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Entry version 114 (25 May 2022)
Sequence version 1 (15 Feb 2005)
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Protein

DNA gyrase subunit A

Gene

gyrA

Organism
Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
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

A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.

UniRule annotation

Miscellaneous

Few gyrases are as efficient as E.coli at forming negative supercoils. Not all organisms have 2 type II topoisomerases; in organisms with a single type II topoisomerase this enzyme also has to decatenate newly replicated chromosomes.UniRule annotation

<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 is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei123O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

<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 gyrase subunit AUniRule annotation (EC:5.6.2.2UniRule annotation)
<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:gyrAUniRule annotation
Ordered Locus Names:SERP2548
<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>OrganismiStaphylococcus epidermidis (strain ATCC 35984 / RP62A)
<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 identifieri176279 [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 lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
<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
  • UP000000531 <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

<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

Cytoplasm

<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

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL2331040

DrugCentral

More...
DrugCentrali
Q5HK04

<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_00001452601 – 893DNA gyrase subunit AAdd BLAST893

<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

Heterotetramer, composed of two GyrA and two GyrB chains. In the heterotetramer, GyrA contains the active site tyrosine that forms a transient covalent intermediate with DNA, while GyrB binds cofactors and catalyzes ATP hydrolysis.

UniRule annotation

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
176279.SERP2548

<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

AlphaFold Protein Structure Database

More...
AlphaFoldDBi
Q5HK04

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q5HK04

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>Regioni810 – 893DisorderedSequence analysisAdd BLAST84

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi528 – 534GyrA-boxUniRule annotation7

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 biasi852 – 881Basic and acidic residuesSequence 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 type II topoisomerase GyrA/ParC subunit family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG0188, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_002977_6_1_9

Identification of Orthologs from Complete Genome Data

More...
OMAi
THHWLLF

Database of Orthologous Groups

More...
OrthoDBi
217468at2

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00187, TOP4c, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.268.10, 1 hit
2.120.10.90, 1 hit
3.90.199.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_01897, GyrA, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR005743, GyrA
IPR006691, GyrA/parC_rep
IPR035516, Gyrase/topoIV_suA_C
IPR013760, Topo_IIA-like_dom_sf
IPR013758, Topo_IIA_A/C_ab
IPR013757, Topo_IIA_A_a_sf
IPR002205, Topo_IIA_dom_A

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF03989, DNA_gyraseA_C, 6 hits
PF00521, DNA_topoisoIV, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00434, TOP4c, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF101904, SSF101904, 1 hit
SSF56719, SSF56719, 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.

Q5HK04-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAELPQSRIN ERNITSEMRE SFLDYAMSVI VSRALPDVRD GLKPVHRRIL
60 70 80 90 100
YGLNEQGMTP DKPYKKSARI VGDVMGKYHP HGDSSIYEAM VRMAQDFSYR
110 120 130 140 150
YPLVDGQGNF GSMDGDGAAA MRYTEARMTK ITLELLRDIN KDTIDFIDNY
160 170 180 190 200
DGNEREPSVL PARFPNLLVN GAAGIAVGMA TNIPPHNLTE VIDGVLSLSK
210 220 230 240 250
NPDITINELM EDIQGPDFPT AGLVLGKSGI RRAYETGRGS IQMRSRAEIE
260 270 280 290 300
ERGGGRQRIV VTEIPFQVNK ARMIEKIAEL VRDKKIDGIT DLRDETSLRT
310 320 330 340 350
GVRVVIDVRK DANASVILNN LYKQTPLQTS FGVNMIALVN SRPKLINLKE
360 370 380 390 400
ALIHYLEHQK TVVRRRTEYN LKKARDRAHI LEGLRIALDH IDEIITTIRE
410 420 430 440 450
SDTDKIAMAS LQERFKLTER QAQAILDMRL RRLTGLERDK IESEYNELLE
460 470 480 490 500
YIKELEEILA DEEVLLQLVR DELTEIKERF GDERRTEIQL GGLEDLEDED
510 520 530 540 550
LIPEEQIVIT LSHNNYIKRL PVSTYRSQNR GGRGIQGMNT LDEDFVSQLV
560 570 580 590 600
TMSTHDHVLF FTNKGRVYKL KGYEVPELSR QSKGIPIINA IELENDETIS
610 620 630 640 650
TMIAVKDLES EEDYLVFATK QGIVKRSSLS NFSRINKNGK IAINFKEDDE
660 670 680 690 700
LIAVRLTTGN EDILIGTAHA SLIRFSESTL RPLGRTAAGV KGISLREGDT
710 720 730 740 750
VVGLDVADSE SEDEVLVVTE NGYGKRTPVS EYRLSNRGGK GIKTATITER
760 770 780 790 800
NGNIVCITTV TGEEDLMVVT NAGVIIRLDV HDISQNGRAA QGVRLMKLGD
810 820 830 840 850
GQFVSTVAKV NEEDDNEENA DEAQQSTTTE TADVEEVVDD QTPGNAIHTE
860 870 880 890
GDAEMESVES PENDDRIDIR QDFMDRVNED IESASDNEED SDE
Length:893
Mass (Da):100,144
Last modified:February 15, 2005 - 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:i2DC566AD0D2126CE
GO

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
CP000029 Genomic DNA Translation: AAW53372.1

NCBI Reference Sequences

More...
RefSeqi
WP_010959373.1, NC_002976.3

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAW53372; AAW53372; SERP2548

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ser:SERP2548

<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
CP000029 Genomic DNA Translation: AAW53372.1
RefSeqiWP_010959373.1, NC_002976.3

3D structure databases

AlphaFoldDBiQ5HK04
SMRiQ5HK04
ModBaseiSearch...

Protein-protein interaction databases

STRINGi176279.SERP2548

Chemistry databases

ChEMBLiCHEMBL2331040
DrugCentraliQ5HK04

Genome annotation databases

EnsemblBacteriaiAAW53372; AAW53372; SERP2548
KEGGiser:SERP2548

Phylogenomic databases

eggNOGiCOG0188, Bacteria
HOGENOMiCLU_002977_6_1_9
OMAiTHHWLLF
OrthoDBi217468at2

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q5HK04

Family and domain databases

CDDicd00187, TOP4c, 1 hit
Gene3Di1.10.268.10, 1 hit
2.120.10.90, 1 hit
3.90.199.10, 1 hit
HAMAPiMF_01897, GyrA, 1 hit
InterProiView protein in InterPro
IPR005743, GyrA
IPR006691, GyrA/parC_rep
IPR035516, Gyrase/topoIV_suA_C
IPR013760, Topo_IIA-like_dom_sf
IPR013758, Topo_IIA_A/C_ab
IPR013757, Topo_IIA_A_a_sf
IPR002205, Topo_IIA_dom_A
PfamiView protein in Pfam
PF03989, DNA_gyraseA_C, 6 hits
PF00521, DNA_topoisoIV, 1 hit
SMARTiView protein in SMART
SM00434, TOP4c, 1 hit
SUPFAMiSSF101904, SSF101904, 1 hit
SSF56719, SSF56719, 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 nameiGYRA_STAEQ
<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: Q5HK04
<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: November 22, 2005
Last sequence update: February 15, 2005
Last modified: May 25, 2022
This is version 114 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 programProkaryotic 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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