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Entry version 133 (02 Jun 2021)
Sequence version 1 (01 Jun 2001)
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Protein

DNA topoisomerase 6 subunit B

Gene

TOP6B

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

Component of the DNA topoisomerase VI involved in chromatin organization and progression of endoreduplication cycles. Relaxes both positive and negative superturns and exhibits a strong decatenase activity. The B subunit binds ATP. Involved in cell-elongation processes.

UniRule annotation2 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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

  • ATP-dependent breakage, passage and rejoining of double-stranded DNA.UniRule annotation EC:5.6.2.2

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei60ATPUniRule annotation1
Binding sitei160ATPUniRule annotation1
Binding sitei516ATPUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi181 – 182ATPUniRule annotation2
Nucleotide bindingi190 – 197ATPUniRule annotation8

<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 functionDNA-binding, Isomerase, Topoisomerase
LigandATP-binding, Nucleotide-binding

<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:
DNA topoisomerase 6 subunit BUniRule annotation (EC:5.6.2.2UniRule annotation)
Short name:
AtTOP6B
Alternative name(s):
Protein BRASSINOSTEROID INSENSITIVE 3
Protein ELONGATED HYPOCOTYL 6
Protein ROOT HAIRLESS 3
<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:TOP6BUniRule annotation
Synonyms:BIN3, HYP6, RHL3
Ordered Locus Names:At3g20780
ORF Names:MOE17.8
<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 3

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT3G20780

The Arabidopsis Information Resource

More...
TAIRi
locus:2091916, AT3G20780

<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

Keywords - Cellular componenti

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

Plants are defective in cell elongation and show a severe dwarf 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 polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003461121 – 670DNA topoisomerase 6 subunit BAdd BLAST670

Proteomic databases

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

More...
PaxDbi
Q9C5V6

PRoteomics IDEntifications database

More...
PRIDEi
Q9C5V6

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
234444

<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 provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Highly expressed in leaves, stems, flowers and seedlings.1 Publication

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q9C5V6, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9C5V6, 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%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer. Heterotetramer of two TOP6A and two TOP6B subunits.

Interacts with SPO11-2, but not with SPO11-1, RHL1 or BIN4.

UniRule annotation3 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

Database of interacting proteins

More...
DIPi
DIP-40170N

Protein interaction database and analysis system

More...
IntActi
Q9C5V6, 2 interactors

STRING: functional protein association networks

More...
STRINGi
3702.AT3G20780.1

<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
Q9C5V6

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

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>Regioni1 – 30DisorderedSequence analysisAdd BLAST30

<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 TOP6B family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG502QQC0, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_006403_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9C5V6

Identification of Orthologs from Complete Genome Data

More...
OMAi
TRIELEM

Database of Orthologous Groups

More...
OrthoDBi
545371at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9C5V6

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00823, TopoIIB_Trans, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.30.230.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00322, Top6B, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR003594, HATPase_C
IPR036890, HATPase_C_sf
IPR020568, Ribosomal_S5_D2-typ_fold
IPR014721, Ribosomal_S5_D2-typ_fold_subgr
IPR005734, TopoVI_B
IPR015320, TopoVI_B_transducer

The PANTHER Classification System

More...
PANTHERi
PTHR10871:SF4, PTHR10871:SF4, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF02518, HATPase_c, 1 hit
PF09239, Topo-VIb_trans, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF54211, SSF54211, 1 hit
SSF55874, SSF55874, 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.

