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UniProtKB - O22173 (PABP4_ARATH)

Entry version 141 (18 Sep 2019)
Sequence version 1 (01 Jan 1998)
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Protein

Polyadenylate-binding protein 4

Gene

PAB4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:5 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 protein 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

Binds the poly(A) tail of mRNA. Appears to be an important mediator of the multiple roles of the poly(A) tail in mRNA biogenesis, stability and translation (By similarity). During infection with potyvirus TuMV, acts as a potential integral component of the viral replicase complex that could play an important role in the regulation of potyviral RNA-dependent RNA polymerase (RdRp) (By similarity).By similarity

Miscellaneous

A.thaliana contains 8 PABP genes.

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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 processHost-virus interaction, 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_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:
Polyadenylate-binding protein 4
Short name:
PABP-4
Short name:
Poly(A)-binding protein 4
<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:PAB4
Ordered Locus Names:At2g23350
ORF Names:T20D16.2
<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 lineageiEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliopsida › eudicotyledons › Gunneridae › Pentapetalae › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis
<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 2

Organism-specific databases

Arabidopsis Information Portal

More...Araporti		AT2G23350

The Arabidopsis Information Resource

More...TAIRi		locus:2058573 AT2G23350

<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

Cytoplasm, Nucleus

<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

Pab2 and pab4 double mutants show significant growth and development defects and more resistance to Turnip mosaic virus (TuMV).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 polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004226431 – 662Polyadenylate-binding protein 4Add BLAST662

Proteomic databases

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

More...PaxDbi		O22173

PRoteomics IDEntifications database

More...PRIDEi		O22173

Protein Mass spectra EXtraction

More...ProMEXi		O22173

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		O22173

<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

<p>This subsection of the ‘Expression’ section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

By potyvirus TuMV infection.1 Publication

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		O22173 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		O22173 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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with ERD15/CID1.

Interacts with Turnip mosaic virus (TuMV) VPg-Pro.

2 Publications

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...BioGridi		2219, 5 interactors

Protein interaction database and analysis system

More...IntActi		O22173, 4 interactors

STRING: functional protein association networks

More...STRINGi		3702.AT2G23350.1

<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

More...SMRi		O22173

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 <a href="http://www.uniprot.org/help/family_and_domains_section">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>Domaini46 – 124RRM 1PROSITE-ProRule annotationAdd BLAST79
Domaini134 – 211RRM 2PROSITE-ProRule annotationAdd BLAST78
Domaini225 – 302RRM 3PROSITE-ProRule annotationAdd BLAST78
Domaini328 – 405RRM 4PROSITE-ProRule annotationAdd BLAST78
Domaini558 – 635PABCPROSITE-ProRule annotationAdd BLAST78

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 biasi12 – 15Poly-Pro4
Compositional biasi30 – 39Poly-Gly10

<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 polyadenylate-binding protein type-1 family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG0123 Eukaryota
ENOG410XR5X LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000217922

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		O22173

KEGG Orthology (KO)

More...KOi		K13126

Identification of Orthologs from Complete Genome Data

More...OMAi		MIRITYS

Database of Orthologous Groups

More...OrthoDBi		1027234at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		O22173

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.30.70.330, 4 hits

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR036053 PABP-dom
IPR006515 PABP_1234
IPR002004 PABP_HYD
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
IPR003954 RRM_dom_euk

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00658 PABP, 1 hit
PF00076 RRM_1, 4 hits

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00517 PolyA, 1 hit
SM00360 RRM, 4 hits
SM00361 RRM_1, 4 hits

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF54928 SSF54928, 3 hits
SSF63570 SSF63570, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR01628 PABP-1234, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51309 PABC, 1 hit
PS50102 RRM, 4 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.

