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Entry version 101 (08 May 2019)
Sequence version 1 (01 Oct 2000)
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Protein

Putative pentatricopeptide repeat-containing protein At5g13230, mitochondrial

Gene

PCMP-H89

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>
-Protein inferred from homologyi <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

  • RNA modification Source: GO_Central

<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:
Putative pentatricopeptide repeat-containing protein At5g13230, mitochondrial
<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-H89
Ordered Locus Names:At5g13230
ORF Names:T31B5_50
<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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<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 5

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT5G13230

The Arabidopsis Information Resource

More...
TAIRi
locus:2183931 AT5G13230

<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

<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 - Cellular componenti

Mitochondrion

<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 transit peptide.<p><a href='/help/transit' target='_top'>More...</a></p>Transit peptidei1 – 70MitochondrionSequence analysisAdd BLAST70
<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_000036351471 – 822Putative pentatricopeptide repeat-containing protein At5g13230, mitochondrialAdd BLAST752

Proteomic databases

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

More...
PaxDbi
Q9LYV3

<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
Q9LYV3 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9LYV3 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
Q9LYV3

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
Repeati83 – 117PPR 2Add BLAST35
Repeati145 – 179PPR 3Add BLAST35
Repeati180 – 210PPR 4Add BLAST31
Repeati211 – 245PPR 5Add BLAST35
Repeati246 – 280PPR 6Add BLAST35
Repeati281 – 311PPR 7Add BLAST31
Repeati312 – 346PPR 8Add BLAST35
Repeati347 – 381PPR 9Add BLAST35
Repeati382 – 416PPR 10Add BLAST35
Repeati417 – 447PPR 11Add BLAST31
Repeati448 – 482PPR 12Add BLAST35
Repeati483 – 513PPR 13Add BLAST31
Repeati514 – 548PPR 14Add BLAST35
Repeati549 – 584PPR 15Add BLAST36
Repeati585 – 619PPR 16Add BLAST35

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>Regioni620 – 695Type E motifAdd BLAST76
Regioni696 – 726Type E(+) motifAdd BLAST31
Regioni727 – 822Type 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

Keywords - Domaini

Repeat, Transit peptide

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
Q9LYV3

Identification of Orthologs from Complete Genome Data

More...
OMAi
MRVINAM

Database of Orthologous Groups

More...
OrthoDBi
1344243at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9LYV3

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, 7 hits
PF13041 PPR_2, 2 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00756 PPR, 4 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51375 PPR, 15 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.

<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 in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

Q9LYV3-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MIVFMRIIHV AQTRRLMIRC NRIRQCGFSV KTAALDLESS DSIIPGLDSH
60 70 80 90 100
AYGAMLRRCI QKNDPISAKA IHCDILKKGS CLDLFATNIL LNAYVKAGFD
110 120 130 140 150
KDALNLFDEM PERNNVSFVT LAQGYACQDP IGLYSRLHRE GHELNPHVFT
160 170 180 190 200
SFLKLFVSLD KAEICPWLHS PIVKLGYDSN AFVGAALINA YSVCGSVDSA
210 220 230 240 250
RTVFEGILCK DIVVWAGIVS CYVENGYFED SLKLLSCMRM AGFMPNNYTF
260 270 280 290 300
DTALKASIGL GAFDFAKGVH GQILKTCYVL DPRVGVGLLQ LYTQLGDMSD
310 320 330 340 350
AFKVFNEMPK NDVVPWSFMI ARFCQNGFCN EAVDLFIRMR EAFVVPNEFT
360 370 380 390 400
LSSILNGCAI GKCSGLGEQL HGLVVKVGFD LDIYVSNALI DVYAKCEKMD
410 420 430 440 450
TAVKLFAELS SKNEVSWNTV IVGYENLGEG GKAFSMFREA LRNQVSVTEV
460 470 480 490 500
TFSSALGACA SLASMDLGVQ VHGLAIKTNN AKKVAVSNSL IDMYAKCGDI
510 520 530 540 550
KFAQSVFNEM ETIDVASWNA LISGYSTHGL GRQALRILDI MKDRDCKPNG
560 570 580 590 600
LTFLGVLSGC SNAGLIDQGQ ECFESMIRDH GIEPCLEHYT CMVRLLGRSG
610 620 630 640 650
QLDKAMKLIE GIPYEPSVMI WRAMLSASMN QNNEEFARRS AEEILKINPK
660 670 680 690 700
DEATYVLVSN MYAGAKQWAN VASIRKSMKE MGVKKEPGLS WIEHQGDVHY
710 720 730 740 750
FSVGLSDHPD MKLINGMLEW LNMKATRAGY VPDRNAVLLD MDDEEKDKRL
760 770 780 790 800
WVHSERLALA YGLVRMPSSR NRILIMKNLR ICSDCHSAMK VISSIVQRDL
810 820
VIRDMNRFHH FHAGVCSCGD HW
Length:822
Mass (Da):91,439
Last modified:October 1, 2000 - 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:i8CA5AAC54D10AAA6
GO

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
AL163491 Genomic DNA Translation: CAB86630.1
CP002688 Genomic DNA Translation: AED91869.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T48570

NCBI Reference Sequences

More...
RefSeqi
NP_196827.1, NM_121326.2

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT5G13230.1; AT5G13230.1; AT5G13230

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
831163

Gramene; a comparative resource for plants

More...
Gramenei
AT5G13230.1; AT5G13230.1; AT5G13230

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT5G13230

<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
AL163491 Genomic DNA Translation: CAB86630.1
CP002688 Genomic DNA Translation: AED91869.1
PIRiT48570
RefSeqiNP_196827.1, NM_121326.2

3D structure databases

SMRiQ9LYV3
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PaxDbiQ9LYV3

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT5G13230.1; AT5G13230.1; AT5G13230
GeneIDi831163
GrameneiAT5G13230.1; AT5G13230.1; AT5G13230
KEGGiath:AT5G13230

Organism-specific databases

AraportiAT5G13230
TAIRilocus:2183931 AT5G13230

Phylogenomic databases

eggNOGiKOG4197 Eukaryota
ENOG410Z7Z7 LUCA
HOGENOMiHOG000237570
InParanoidiQ9LYV3
OMAiMRVINAM
OrthoDBi1344243at2759
PhylomeDBiQ9LYV3

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9LYV3

Gene expression databases

ExpressionAtlasiQ9LYV3 baseline and differential
GenevisibleiQ9LYV3 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, 7 hits
PF13041 PPR_2, 2 hits
TIGRFAMsiTIGR00756 PPR, 4 hits
PROSITEiView protein in PROSITE
PS51375 PPR, 15 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 nameiPP377_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: Q9LYV3
<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 10, 2009
Last sequence update: October 1, 2000
Last modified: May 8, 2019
This is version 101 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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