.1
RefSeqiNP_568460.1, NM_122392.5

3D structure databases

SMRiQ8L6Y3
ModBaseiSearch...

Proteomic databases

PaxDbiQ8L6Y3
PRIDEiQ8L6Y3
ProteomicsDBi249277

Genome annotation databases

EnsemblPlantsiAT5G24830.1; AT5G24830.1; AT5G24830
GeneIDi832552
GrameneiAT5G24830.1; AT5G24830.1; AT5G24830
KEGGiath:AT5G24830

Organism-specific databases

AraportiAT5G24830
TAIRilocus:2149433, AT5G24830

Phylogenomic databases

eggNOGiKOG4197, Eukaryota
HOGENOMiCLU_002706_49_0_1
InParanoidiQ8L6Y3
OMAiDVITHNY
OrthoDBi1344243at2759
PhylomeDBiQ8L6Y3

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q8L6Y3

Gene expression databases

ExpressionAtlasiQ8L6Y3, baseline and differential
GenevisibleiQ8L6Y3, AT

Family and domain databases

Gene3Di1.25.40.10, 5 hits
InterProiView protein in InterPro
IPR002885, Pentatricopeptide_repeat
IPR011990, TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF12854, PPR_1, 1 hit
PF13041, PPR_2, 5 hits
TIGRFAMsiTIGR00756, PPR, 8 hits
PROSITEiView protein in PROSITE
PS51375, PPR, 12 hits

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 nameiPP396_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: Q8L6Y3
Secondary accession number(s): Q8GYX7
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 10, 2009
Last sequence update: October 1, 2002
Last modified: October 7, 2020
This is version 110 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

Reference proteome

Documents

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