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Entry version 103 (12 Aug 2020)
Sequence version 1 (01 Mar 2003)
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Protein

Pentatricopeptide repeat-containing protein At1g18900

Gene

At1g18900

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 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 At1g18900
<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:At1g18900
ORF Names:F14D16.2
<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 1

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT1G18900

<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_00003427901 – 860Pentatricopeptide repeat-containing protein At1g18900Add BLAST860

Proteomic databases

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

More...
PaxDbi
Q8GYP6

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
234900 [Q8GYP6-1]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q8GYP6

<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
Q8GYP6, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q8GYP6, 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.AT1G18900.3

<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
Q8GYP6

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>Repeati363 – 397PPR 1Add BLAST35
Repeati398 – 432PPR 2Add BLAST35
Repeati433 – 467PPR 3Add BLAST35
Repeati468 – 502PPR 4Add BLAST35
Repeati503 – 537PPR 5Add BLAST35
Repeati538 – 572PPR 6Add BLAST35
Repeati573 – 607PPR 7Add BLAST35
Repeati608 – 642PPR 8Add BLAST35
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini760 – 843SmrPROSITE-ProRule annotationAdd BLAST84

<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_015575_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q8GYP6

Identification of Orthologs from Complete Genome Data

More...
OMAi
NDAVHAP

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q8GYP6

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.10, 3 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002885, Pentatricopeptide_repeat
IPR002625, Smr_dom
IPR036063, Smr_dom_sf
IPR011990, TPR-like_helical_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01535, PPR, 2 hits
PF12854, PPR_1, 1 hit
PF13041, PPR_2, 3 hits

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00463, SMR, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF160443, SSF160443, 1 hit
SSF48452, SSF48452, 1 hit

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, 9 hits
PS50828, SMR, 1 hit

<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>Sequence (1+)i

<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.

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. This section is only present in reviewed entries, i.e. in UniProtKB/Swiss-Prot.<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: Q8GYP6-1) [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
MIRAKHISNL SSTARSFFLN GSRTSVTDGN SCVYSDDENC VSKRQQLRKE
60 70 80 90 100
AGQTEKRPSS ILPKPSVVGC ILPGEVTKPV VPKKVDDFGR PSLLPQHVSS
110 120 130 140 150
SPALPLKSHS VNYASTVVRE EVEGKASSEP IGDQIFKAGI VAVNFLSDLS
160 170 180 190 200
NCKIPSYDGG SDAFGLPKSC MVDPTRPISS VKSSNVKAIR REHFAKIYPR
210 220 230 240 250
SAAKESSVGT TRNPSSNFRG AKEAERTGFV KGFRQVSNSV VGKSLPTTNN
260 270 280 290 300
TYGKRTSVLQ RPHIDSNRFV PSGFSNSSVE MMKGPSGTAL TSRQYCNSGH
310 320 330 340 350
IVENVSSVLR RFRWGPAAEE ALQNLGLRID AYQANQVLKQ MNDYGNALGF
360 370 380 390 400
FYWLKRQPGF KHDGHTYTTM VGNLGRAKQF GAINKLLDEM VRDGCQPNTV
410 420 430 440 450
TYNRLIHSYG RANYLNEAMN VFNQMQEAGC KPDRVTYCTL IDIHAKAGFL
460 470 480 490 500
DIAMDMYQRM QAGGLSPDTF TYSVIINCLG KAGHLPAAHK LFCEMVDQGC
510 520 530 540 550
TPNLVTYNIM MDLHAKARNY QNALKLYRDM QNAGFEPDKV TYSIVMEVLG
560 570 580 590 600
HCGYLEEAEA VFTEMQQKNW IPDEPVYGLL VDLWGKAGNV EKAWQWYQAM
610 620 630 640 650
LHAGLRPNVP TCNSLLSTFL RVNKIAEAYE LLQNMLALGL RPSLQTYTLL
660 670 680 690 700
LSCCTDGRSK LDMGFCGQLM ASTGHPAHMF LLKMPAAGPD GENVRNHANN
710 720 730 740 750
FLDLMHSEDR ESKRGLVDAV VDFLHKSGQK EEAGSVWEVA AQKNVFPDAL
760 770 780 790 800
REKSCSYWLI NLHVMSEGTA VTALSRTLAW FRKQMLASGT CPSRIDIVTG
810 820 830 840 850
WGRRSRVTGT SMVRQAVEEL LNIFGSPFFT ESGNSGCFVG SGEPLNRWLL
860
QSHVERMHLL
Length:860
Mass (Da):95,214
Last modified:March 1, 2003 - 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:i0FBF05A1D031A260
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
F4IDY2F4IDY2_ARATH
Pentatricopeptide repeat (PPR) supe...
At1g18900, F14D16.2, F14D16_2
886Annotation 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 AAF79278 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

