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Entry version 65 (17 Jun 2020)
Sequence version 1 (23 Sep 2008)
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Protein

Pentatricopeptide repeat-containing protein ATP4, chloroplastic

Gene

ATP4

Organism
Zea mays (Maize)
Status
Reviewed-Annotation score:

Annotation score:4 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

Involved in translation and accumulation of chloroplast ATP synthase subunits. Interacts with the 5'-UTR of the chloroplast bicistronic atpB and atpE mRNA and activates its translation by facilitating ribosome association with the mRNA (PubMed:22708543). Required for accumulation and activity of the chloroplast ATP synthase. Enhances atpA translation and is required for accumulation of specific processed atpF and psaJ transcripts (PubMed:22708543, PubMed:23735295). Required for the stabilization of bicistronic rpl16 and rpl14 mRNAs (PubMed:23735295).2 Publications

<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

<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>Keywordsi

Molecular functionRNA-binding
Biological processmRNA processing, Translation regulation

<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 ATP4, chloroplasticCurated
Alternative name(s):
ATP synthase 41 Publication
<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
Name:ATP41 Publication
ORF Names:ZEAMMB73_Zm00001d028221Imported
<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>OrganismiZea mays (Maize)
<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 identifieri4577 [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 lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaLiliopsidaPoalesPoaceaePACMAD cladePanicoideaeAndropogonodaeAndropogoneaeTripsacinaeZea
<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
  • UP000007305 <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

<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

Keywords - Cellular componenti

Chloroplast, Plastid

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the 'Pathology and Biotech' section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Pale green leaf phenotype.1 Publication

<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 – 35ChloroplastSequence analysisAdd BLAST35
<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_000044190436 – 691Pentatricopeptide repeat-containing protein ATP4, chloroplasticAdd BLAST656

Proteomic databases

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

More...
PaxDbi
B4F8Z1

PRoteomics IDEntifications database

More...
PRIDEi
B4F8Z1

<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
B4F8Z1 baseline and differential

<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
4577.GRMZM2G128665_P01

<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
B4F8Z1

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>Repeati163 – 197PPR 1PROSITE-ProRule annotationAdd BLAST35
Repeati198 – 232PPR 2PROSITE-ProRule annotationAdd BLAST35
Repeati233 – 267PPR 3PROSITE-ProRule annotationAdd BLAST35
Repeati268 – 302PPR 4PROSITE-ProRule annotationAdd BLAST35
Repeati303 – 337PPR 5PROSITE-ProRule annotationAdd BLAST35
Repeati338 – 372PPR 6PROSITE-ProRule annotationAdd BLAST35
Repeati373 – 403PPR 7PROSITE-ProRule annotationAdd BLAST31
Repeati411 – 445PPR 8PROSITE-ProRule annotationAdd BLAST35
Repeati446 – 480PPR 9PROSITE-ProRule annotationAdd BLAST35
Repeati546 – 580PPR 10PROSITE-ProRule annotationAdd 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>Domaini592 – 677SmrPROSITE-ProRule annotationAdd BLAST86

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi82 – 150Ala-richPROSITE-ProRule annotationAdd BLAST69

<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

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
CLU_018319_0_0_1

Identification of Orthologs from Complete Genome Data

More...
OMAi
RKAYCNC

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, 3 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002885 Pentatricopeptide_repeat
IPR033443 PPR_long
IPR002625 Smr_dom
IPR011990 TPR-like_helical_dom_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01535 PPR, 1 hit
PF13041 PPR_2, 2 hits
PF17177 PPR_long, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00463 SMR, 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, 10 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>Sequencei

<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.

<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 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.

