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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-Experimental evidence at protein leveli

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

Catalytic activityi

ATP-dependent breakage, passage and rejoining of double-stranded DNA.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei123O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Biological processi

Antibiotic resistance

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi5.99.1.3. 3352.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA gyrase subunit AUniRule annotation (EC:5.99.1.3UniRule annotation)
Gene namesi
Name:gyrAUniRule annotation
Ordered Locus Names:SA0006
OrganismiStaphylococcus aureus (strain N315)
Taxonomic identifieri158879 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi
  • UP000000751 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001452531 – 889DNA gyrase subunit AAdd BLAST889

Proteomic databases

PRIDEiQ99XG5.

Interactioni

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

Structurei

Secondary structure

1889
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi11 – 13Combined sources3
Helixi14 – 32Combined sources19
Turni38 – 40Combined sources3
Helixi44 – 55Combined sources12
Beta strandi60 – 62Combined sources3
Helixi67 – 77Combined sources11
Helixi83 – 93Combined sources11
Turni96 – 98Combined sources3
Beta strandi99 – 101Combined sources3
Beta strandi103 – 108Combined sources6
Turni121 – 123Combined sources3
Beta strandi125 – 128Combined sources4
Helixi130 – 136Combined sources7
Turni137 – 142Combined sources6
Beta strandi146 – 148Combined sources3
Beta strandi155 – 159Combined sources5
Helixi166 – 170Combined sources5
Beta strandi172 – 175Combined sources4
Beta strandi180 – 183Combined sources4
Helixi188 – 200Combined sources13
Helixi206 – 212Combined sources7
Beta strandi223 – 225Combined sources3
Helixi228 – 236Combined sources9
Beta strandi237 – 244Combined sources8
Beta strandi246 – 253Combined sources8
Beta strandi256 – 263Combined sources8
Helixi270 – 282Combined sources13
Beta strandi284 – 286Combined sources3
Beta strandi288 – 294Combined sources7
Turni298 – 300Combined sources3
Beta strandi304 – 308Combined sources5
Beta strandi310 – 312Combined sources3
Helixi314 – 324Combined sources11
Beta strandi328 – 334Combined sources7
Beta strandi336 – 339Combined sources4
Beta strandi342 – 345Combined sources4
Helixi348 – 389Combined sources42
Helixi391 – 400Combined sources10
Helixi404 – 415Combined sources12
Helixi419 – 427Combined sources9
Helixi430 – 433Combined sources4
Beta strandi434 – 436Combined sources3
Helixi437 – 460Combined sources24
Helixi462 – 480Combined sources19
Beta strandi486 – 489Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
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[»]
ProteinModelPortaliQ99XG5.
SMRiQ99XG5.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ99XG5.

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi528 – 534GyrA-boxUniRule annotation7

Sequence similaritiesi

Belongs to the type II topoisomerase GyrA/ParC subunit family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000076278.
KOiK02469.
OMAiEMKSAYI.

Family and domain databases

Gene3Di3.30.1360.40. 1 hit.
3.90.199.10. 2 hits.
HAMAPiMF_01897. GyrA. 1 hit.
InterProiIPR024946. Arg_repress_C-like.
IPR005743. GyrA.
IPR006691. GyrA/parC_pinwhl.
IPR013760. Topo_IIA-like_dom.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
[Graphical view]
PfamiPF03989. DNA_gyraseA_C. 6 hits.
PF00521. DNA_topoisoIV. 1 hit.
[Graphical view]
SMARTiSM00434. TOP4c. 1 hit.
[Graphical view]
SUPFAMiSSF56719. SSF56719. 1 hit.

Sequencei

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
Checksum:iDD5762C23EDC6E2F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000018 Genomic DNA. Translation: BAB41222.1.
PIRiF89758.
RefSeqiWP_000819096.1. NC_002745.2.

Genome annotation databases

EnsemblBacteriaiBAB41222; BAB41222; BAB41222.
KEGGisau:SA0006.
PATRICi19572029. VBIStaAur116463_0006.

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:
PDBei
RCSB PDBi
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[»]
ProteinModelPortaliQ99XG5.
SMRiQ99XG5.
ModBaseiSearch...
MobiDBiSearch...

Proteomic databases

PRIDEiQ99XG5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAB41222; BAB41222; BAB41222.
KEGGisau:SA0006.
PATRICi19572029. VBIStaAur116463_0006.

Phylogenomic databases

HOGENOMiHOG000076278.
KOiK02469.
OMAiEMKSAYI.

Enzyme and pathway databases

BRENDAi5.99.1.3. 3352.

Miscellaneous databases

EvolutionaryTraceiQ99XG5.

Family and domain databases

Gene3Di3.30.1360.40. 1 hit.
3.90.199.10. 2 hits.
HAMAPiMF_01897. GyrA. 1 hit.
InterProiIPR024946. Arg_repress_C-like.
IPR005743. GyrA.
IPR006691. GyrA/parC_pinwhl.
IPR013760. Topo_IIA-like_dom.
IPR002205. Topo_IIA_A/C.
IPR013758. Topo_IIA_A/C_ab.
[Graphical view]
PfamiPF03989. DNA_gyraseA_C. 6 hits.
PF00521. DNA_topoisoIV. 1 hit.
[Graphical view]
SMARTiSM00434. TOP4c. 1 hit.
[Graphical view]
SUPFAMiSSF56719. SSF56719. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiGYRA_STAAN
AccessioniPrimary (citable) accession number: Q99XG5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 28, 2003
Last sequence update: June 1, 2001
Last modified: November 2, 2016
This is version 105 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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

Keywords - Technical termi

3D-structure, Complete proteome

Documents

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.