Brand  (β version)

PDB ID: 6QTK

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Ligands
Code Name Style Show Link
GOL Glycerol PoSSuM
JHN (3~{R})-3-[[4-(3,4-dihydro-2~{H}-pyrano[2,3-C]pyridin-6-ylmethylamino)piperidin-1-yl]methyl]-1,4,7-triazatricyclo[6.3.1.0^{4,12}]dodeca-6,8(12),9-triene-5,11-dione PoSSuM
MN Manganese (II) ion PoSSuM
NA Sodium ion PoSSuM
Non-standard Residues
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Structure summary

Code : 6QTK   PDBj   RCSB PDB   PDBe
Header : ISOMERASE
Title : 2.31A structure of gepotidacin with S.aureus DNA gyrase and doubly nicked DNA
Release Data : 2019-03-13
Compound :
mol_id molecule chains
1 DNA gyrase subunit B B,D
ec: 5.99.1.3
mol_id molecule chains
2 DNA gyrase subunit A A,C
ec: 5.99.1.3
mol_id molecule chains
3 DNA (5'-D(*AP*GP*CP*CP*GP*TP*AP*G*GP*GP*TP*AP*CP*CP*TP*AP*CP*GP*GP*CP*T)-3') E,F
Source :
mol_id organism_scientific expression_system
1 Staphylococcus aureus (strain N315)  (taxid:158879) Escherichia coli  (taxid:562)
strain: N315
gene: gyrB, SA0005
mol_id organism_scientific expression_system
2 Staphylococcus aureus  (taxid:1280) Escherichia coli  (taxid:562)
gene: gyrA, SA0006
mol_id organism_scientific expression_system
3 Synthetic construct  (taxid:32630) Synthetic construct  (taxid:32630)
Authors : Bax, B.D.
Keywords : Inhibitor, DNA, Complex, isomerase
Exp. method : X-RAY DIFFRACTION ( 2.31 Å )
Citation :

Mechanistic and Structural Basis for the Actions of the Antibacterial Gepotidacin against Staphylococcus aureus Gyrase.

Gibson, E.G.,Bax, B.,Chan, P.F.  et al.
(2019)  Acs Infect Dis.  5 : 570 - 581

PubMed: 30757898
DOI: 10.1021/acsinfecdis.8b00315

Reaction

Chain : B, D
UniProt : P66937 (GYRB_STAAN)
Reaction: EC: Evidence:
Physiological Direction:
ATP-dependent breakage, passage and rejoining of double- stranded DNA. 5.6.2.2 HAMAP- Rule:MF_01898
-
Chain : A, C
UniProt : Q99XG5 (GYRA_STAAN)
Reaction: EC: Evidence:
Physiological Direction:
ATP-dependent breakage, passage and rejoining of double- stranded DNA. 5.6.2.2 HAMAP- Rule:MF_01897
-