B4F8Z1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MASLPLCRSP SSLLPSWPHR PISASFNPKN PSSPVAAHVS VQETPPQPQD
60 70 80 90 100
PSPPSDSNPN GTRPSSSSNT RFLWVNPNSP RAADVARARA GSGRRARLAS
110 120 130 140 150
AAAALGACET TESAVEAALQ AAFPEPPSEQ DAVIVLNTAA ATRAETAVLA
160 170 180 190 200
LRWFLGNAKV RKKVILYNVV LKLLRKKRLW SETEALWAEM LRDGVQPDNA
210 220 230 240 250
TFSTVISCAR ACGLHSKAVE WFDKMPEFGC SPDMLTYSAV IDAYGHAGNS
260 270 280 290 300
EAALRLYDRA RAEKWQLDPV ICSTVIKVHS TSGNFDGALN VFEEMKAIGV
310 320 330 340 350
RPNLVVYNTM LDAMGRALRP WVVKTIHREM VDQQVQPSRA TYCCLLHAYT
360 370 380 390 400
RARYGEDAMA VYRLMKDEAM GIDVMLYNML LSMCADIGYV DEAEEIFRDM
410 420 430 440 450
KASMGAHSKP DSWSYSSMVT LYSSTANVLS AEGILNEMVE AGFKPNIFVL
460 470 480 490 500
TSLIRCYGKV GRTDDVVRSF GMLQDLGIIP DDRFCGCLLS VAANTPAEEL
510 520 530 540 550
GKVISCIERS NVQLGAVVKL LVDRSSSESF REAARELLRS SRGVVKMPYC
560 570 580 590 600
NCLMDLCVNL NQMEKACALL DAAQQLGIYA NIQTRTQTQW SLHLRGLSVG
610 620 630 640 650
AALTTLHVWM NDLYTSLQTG NEGLPPLLGI HTGQGKNTYS DRGLAAMFEA
660 670 680 690
HLKELDAPFH EAPDKAGWFL TTNVAAKQWL ESKAASELVT V
Length:691
Mass (Da):75,581
Last modified:September 23, 2008 - 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:iC7F82CF9BC2BF6CA
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
CM007647 Genomic DNA Translation: ONL95104.1
BT033579 mRNA Translation: ACF78584.1

NCBI Reference Sequences

More...
RefSeqi
NP_001130387.1, NM_001136915.1

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
Zm00001d028221_T001; Zm00001d028221_P001; Zm00001d028221

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
100191483

Gramene; a comparative resource for plants

More...
Gramenei
Zm00001d028221_T001; Zm00001d028221_P001; Zm00001d028221

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
zma:100191483

<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

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CM007647 Genomic DNA Translation: ONL95104.1
BT033579 mRNA Translation: ACF78584.1
RefSeqiNP_001130387.1, NM_001136915.1

3D structure databases

SMRiB4F8Z1
ModBaseiSearch...

Protein-protein interaction databases

STRINGi4577.GRMZM2G128665_P01

Proteomic databases

PaxDbiB4F8Z1
PRIDEiB4F8Z1

Genome annotation databases

EnsemblPlantsiZm00001d028221_T001; Zm00001d028221_P001; Zm00001d028221
GeneIDi100191483
GrameneiZm00001d028221_T001; Zm00001d028221_P001; Zm00001d028221
KEGGizma:100191483

Phylogenomic databases

eggNOGiKOG4197 Eukaryota
ENOG410Z7Z7 LUCA
HOGENOMiCLU_018319_0_0_1
OMAiRKAYCNC
OrthoDBi1344243at2759

Gene expression databases

ExpressionAtlasiB4F8Z1 baseline and differential

Family and domain databases

Gene3Di1.25.40.10, 3 hits
InterProiView protein in InterPro
IPR002885 Pentatricopeptide_repeat
IPR033443 PPR_long
IPR002625 Smr_dom
IPR011990 TPR-like_helical_dom_sf
PfamiView protein in Pfam
PF01535 PPR, 1 hit
PF13041 PPR_2, 2 hits
PF17177 PPR_long, 1 hit
SMARTiView protein in SMART
SM00463 SMR, 1 hit
TIGRFAMsiTIGR00756 PPR, 8 hits
PROSITEiView protein in PROSITE
PS51375 PPR, 10 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 nameiATP4_MAIZE
<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: B4F8Z1
<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: October 25, 2017
Last sequence update: September 23, 2008
Last modified: June 17, 2020
This is version 65 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. SIMILARITY comments
    Index of protein domains and families
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