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Entry version 116 (16 Oct 2019)
Sequence version 1 (01 Jun 1998)
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Protein

Pentatricopeptide repeat-containing protein At4g20090

Gene

EMB1025

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

May play a role in embryogenesis.1 Publication

<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 - Biological processi

  • embryo development ending in seed dormancy Source: TAIR

<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 At4g20090
Alternative name(s):
Protein EMBRYO DEFECTIVE 1025
<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:EMB1025
Ordered Locus Names:At4g20090
ORF Names:F18F4.190
<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 4

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT4G20090

The Arabidopsis Information Resource

More...
TAIRi
locus:2119747 AT4G20090

<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_00003634441 – 660Pentatricopeptide repeat-containing protein At4g20090Add BLAST660

Proteomic databases

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

More...
PaxDbi
O49436

<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

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ExpressionAtlasi
O49436 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
O49436 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.AT4G20090.1

<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

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SMRi
O49436

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>Repeati76 – 110PPR 1Add BLAST35
Repeati111 – 141PPR 2Add BLAST31
Repeati147 – 181PPR 3Add BLAST35
Repeati186 – 220PPR 4Add BLAST35
Repeati221 – 255PPR 5Add BLAST35
Repeati256 – 290PPR 6Add BLAST35
Repeati291 – 325PPR 7Add BLAST35
Repeati326 – 360PPR 8Add BLAST35
Repeati361 – 395PPR 9Add BLAST35
Repeati396 – 430PPR 10Add BLAST35
Repeati431 – 465PPR 11Add BLAST35
Repeati466 – 500PPR 12Add BLAST35
Repeati501 – 535PPR 13Add BLAST35
Repeati539 – 573PPR 14Add BLAST35
Repeati574 – 609PPR 15Add BLAST36

<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
ENOG410Z7Z7 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000005779

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O49436

Identification of Orthologs from Complete Genome Data

More...
OMAi
CWDEIWG

Database of Orthologous Groups

More...
OrthoDBi
1344243at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O49436

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 7 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
PF01535 PPR, 2 hits
PF12854 PPR_1, 2 hits
PF13041 PPR_2, 5 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00756 PPR, 12 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>. 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_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.

O49436-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MPKCPIPIRI SFFSYFLKES RILSSNPVNF SIHLRFSSSV SVSPNPSMEV
60 70 80 90 100
VENPLEAPIS EKMFKSAPKM GSFKLGDSTL SSMIESYANS GDFDSVEKLL
110 120 130 140 150
SRIRLENRVI IERSFIVVFR AYGKAHLPDK AVDLFHRMVD EFRCKRSVKS
160 170 180 190 200
FNSVLNVIIN EGLYHRGLEF YDYVVNSNMN MNISPNGLSF NLVIKALCKL
210 220 230 240 250
RFVDRAIEVF RGMPERKCLP DGYTYCTLMD GLCKEERIDE AVLLLDEMQS
260 270 280 290 300
EGCSPSPVIY NVLIDGLCKK GDLTRVTKLV DNMFLKGCVP NEVTYNTLIH
310 320 330 340 350
GLCLKGKLDK AVSLLERMVS SKCIPNDVTY GTLINGLVKQ RRATDAVRLL
360 370 380 390 400
SSMEERGYHL NQHIYSVLIS GLFKEGKAEE AMSLWRKMAE KGCKPNIVVY
410 420 430 440 450
SVLVDGLCRE GKPNEAKEIL NRMIASGCLP NAYTYSSLMK GFFKTGLCEE
460 470 480 490 500
AVQVWKEMDK TGCSRNKFCY SVLIDGLCGV GRVKEAMMVW SKMLTIGIKP
510 520 530 540 550
DTVAYSSIIK GLCGIGSMDA ALKLYHEMLC QEEPKSQPDV VTYNILLDGL
560 570 580 590 600
CMQKDISRAV DLLNSMLDRG CDPDVITCNT FLNTLSEKSN SCDKGRSFLE
610 620 630 640 650
ELVVRLLKRQ RVSGACTIVE VMLGKYLAPK TSTWAMIVRE ICKPKKINAA
660
IDKCWRNLCT
Length:660
Mass (Da):74,124
Last modified:June 1, 1998 - 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:iA3AB1CD87206F26B
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
AY864350 Genomic DNA Translation: AAW62965.1
AL021637 Genomic DNA Translation: CAA16617.1
AL161552 Genomic DNA Translation: CAB79009.1
CP002687 Genomic DNA Translation: AEE84271.1
CP002687 Genomic DNA Translation: ANM67386.1

Protein sequence database of the Protein Information Resource

More...
PIRi
H85227
T04893

NCBI Reference Sequences

More...
RefSeqi
NP_001320003.1, NM_001341399.1
NP_193742.1, NM_118128.2

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT4G20090.1; AT4G20090.1; AT4G20090
AT4G20090.2; AT4G20090.2; AT4G20090

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
827754

Gramene; a comparative resource for plants

More...
Gramenei
AT4G20090.1; AT4G20090.1; AT4G20090
AT4G20090.2; AT4G20090.2; AT4G20090

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT4G20090

<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

Pentatricopeptide repeat proteins

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY864350 Genomic DNA Translation: AAW62965.1
AL021637 Genomic DNA Translation: CAA16617.1
AL161552 Genomic DNA Translation: CAB79009.1
CP002687 Genomic DNA Translation: AEE84271.1
CP002687 Genomic DNA Translation: ANM67386.1
PIRiH85227
T04893
RefSeqiNP_001320003.1, NM_001341399.1
NP_193742.1, NM_118128.2

3D structure databases

SMRiO49436
ModBaseiSearch...

Protein-protein interaction databases

STRINGi3702.AT4G20090.1

Proteomic databases

PaxDbiO49436

Genome annotation databases

EnsemblPlantsiAT4G20090.1; AT4G20090.1; AT4G20090
AT4G20090.2; AT4G20090.2; AT4G20090
GeneIDi827754
GrameneiAT4G20090.1; AT4G20090.1; AT4G20090
AT4G20090.2; AT4G20090.2; AT4G20090
KEGGiath:AT4G20090

Organism-specific databases

AraportiAT4G20090
TAIRilocus:2119747 AT4G20090

Phylogenomic databases

eggNOGiKOG4197 Eukaryota
ENOG410Z7Z7 LUCA
HOGENOMiHOG000005779
InParanoidiO49436
OMAiCWDEIWG
OrthoDBi1344243at2759
PhylomeDBiO49436

Miscellaneous databases

Protein Ontology

More...
PROi
PR:O49436

Gene expression databases

ExpressionAtlasiO49436 baseline and differential
GenevisibleiO49436 AT

Family and domain databases

Gene3Di1.25.40.10, 7 hits
InterProiView protein in InterPro
IPR002885 Pentatricopeptide_repeat
IPR011990 TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF01535 PPR, 2 hits
PF12854 PPR_1, 2 hits
PF13041 PPR_2, 5 hits
TIGRFAMsiTIGR00756 PPR, 12 hits
PROSITEiView protein in PROSITE
PS51375 PPR, 15 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 nameiPP327_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: O49436
<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: June 1, 1998
Last modified: October 16, 2019
This is version 116 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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