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Entry version 126 (29 Sep 2021)
Sequence version 3 (25 Jan 2012)
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Protein

U-box domain-containing protein 5

Gene

PUB5

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

Annotation score:3 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

Functions as an E3 ubiquitin ligase.

By similarity

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

  • S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine. EC:2.3.2.27

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

<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

<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 functionTransferase
Biological processUbl conjugation pathway

Enzyme and pathway databases

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00143

<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:
U-box domain-containing protein 5 (EC:2.3.2.27)
Alternative name(s):
Plant U-box protein 5
RING-type E3 ubiquitin transferase PUB5Curated
<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:PUB5
Ordered Locus Names:At4g36550
ORF Names:AP22.63, C7A10.810
<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
AT4G36550

The Arabidopsis Information Resource

More...
TAIRi
locus:2115365, AT4G36550

<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

<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_00003221501 – 718U-box domain-containing protein 5Add BLAST718

Proteomic databases

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

More...
PaxDbi
O23225

PRoteomics IDEntifications database

More...
PRIDEi
O23225

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
226355

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
O23225

<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
O23225, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
O23225, 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.AT4G36550.1

<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
O23225

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>Domaini218 – 292U-boxAdd BLAST75
<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>Repeati493 – 532ARM 1Add BLAST40
Repeati534 – 571ARM 2Add BLAST38
Repeati573 – 613ARM 3Add BLAST41

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni662 – 704DisorderedSequence analysisAdd BLAST43

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 type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi673 – 688Polar residuesSequence analysisAdd BLAST16

Keywords - Domaini

Repeat

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0167, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_006348_4_1_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O23225

Identification of Orthologs from Complete Genome Data

More...
OMAi
KFVERIM

Database of Orthologous Groups

More...
OrthoDBi
478706at2759

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.10.10, 1 hit
3.30.40.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR011989, ARM-like
IPR016024, ARM-type_fold
IPR003613, Ubox_domain
IPR013083, Znf_RING/FYVE/PHD

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF04564, U-box, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00504, Ubox, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48371, SSF48371, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51698, U_BOX, 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_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.

O23225-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRIDYTERMP QSYKMHSSMC LELKRLVDRI MRIFPDIEDA RPGCSSGIQT
60 70 80 90 100
LCLLHNALDK TKQLLQYCSE SSKLYMAVTG DAILARGSRA KKSLEQCLND
110 120 130 140 150
IRSIVPTILE IKISQIVQDL RSTQLTLEFS EEEAGKAIRE LMQKSTSSSA
160 170 180 190 200
SPDEIKDFHY AALKLQLSTP EAIVTERRSL KIICEDHKQN SFTHHQSIDD
210 220 230 240 250
SLHANAAEAE ASEEHNGTLP EKFKCTLSRT VMYDPVIISS GNTFERMQIQ
260 270 280 290 300
KWFDEGNDSC PISKRKLDDF TLKPNVELKS QISEWCAKNG LDVQDPARKH
310 320 330 340 350
VKASNSIDFS VSIASFGSSL YNIPDHSGIS ITDFNSSYSI DSSSYSKMSK
360 370 380 390 400
GGYFTPMQRI DSASGAGDTD SSHSEIEIDP LCGLTNLPWD AQIKVVEDVR
410 420 430 440 450
SRFEHSTRAF RSMSPSKFLE PLITYLKNAL ERNGTAGEII KGGLDLLLAF
460 470 480 490 500
LSGNRRAIES LEEEVFKMFS VFLESEVVAE EALNILEVLS NHPHGPSKIT
510 520 530 540 550
SSGSLSSLLK IVESQAEHLQ EQAMITLKNL SSSMEICLEM VSLDFIQKLT
560 570 580 590 600
SFLQQKVFCK HSIIILKNLC STEKGRGCIT ETPDCLASIA ELLESNVPEE
610 620 630 640 650
QENAISILLQ LCVQKIEYCC LVVREATDIY SSLILISNNG TEEVKVSASE
660 670 680 690 700
LLRALVEVDS DKEEEEEVSS RPEGRTTASP TSQVVTPVTH PEPVKITPSP
710
KKSGLFGFNF SSLKKKKK
Length:718
Mass (Da):79,919
Last modified:January 25, 2012 - v3
<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:i531C7070C1B4C78F
GO

<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 CAB16838 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence CAB80321 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
Z99708 Genomic DNA Translation: CAB16838.1 Sequence problems.
AL161589 Genomic DNA Translation: CAB80321.1 Sequence problems.
CP002687 Genomic DNA Translation: AEE86671.1

Protein sequence database of the Protein Information Resource

More...
PIRi
E85431

NCBI Reference Sequences

More...
RefSeqi
NP_195373.6, NM_119818.6

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT4G36550.1; AT4G36550.1; AT4G36550

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
829807

Gramene; a comparative resource for plants

More...
Gramenei
AT4G36550.1; AT4G36550.1; AT4G36550

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT4G36550

<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
Z99708 Genomic DNA Translation: CAB16838.1 Sequence problems.
AL161589 Genomic DNA Translation: CAB80321.1 Sequence problems.
CP002687 Genomic DNA Translation: AEE86671.1
PIRiE85431
RefSeqiNP_195373.6, NM_119818.6

3D structure databases

SMRiO23225
ModBaseiSearch...

Protein-protein interaction databases

STRINGi3702.AT4G36550.1

PTM databases

iPTMnetiO23225

Proteomic databases

PaxDbiO23225
PRIDEiO23225
ProteomicsDBi226355

Genome annotation databases

EnsemblPlantsiAT4G36550.1; AT4G36550.1; AT4G36550
GeneIDi829807
GrameneiAT4G36550.1; AT4G36550.1; AT4G36550
KEGGiath:AT4G36550

Organism-specific databases

AraportiAT4G36550
TAIRilocus:2115365, AT4G36550

Phylogenomic databases

eggNOGiKOG0167, Eukaryota
HOGENOMiCLU_006348_4_1_1
InParanoidiO23225
OMAiKFVERIM
OrthoDBi478706at2759

Enzyme and pathway databases

UniPathwayiUPA00143

Miscellaneous databases

Protein Ontology

More...
PROi
PR:O23225

Gene expression databases

ExpressionAtlasiO23225, baseline and differential
GenevisibleiO23225, AT

Family and domain databases

Gene3Di1.25.10.10, 1 hit
3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR011989, ARM-like
IPR016024, ARM-type_fold
IPR003613, Ubox_domain
IPR013083, Znf_RING/FYVE/PHD
PfamiView protein in Pfam
PF04564, U-box, 1 hit
SMARTiView protein in SMART
SM00504, Ubox, 1 hit
SUPFAMiSSF48371, SSF48371, 1 hit
PROSITEiView protein in PROSITE
PS51698, U_BOX, 1 hit

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 nameiPUB5_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: O23225
Secondary accession number(s): F4JQE6
<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 26, 2008
Last sequence update: January 25, 2012
Last modified: September 29, 2021
This is version 126 of the entry and version 3 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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