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AC068602 Genomic DNA Translation: AAF79278.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE29778.1
CP002684 Genomic DNA Translation: AEE29779.1
CP002684 Genomic DNA Translation: ANM60908.1
AK117464 mRNA Translation: BAC42129.1
BT005012 mRNA Translation: AAO50545.1

NCBI Reference Sequences

More...
RefSeqi
NP_001319039.1, NM_001332378.1 [Q8GYP6-1]
NP_173324.1, NM_101747.3 [Q8GYP6-1]
NP_973860.1, NM_202131.1 [Q8GYP6-1]

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT1G18900.1; AT1G18900.1; AT1G18900 [Q8GYP6-1]
AT1G18900.2; AT1G18900.2; AT1G18900 [Q8GYP6-1]
AT1G18900.4; AT1G18900.4; AT1G18900 [Q8GYP6-1]

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
838471

Gramene; a comparative resource for plants

More...
Gramenei
AT1G18900.1; AT1G18900.1; AT1G18900 [Q8GYP6-1]
AT1G18900.2; AT1G18900.2; AT1G18900 [Q8GYP6-1]
AT1G18900.4; AT1G18900.4; AT1G18900 [Q8GYP6-1]

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT1G18900

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%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
AC068602 Genomic DNA Translation: AAF79278.1 Sequence problems.
CP002684 Genomic DNA Translation: AEE29778.1
CP002684 Genomic DNA Translation: AEE29779.1
CP002684 Genomic DNA Translation: ANM60908.1
AK117464 mRNA Translation: BAC42129.1
BT005012 mRNA Translation: AAO50545.1
RefSeqiNP_001319039.1, NM_001332378.1 [Q8GYP6-1]
NP_173324.1, NM_101747.3 [Q8GYP6-1]
NP_973860.1, NM_202131.1 [Q8GYP6-1]

3D structure databases

SMRiQ8GYP6
ModBaseiSearch...

Protein-protein interaction databases

STRINGi3702.AT1G18900.3

PTM databases

iPTMnetiQ8GYP6

Proteomic databases

PaxDbiQ8GYP6
ProteomicsDBi234900 [Q8GYP6-1]

Genome annotation databases

EnsemblPlantsiAT1G18900.1; AT1G18900.1; AT1G18900 [Q8GYP6-1]
AT1G18900.2; AT1G18900.2; AT1G18900 [Q8GYP6-1]
AT1G18900.4; AT1G18900.4; AT1G18900 [Q8GYP6-1]
GeneIDi838471
GrameneiAT1G18900.1; AT1G18900.1; AT1G18900 [Q8GYP6-1]
AT1G18900.2; AT1G18900.2; AT1G18900 [Q8GYP6-1]
AT1G18900.4; AT1G18900.4; AT1G18900 [Q8GYP6-1]
KEGGiath:AT1G18900

Organism-specific databases

AraportiAT1G18900

Phylogenomic databases

eggNOGiKOG4197, Eukaryota
HOGENOMiCLU_015575_1_0_1
InParanoidiQ8GYP6
OMAiNDAVHAP
PhylomeDBiQ8GYP6

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q8GYP6

Gene expression databases

ExpressionAtlasiQ8GYP6, baseline and differential
GenevisibleiQ8GYP6, AT

Family and domain databases

Gene3Di1.25.40.10, 3 hits
InterProiView protein in InterPro
IPR002885, Pentatricopeptide_repeat
IPR002625, Smr_dom
IPR036063, Smr_dom_sf
IPR011990, TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF01535, PPR, 2 hits
PF12854, PPR_1, 1 hit
PF13041, PPR_2, 3 hits
SMARTiView protein in SMART
SM00463, SMR, 1 hit
SUPFAMiSSF160443, SSF160443, 1 hit
SSF48452, SSF48452, 1 hit
TIGRFAMsiTIGR00756, PPR, 8 hits
PROSITEiView protein in PROSITE
PS51375, PPR, 9 hits
PS50828, SMR, 1 hit

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 nameiPPR49_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: Q8GYP6
Secondary accession number(s): Q9LME0
<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: July 1, 2008
Last sequence update: March 1, 2003
Last modified: August 12, 2020
This is version 103 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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