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Entry version 112 (31 Jul 2019)
Sequence version 2 (16 Nov 2011)
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Protein

Putative pentatricopeptide repeat-containing protein At1g31840

Gene

At1g31840

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 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 At1g31840
<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
Ordered Locus Names:At1g31840
ORF Names:F5M6.15
<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 1

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT1G31840

The Arabidopsis Information Resource

More...
TAIRi
locus:2034528 AT1G31840

<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_00003428081 – 840Putative pentatricopeptide repeat-containing protein At1g31840Add BLAST840

Proteomic databases

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

More...
PaxDbi
Q9C6S6

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q9C6S6

<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
Q9C6S6 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9C6S6 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
Q9C6S6

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>Repeati98 – 128PPR 1Add BLAST31
Repeati145 – 179PPR 2Add BLAST35
Repeati180 – 214PPR 3Add BLAST35
Repeati216 – 250PPR 4Add BLAST35
Repeati251 – 284PPR 5Add BLAST34
Repeati285 – 319PPR 6Add BLAST35
Repeati320 – 354PPR 7Add BLAST35
Repeati355 – 389PPR 8Add BLAST35
Repeati390 – 424PPR 9Add BLAST35
Repeati425 – 459PPR 10Add BLAST35
Repeati460 – 494PPR 11Add BLAST35
Repeati495 – 529PPR 12Add BLAST35
Repeati530 – 564PPR 13Add BLAST35
Repeati565 – 599PPR 14Add BLAST35
Repeati600 – 634PPR 15Add BLAST35
Repeati635 – 669PPR 16Add BLAST35
Repeati670 – 704PPR 17Add BLAST35
Repeati705 – 739PPR 18Add BLAST35
Repeati740 – 774PPR 19Add BLAST35
Repeati775 – 809PPR 20Add 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
ENOG410Z7Z7 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000176820

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9C6S6

Identification of Orthologs from Complete Genome Data

More...
OMAi
NNLAFRM

Database of Orthologous Groups

More...
OrthoDBi
1344243at2759

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 6 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, 3 hits
PF13041 PPR_2, 7 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00756 PPR, 15 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51375 PPR, 19 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>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 1 potential isoform that is computationally mapped.Show allAlign All

Isoform 1 (identifier: Q9C6S6-1) [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
MLLFSSSSLQ LREIFFPRIF SVFVKLNFLN SRGFSSDSAK ALAAGISKAI
60 70 80 90 100
KEGNFNLLDS SVYGSNLQRN ETNLVLLSLE SEPNSALKYF RWAEISGKDP
110 120 130 140 150
SFYTIAHVLI RNGMFDVADK VFDEMITNRG KDFNVLGSIR DRSLDADVCK
160 170 180 190 200
FLMECCCRYG MVDKALEIFV YSTQLGVVIP QDSVYRMLNS LIGSDRVDLI
210 220 230 240 250
ADHFDKLCRG GIEPSGVSAH GFVLDALFCK GEVTKALDFH RLVMERGFRV
260 270 280 290 300
GIVSCNKVLK GLSVDQIEVA SRLLSLVLDC GPAPNVVTFC TLINGFCKRG
310 320 330 340 350
EMDRAFDLFK VMEQRGIEPD LIAYSTLIDG YFKAGMLGMG HKLFSQALHK
360 370 380 390 400
GVKLDVVVFS STIDVYVKSG DLATASVVYK RMLCQGISPN VVTYTILIKG
410 420 430 440 450
LCQDGRIYEA FGMYGQILKR GMEPSIVTYS SLIDGFCKCG NLRSGFALYE
460 470 480 490 500
DMIKMGYPPD VVIYGVLVDG LSKQGLMLHA MRFSVKMLGQ SIRLNVVVFN
510 520 530 540 550
SLIDGWCRLN RFDEALKVFR LMGIYGIKPD VATFTTVMRV SIMEGRLEEA
560 570 580 590 600
LFLFFRMFKM GLEPDALAYC TLIDAFCKHM KPTIGLQLFD LMQRNKISAD
610 620 630 640 650
IAVCNVVIHL LFKCHRIEDA SKFFNNLIEG KMEPDIVTYN TMICGYCSLR
660 670 680 690 700
RLDEAERIFE LLKVTPFGPN TVTLTILIHV LCKNNDMDGA IRMFSIMAEK
710 720 730 740 750
GSKPNAVTYG CLMDWFSKSV DIEGSFKLFE EMQEKGISPS IVSYSIIIDG
760 770 780 790 800
LCKRGRVDEA TNIFHQAIDA KLLPDVVAYA ILIRGYCKVG RLVEAALLYE
810 820 830 840
HMLRNGVKPD DLLQRALSEY NPPKWLMSKG VWVHDKPMPD
Length:840
Mass (Da):94,166
Last modified:November 16, 2011 - v2
<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:iC152BB17FEE4AAC5
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 is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F4IAZ1F4IAZ1_ARATH
Tetratricopeptide repeat (TPR)-like...
At1g31840, F5M6.15, F5M6_15
811Annotation 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>

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAG50731 differs from that shown. Reason: Erroneous gene model prediction.Curated

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
AC079041 Genomic DNA Translation: AAG50731.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE31403.1

Protein sequence database of the Protein Information Resource

More...
PIRi
E86442

NCBI Reference Sequences

More...
RefSeqi
NP_174467.4, NM_102921.5 [Q9C6S6-1]

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT1G31840.1; AT1G31840.1; AT1G31840 [Q9C6S6-1]

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
840074

Gramene; a comparative resource for plants

More...
Gramenei
AT1G31840.1; AT1G31840.1; AT1G31840 [Q9C6S6-1]

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT1G31840

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

<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
AC079041 Genomic DNA Translation: AAG50731.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE31403.1
PIRiE86442
RefSeqiNP_174467.4, NM_102921.5 [Q9C6S6-1]

3D structure databases

SMRiQ9C6S6
ModBaseiSearch...

PTM databases

iPTMnetiQ9C6S6

Proteomic databases

PaxDbiQ9C6S6

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G31840.1; AT1G31840.1; AT1G31840 [Q9C6S6-1]
GeneIDi840074
GrameneiAT1G31840.1; AT1G31840.1; AT1G31840 [Q9C6S6-1]
KEGGiath:AT1G31840

Organism-specific databases

AraportiAT1G31840
TAIRilocus:2034528 AT1G31840

Phylogenomic databases

eggNOGiKOG4197 Eukaryota
ENOG410Z7Z7 LUCA
HOGENOMiHOG000176820
InParanoidiQ9C6S6
OMAiNNLAFRM
OrthoDBi1344243at2759

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9C6S6

Gene expression databases

ExpressionAtlasiQ9C6S6 baseline and differential
GenevisibleiQ9C6S6 AT

Family and domain databases

Gene3Di1.25.40.10, 6 hits
InterProiView protein in InterPro
IPR002885 Pentatricopeptide_repeat
IPR011990 TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF01535 PPR, 3 hits
PF13041 PPR_2, 7 hits
TIGRFAMsiTIGR00756 PPR, 15 hits
PROSITEiView protein in PROSITE
PS51375 PPR, 19 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 nameiPPR67_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: Q9C6S6
Secondary accession number(s): F4IAZ0
<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: November 16, 2011
Last modified: July 31, 2019
This is version 112 of the entry and version 2 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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