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UniProtKB - Q99XG5 (GYRA_STAAN)

Entry version 126 (02 Dec 2020)
Sequence version 1 (01 Jun 2001)
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Protein

DNA gyrase subunit A

Gene

gyrA

Organism
Staphylococcus aureus (strain N315)
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>-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

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

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 functionDNA-binding, Isomerase, Topoisomerase
Biological processAntibiotic resistance
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		SAUR158879:G1G21-6-MONOMER

BRENDA Comprehensive Enzyme Information System

More...BRENDAi		5.99.1.3, 3352

<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:SA0006
<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 aureus (strain N315)
<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 identifieri158879 [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 lineageiBacteria › Firmicutes › Bacilli › Bacillales › Staphylococcaceae › Staphylococcus ›
<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
  • UP000000751 <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

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Cytoplasm

<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_00001452531 – 889DNA gyrase subunit AAdd BLAST889

<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

<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

Secondary structure

1889
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...SMRi		Q99XG5

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		Q99XG5

<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

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

<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

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

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
IPR002205, Topo_IIA_A/C
IPR013758, Topo_IIA_A/C_ab
IPR013757, Topo_IIA_A_a_sf

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.

Q99XG5-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAELPQSRIN ERNITSEMRE SFLDYAMSVI VARALPDVRD GLKPVHRRIL 
        60         70         80         90        100
YGLNEQGMTP DKSYKKSARI VGDVMGKYHP HGDSSIYEAM VRMAQDFSYR 
       110        120        130        140        150
YPLVDGQGNF GSMDGDGAAA MRYTEARMTK ITLELLRDIN KDTIDFIDNY 
       160        170        180        190        200
DGNEREPSVL PARFPNLLAN GASGIAVGMA TNIPPHNLTE LINGVLSLSK 
       210        220        230        240        250
NPDISIAELM EDIEGPDFPT AGLILGKSGI RRAYETGRGS IQMRSRAVIE 
       260        270        280        290        300
ERGGGRQRIV VTEIPFQVNK ARMIEKIAEL VRDKKIDGIT DLRDETSLRT 
       310        320        330        340        350
GVRVVIDVRK DANASVILNN LYKQTPLQTS FGVNMIALVN GRPKLINLKE 
       360        370        380        390        400
ALVHYLEHQK TVVRRRTQYN LRKAKDRAHI LEGLRIALDH IDEIISTIRE 
       410        420        430        440        450
SDTDKVAMES LQQRFKLSEK QAQAILDMRL RRLTGLERDK IEAEYNELLN 
       460        470        480        490        500
YISELETILA DEEVLLQLVR DELTEIRDRF GDDRRTEIQL GGFEDLEDED 
       510        520        530        540        550
LIPEEQIVIT LSHNNYIKRL PVSTYRAQNR GGRGVQGMNT LEEDFVSQLV 
       560        570        580        590        600
TLSTHDHVLF FTNKGRVYKL KGYEVPELSR QSKGIPVVNA IELENDEVIS 
       610        620        630        640        650
TMIAVKDLES EDNFLVFATK RGVVKRSALS NFSRINRNGK IAISFREDDE 
       660        670        680        690        700
LIAVRLTSGQ EDILIGTSHA SLIRFPESTL RPLGRTATGV KGITLREGDE 
       710        720        730        740        750
VVGLDVAHAN SVDEVLVVTE NGYGKRTPVN DYRLSNRGGK GIKTATITER 
       760        770        780        790        800
NGNVVCITTV TGEEDLMIVT NAGVIIRLDV ADISQNGRAA QGVRLIRLGD 
       810        820        830        840        850
DQFVSTVAKV KEDAEDETNE DEQSTSTVSE DGTEQQREAV VNDETPGNAI 
       860        870        880 
HTEVIDSEEN DEDGRIEVRQ DFMDRVEEDI QQSSDEDEE
Length:889
Mass (Da):99,625
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:iDD5762C23EDC6E2F
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
BA000018 Genomic DNA Translation: BAB41222.1

Protein sequence database of the Protein Information Resource

More...PIRi		F89758

NCBI Reference Sequences

More...RefSeqi		WP_000819096.1, NC_002745.2

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		BAB41222; BAB41222; BAB41222

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		sau:SA0006

<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
BA000018 Genomic DNA Translation: BAB41222.1
PIRiF89758
RefSeqiWP_000819096.1, NC_002745.2

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2XCOX-ray3.10A2-491[»]
2XCQX-ray2.98A2-491[»]
2XCRX-ray3.50B/D/S/U2-491[»]
2XCSX-ray2.10B/D2-491[»]
2XCTX-ray3.35B/D/S/U2-491[»]
4BULX-ray2.60A/C2-491[»]
5CDMX-ray2.50A/C9-490[»]
5CDNX-ray2.79A/C/R/T10-490[»]
5CDOX-ray3.15A/C/R/T9-490[»]
5CDPX-ray2.45A/C9-491[»]
5CDQX-ray2.95A/C/R/T10-490[»]
5CDRX-ray2.65A/C9-491[»]
5IWIX-ray1.98A/C2-491[»]
5IWMX-ray2.50A/C2-491[»]
5NPKX-ray1.98B/D/b/d2-491[»]
5NPPX-ray2.22B/D2-491[»]
6FM4X-ray2.70B/D2-491[»]
6FQMX-ray3.06A/C/a/c2-491[»]
6FQSX-ray3.11A/C2-491[»]
6FQVX-ray2.60A/C/R/T2-491[»]
6QTKX-ray2.31A/C2-491[»]
6QTPX-ray2.37A/C2-491[»]
6QX1X-ray2.65A/C2-491[»]
SMRiQ99XG5
ModBaseiSearch...
PDBe-KBiSearch...

Genome annotation databases

EnsemblBacteriaiBAB41222; BAB41222; BAB41222
KEGGisau:SA0006

Phylogenomic databases

HOGENOMiCLU_002977_6_1_9
OMAiTHHWLLF

Enzyme and pathway databases

BioCyciSAUR158879:G1G21-6-MONOMER
BRENDAi5.99.1.3, 3352

Miscellaneous databases

EvolutionaryTraceiQ99XG5

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
IPR002205, Topo_IIA_A/C
IPR013758, Topo_IIA_A/C_ab
IPR013757, Topo_IIA_A_a_sf
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

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 nameiGYRA_STAAN
<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: Q99XG5
<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 28, 2003
Last sequence update: June 1, 2001
Last modified: December 2, 2020
This is version 126 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

3D-structure

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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