O22173-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAQVQAPSSH SPPPPAVVND GAATASATPG IGVGGGGDGV THGALCSLYV 
        60         70         80         90        100
GDLDFNVTDS QLYDYFTEVC QVVSVRVCRD AATNTSLGYG YVNYSNTDDA 
       110        120        130        140        150
EKAMQKLNYS YLNGKMIRIT YSSRDSSARR SGVGNLFVKN LDKSVDNKTL 
       160        170        180        190        200
HEAFSGCGTI VSCKVATDHM GQSRGYGFVQ FDTEDSAKNA IEKLNGKVLN 
       210        220        230        240        250
DKQIFVGPFL RKEERESAAD KMKFTNVYVK NLSEATTDDE LKTTFGQYGS 
       260        270        280        290        300
ISSAVVMRDG DGKSRCFGFV NFENPEDAAR AVEALNGKKF DDKEWYVGKA 
       310        320        330        340        350
QKKSERELEL SRRYEQGSSD GGNKFDGLNL YVKNLDDTVT DEKLRELFAE 
       360        370        380        390        400
FGTITSCKVM RDPSGTSKGS GFVAFSAASE ASRVLNEMNG KMVGGKPLYV 
       410        420        430        440        450
ALAQRKEERR AKLQAQFSQM RPAFIPGVGP RMPIFTGGAP GLGQQIFYGQ 
       460        470        480        490        500
GPPPIIPHQP GFGYQPQLVP GMRPAFFGGP MMQPGQQGPR PGGRRSGDGP 
       510        520        530        540        550
MRHQHQQPMP YMQPQMMPRG RGYRYPSGGR NMPDGPMPGG MVPVAYDMNV 
       560        570        580        590        600
MPYSQPMSAG QLATSLANAT PAQQRTLLGE SLYPLVDQIE SEHAAKVTGM 
       610        620        630        640        650
LLEMDQTEVL HLLESPEALN AKVSEALDVL RNVNQPSSQG SEGNKSGSPS 
       660 
DLLASLSIND HL
Length:662
Mass (Da):71,653
Last modified:January 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:i448481E183DF339E
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti642E → D in AAK25927 (PubMed:14593172).Curated1

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
AC002391 Genomic DNA Translation: AAB87097.1
CP002685 Genomic DNA Translation: AEC07446.1
AF360217 mRNA Translation: AAK25927.1
AY050859 mRNA Translation: AAK92796.1
AY079389 mRNA Translation: AAL85120.1

Protein sequence database of the Protein Information Resource

More...PIRi		T00497

NCBI Reference Sequences

More...RefSeqi		NP_179916.1, NM_127899.4

Genome annotation databases

Ensembl plant genome annotation project

More...EnsemblPlantsi		AT2G23350.1; AT2G23350.1; AT2G23350

Database of genes from NCBI RefSeq genomes

More...GeneIDi		816867

Gramene; a comparative resource for plants

More...Gramenei		AT2G23350.1; AT2G23350.1; AT2G23350

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ath:AT2G23350

<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
AC002391 Genomic DNA Translation: AAB87097.1
CP002685 Genomic DNA Translation: AEC07446.1
AF360217 mRNA Translation: AAK25927.1
AY050859 mRNA Translation: AAK92796.1
AY079389 mRNA Translation: AAL85120.1
PIRiT00497
RefSeqiNP_179916.1, NM_127899.4

3D structure databases

SMRiO22173
ModBaseiSearch...

Protein-protein interaction databases

BioGridi2219, 5 interactors
IntActiO22173, 4 interactors
STRINGi3702.AT2G23350.1

PTM databases

iPTMnetiO22173

Proteomic databases

PaxDbiO22173
PRIDEiO22173
ProMEXiO22173

Genome annotation databases

EnsemblPlantsiAT2G23350.1; AT2G23350.1; AT2G23350
GeneIDi816867
GrameneiAT2G23350.1; AT2G23350.1; AT2G23350
KEGGiath:AT2G23350

Organism-specific databases

AraportiAT2G23350
TAIRilocus:2058573 AT2G23350

Phylogenomic databases

eggNOGiKOG0123 Eukaryota
ENOG410XR5X LUCA
HOGENOMiHOG000217922
InParanoidiO22173
KOiK13126
OMAiMIRITYS
OrthoDBi1027234at2759
PhylomeDBiO22173

Miscellaneous databases

Protein Ontology

More...PROi		PR:O22173

Gene expression databases

ExpressionAtlasiO22173 baseline and differential
GenevisibleiO22173 AT

Family and domain databases

Gene3Di3.30.70.330, 4 hits
InterProiView protein in InterPro
IPR012677 Nucleotide-bd_a/b_plait_sf
IPR036053 PABP-dom
IPR006515 PABP_1234
IPR002004 PABP_HYD
IPR035979 RBD_domain_sf
IPR000504 RRM_dom
IPR003954 RRM_dom_euk
PfamiView protein in Pfam
PF00658 PABP, 1 hit
PF00076 RRM_1, 4 hits
SMARTiView protein in SMART
SM00517 PolyA, 1 hit
SM00360 RRM, 4 hits
SM00361 RRM_1, 4 hits
SUPFAMiSSF54928 SSF54928, 3 hits
SSF63570 SSF63570, 1 hit
TIGRFAMsiTIGR01628 PABP-1234, 1 hit
PROSITEiView protein in PROSITE
PS51309 PABC, 1 hit
PS50102 RRM, 4 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 nameiPABP4_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: O22173
Secondary accession number(s): Q9C5J0
<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: June 26, 2013
Last sequence update: January 1, 1998
Last modified: September 18, 2019
This is version 141 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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