Q9C5V6-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAGDDLVETK KGSSKNSKDS NESKLKQKSP AEFFAENKNI AGFDNPGKSL
60 70 80 90 100
YTTVRELVEN ALDSAESISE LPEVEVTIEE IVKSKFNSMI GLIDRERVDT
110 120 130 140 150
QLYDDYETEK ARGKRLAKEA RASEIQAKNL ASGKKNKEPG VSKVLKARGE
160 170 180 190 200
ASYYKVTCKD NGKGMPHDDI PNMFGRVLSG TKYGLKQTRG KFGLGAKMAL
210 220 230 240 250
IWSKMSTGLP IEISSSMKSQ NYVTFCRLDI DIHRNIPHIH LHEKKGNKEK
260 270 280 290 300
WHGAEIQVVI EGNWTTYRSK ILHYMRQMAV ITPYAQFLFR FISETPEKNV
310 320 330 340 350
TIKFTRRTDV MPPIPIETKH HPSSVDLLLI KRLITDTSKK TLLQFLQNEF
360 370 380 390 400
VNINKTLAAR LIGEMGPDFG PSMAVKSVTS QQMVRIHQLF RQAKFDDPSG
410 420 430 440 450
DCLSPAGEYN LRLGIIKELH PDMVATYSGS AQVFEGHPFI VEAGVSLGGR
460 470 480 490 500
DVKQGINIFR FANRIPLLFE QGADVVTRTA LKRINWNSYK INQTQDKIGV
510 520 530 540 550
FVSIVSTKIP FKGTGKEYIG DDISEIATAV KSAIQQCCIQ LKSKIVKRLQ
560 570 580 590 600
AREQQERKRS LSRYIPDATG AVYEVLKQMT EEHKTKRKRY GEEDIVMLDK
610 620 630 640 650
VSKQIITKET LKEKLAEHVE QVDYEMALEY ATQSGVSEEP RENIYLQHLD
660 670
PNKSNFIDLH SPTFVFRLML
Length:670
Mass (Da):75,852
Last modified:June 1, 2001 - 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:i5735F0A6B4578D61
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 BAB02486 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
AJ297843 mRNA Translation: CAC24690.1
AB025629 Genomic DNA Translation: BAB02486.1 Sequence problems.
CP002686 Genomic DNA Translation: AEE76422.1

NCBI Reference Sequences

More...
RefSeqi
NP_188714.2, NM_112969.3

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT3G20780.1; AT3G20780.1; AT3G20780

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
821626

Gramene; a comparative resource for plants

More...
Gramenei
AT3G20780.1; AT3G20780.1; AT3G20780

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT3G20780

<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
AJ297843 mRNA Translation: CAC24690.1
AB025629 Genomic DNA Translation: BAB02486.1 Sequence problems.
CP002686 Genomic DNA Translation: AEE76422.1
RefSeqiNP_188714.2, NM_112969.3

3D structure databases

SMRiQ9C5V6
ModBaseiSearch...

Protein-protein interaction databases

DIPiDIP-40170N
IntActiQ9C5V6, 2 interactors
STRINGi3702.AT3G20780.1

Proteomic databases

PaxDbiQ9C5V6
PRIDEiQ9C5V6
ProteomicsDBi234444

Genome annotation databases

EnsemblPlantsiAT3G20780.1; AT3G20780.1; AT3G20780
GeneIDi821626
GrameneiAT3G20780.1; AT3G20780.1; AT3G20780
KEGGiath:AT3G20780

Organism-specific databases

AraportiAT3G20780
TAIRilocus:2091916, AT3G20780

Phylogenomic databases

eggNOGiENOG502QQC0, Eukaryota
HOGENOMiCLU_006403_1_0_1
InParanoidiQ9C5V6
OMAiTRIELEM
OrthoDBi545371at2759
PhylomeDBiQ9C5V6

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9C5V6

Gene expression databases

ExpressionAtlasiQ9C5V6, baseline and differential
GenevisibleiQ9C5V6, AT

Family and domain databases

CDDicd00823, TopoIIB_Trans, 1 hit
Gene3Di3.30.230.10, 1 hit
HAMAPiMF_00322, Top6B, 1 hit
InterProiView protein in InterPro
IPR003594, HATPase_C
IPR036890, HATPase_C_sf
IPR020568, Ribosomal_S5_D2-typ_fold
IPR014721, Ribosomal_S5_D2-typ_fold_subgr
IPR005734, TopoVI_B
IPR015320, TopoVI_B_transducer
PANTHERiPTHR10871:SF4, PTHR10871:SF4, 1 hit
PfamiView protein in Pfam
PF02518, HATPase_c, 1 hit
PF09239, Topo-VIb_trans, 1 hit
SUPFAMiSSF54211, SSF54211, 1 hit
SSF55874, SSF55874, 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 nameiTOP6B_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: Q9C5V6
Secondary accession number(s): Q9LT43
<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: September 2, 2008
Last sequence update: June 1, 2001
Last modified: June 2, 2021
This is version 133 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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