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UniProtKB - Q9FRI5 (PPR57_ARATH)

Entry version 99 (08 May 2019)
Sequence version 1 (01 Mar 2001)
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Protein

Pentatricopeptide repeat-containing protein At1g25360

Gene

PCMP-H74

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation 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>-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 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

View the complete GO annotation on QuickGO ...

GO - Biological processi

  • RNA modification Source: GO_Central
View the complete GO annotation on QuickGO ...

<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:
Pentatricopeptide repeat-containing protein At1g25360
<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:PCMP-H74
Ordered Locus Names:At1g25360
ORF Names:F4F7.25
<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 lineageiEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › Gunneridae › Pentapetalae › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis
<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 1

Organism-specific databases

Arabidopsis Information Portal

More...Araporti		AT1G25360

The Arabidopsis Information Resource

More...TAIRi		locus:2032955 AT1G25360

<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_00003427981 – 790Pentatricopeptide repeat-containing protein At1g25360Add BLAST790

Proteomic databases

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

More...PaxDbi		Q9FRI5

PRoteomics IDEntifications database

More...PRIDEi		Q9FRI5

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		Q9FRI5

<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		Q9FRI5 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		Q9FRI5 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

STRING: functional protein association networks

More...STRINGi		3702.AT1G25360.1

<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		Q9FRI5

Database of comparative protein structure models

More...ModBasei		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		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>Repeati48 – 82PPR 1Add BLAST35
Repeati84 – 109PPR 2Add BLAST26
Repeati112 – 146PPR 3Add BLAST35
Repeati147 – 182PPR 4Add BLAST36
Repeati183 – 217PPR 5Add BLAST35
Repeati218 – 248PPR 6Add BLAST31
Repeati250 – 284PPR 7Add BLAST35
Repeati285 – 315PPR 8Add BLAST31
Repeati319 – 349PPR 9Add BLAST31
Repeati350 – 384PPR 10Add BLAST35
Repeati385 – 415PPR 11Add BLAST31
Repeati416 – 450PPR 12Add BLAST35
Repeati451 – 481PPR 13Add BLAST31
Repeati482 – 516PPR 14Add BLAST35
Repeati517 – 551PPR 15Add BLAST35
Repeati553 – 583PPR 16Add BLAST31

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni588 – 663Type E motifAdd BLAST76
Regioni664 – 694Type E(+) motifAdd BLAST31
Regioni695 – 790Type DYW motifAdd BLAST96

<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. PCMP-H 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
ENOG410Z7Z7 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000237570

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q9FRI5

Identification of Orthologs from Complete Genome Data

More...OMAi		TPSIWEA

Database of Orthologous Groups

More...OrthoDBi		1344243at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q9FRI5

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
IPR032867 DYW_dom
IPR002885 Pentatricopeptide_repeat
IPR011990 TPR-like_helical_dom_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF14432 DYW_deaminase, 1 hit
PF01535 PPR, 8 hits
PF13041 PPR_2, 3 hits

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF48452 SSF48452, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00756 PPR, 7 hits

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51375 PPR, 13 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_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<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_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.

Q9FRI5-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MQPNPDLVRA IANRYAANLR LCLPLRRTSL QLARAVHGNI ITFGFQPRAH 
        60         70         80         90        100
ILNRLIDVYC KSSELNYARQ LFDEISEPDK IARTTMVSGY CASGDITLAR 
       110        120        130        140        150
GVFEKAPVCM RDTVMYNAMI TGFSHNNDGY SAINLFCKMK HEGFKPDNFT 
       160        170        180        190        200
FASVLAGLAL VADDEKQCVQ FHAAALKSGA GYITSVSNAL VSVYSKCASS 
       210        220        230        240        250
PSLLHSARKV FDEILEKDER SWTTMMTGYV KNGYFDLGEE LLEGMDDNMK 
       260        270        280        290        300
LVAYNAMISG YVNRGFYQEA LEMVRRMVSS GIELDEFTYP SVIRACATAG 
       310        320        330        340        350
LLQLGKQVHA YVLRREDFSF HFDNSLVSLY YKCGKFDEAR AIFEKMPAKD 
       360        370        380        390        400
LVSWNALLSG YVSSGHIGEA KLIFKEMKEK NILSWMIMIS GLAENGFGEE 
       410        420        430        440        450
GLKLFSCMKR EGFEPCDYAF SGAIKSCAVL GAYCNGQQYH AQLLKIGFDS 
       460        470        480        490        500
SLSAGNALIT MYAKCGVVEE ARQVFRTMPC LDSVSWNALI AALGQHGHGA 
       510        520        530        540        550
EAVDVYEEML KKGIRPDRIT LLTVLTACSH AGLVDQGRKY FDSMETVYRI 
       560        570        580        590        600
PPGADHYARL IDLLCRSGKF SDAESVIESL PFKPTAEIWE ALLSGCRVHG 
       610        620        630        640        650
NMELGIIAAD KLFGLIPEHD GTYMLLSNMH AATGQWEEVA RVRKLMRDRG 
       660        670        680        690        700
VKKEVACSWI EMETQVHTFL VDDTSHPEAE AVYIYLQDLG KEMRRLGYVP 
       710        720        730        740        750
DTSFVLHDVE SDGHKEDMLT THSEKIAVAF GLMKLPPGTT IRIFKNLRTC 
       760        770        780        790
GDCHNFFRFL SWVVQRDIIL RDRKRFHHFR NGECSCGNFW
Length:790
Mass (Da):88,586
Last modified:March 1, 2001 - 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:iB717DA2CAE4D3C6B
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
AC079374 Genomic DNA Translation: AAG28801.1
CP002684 Genomic DNA Translation: AEE30612.1

Protein sequence database of the Protein Information Resource

More...PIRi		E86383

NCBI Reference Sequences

More...RefSeqi		NP_173907.1, NM_102346.2

Genome annotation databases

Ensembl plant genome annotation project

More...EnsemblPlantsi		AT1G25360.1; AT1G25360.1; AT1G25360

Database of genes from NCBI RefSeq genomes

More...GeneIDi		839121

Gramene; a comparative resource for plants

More...Gramenei		AT1G25360.1; AT1G25360.1; AT1G25360

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ath:AT1G25360

<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_references_section">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

Arabidopsis PPR Protein Database

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC079374 Genomic DNA Translation: AAG28801.1
CP002684 Genomic DNA Translation: AEE30612.1
PIRiE86383
RefSeqiNP_173907.1, NM_102346.2

3D structure databases

SMRiQ9FRI5
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT1G25360.1

PTM databases

iPTMnetiQ9FRI5

Proteomic databases

PaxDbiQ9FRI5
PRIDEiQ9FRI5

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G25360.1; AT1G25360.1; AT1G25360
GeneIDi839121
GrameneiAT1G25360.1; AT1G25360.1; AT1G25360
KEGGiath:AT1G25360

Organism-specific databases

AraportiAT1G25360
TAIRilocus:2032955 AT1G25360

Phylogenomic databases

eggNOGiKOG4197 Eukaryota
ENOG410Z7Z7 LUCA
HOGENOMiHOG000237570
InParanoidiQ9FRI5
OMAiTPSIWEA
OrthoDBi1344243at2759
PhylomeDBiQ9FRI5

Miscellaneous databases

Protein Ontology

More...PROi		PR:Q9FRI5

Gene expression databases

ExpressionAtlasiQ9FRI5 baseline and differential
GenevisibleiQ9FRI5 AT

Family and domain databases

Gene3Di1.25.40.10, 5 hits
InterProiView protein in InterPro
IPR032867 DYW_dom
IPR002885 Pentatricopeptide_repeat
IPR011990 TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF14432 DYW_deaminase, 1 hit
PF01535 PPR, 8 hits
PF13041 PPR_2, 3 hits
SUPFAMiSSF48452 SSF48452, 1 hit
TIGRFAMsiTIGR00756 PPR, 7 hits
PROSITEiView protein in PROSITE
PS51375 PPR, 13 hits

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		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 nameiPPR57_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: Q9FRI5
<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: July 1, 2008
Last sequence update: March 1, 2001
Last modified: May 8, 2019
This is version 99 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
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