Gyrase: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<scene name='41/410321/Cv/5'>Gyrase subunit A N-terminal and subunit B C-terminal complex with DNA and inhibitor</scene>. A <scene name='41/410321/Cv/6'>potential drug interacts with both DNA strands and in the hydrophobic pocket between subunits A and B</scene><ref>PMID:24900889</ref>. Water molecules shown as red spheres. | <scene name='41/410321/Cv/5'>Gyrase subunit A N-terminal and subunit B C-terminal complex with DNA and inhibitor</scene>. A <scene name='41/410321/Cv/6'>potential drug interacts with both DNA strands and in the hydrophobic pocket between subunits A and B</scene><ref>PMID:24900889</ref>. Water molecules shown as red spheres. | ||
==3D Structure of Gyrase== | |||
[[Gyrase 3D Structures]] | |||
</StructureSection> | </StructureSection> | ||
==3D Structure of Gyrase== | ==3D Structure of Gyrase== | ||
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**[[4ely]] – GyrA residues 363-497 + CcdB – ''Shigella flexneri''<br /> | **[[4ely]] – GyrA residues 363-497 + CcdB – ''Shigella flexneri''<br /> | ||
**[[4ddq]] – GyrA – ''Bacillus subtilis''<br /> | **[[4ddq]] – GyrA – ''Bacillus subtilis''<br /> | ||
**[[6n1r]], [[6n1q]] – SpGyrA N-terminal – ''Streptococcus pneumoniae'' – Cryo EM<br /> | |||
**[[6n1p]] – SpGyrA N-terminal + DNA – Cryo EM<br /> | |||
**[[5ztj]] - SeGyrA C-terminal – ''Salmonella enterica''<br /> | |||
*Gyrase Subunit B | *Gyrase Subunit B | ||
**[[3g75]], [[3g7b]], [[3g7e]], [[3ttz]], [[3u2d]], [[3u2k]], [[4p8o]], [[5cph]], [[5ctu]], [[5ctw]], [[5ctx]], [[5cty]] – GyrB | **[[3g75]], [[3g7b]], [[3g7e]], [[3ttz]], [[3u2d]], [[3u2k]], [[4p8o]], [[5cph]], [[5ctu]], [[5ctw]], [[5ctx]], [[5cty]] – GyrB N-terminal residues 2-234 + inhibitor – ''Staphylococcus aureus''<br /> | ||
**[[5d6p]], [[5d6q]], [[5d7c]], [[5d7d]], [[5d7r]] - SaGyrB | **[[5d6p]], [[5d6q]], [[5d7c]], [[5d7d]], [[5d7r]] - SaGyrB N-terminal + ligand<br /> | ||
**[[5npk]], [[5npp]] - SaGyrB residues 410-1491 + DNA<br /> | **[[5npk]], [[5npp]] - SaGyrB residues 410-1491 + DNA<br /> | ||
**[[5mmn]], [[5mmo]], [[5mmp]] - EcGyrB | **[[5mmn]], [[5mmo]], [[5mmp]] - EcGyrB N-terminal + antibacterial<br /> | ||
**[[4urm]], [[4uro]] - SaGyrB N-terminal + antibiotic<br /> | **[[4urm]], [[4uro]] - SaGyrB N-terminal + antibiotic<br /> | ||
**[[ | **[[5zxm]] - SeGyrB N-terminal (mutant) <br /> | ||
**[[3cwv]] – GyrB truncated – ''Myxococcus xanthus''<br /> | **[[3cwv]] – GyrB truncated – ''Myxococcus xanthus''<br /> | ||
**[[4wub]], [[4wuc]], [[4wud]], [[4xtj]] - EcGyrB N-terminal<br /> | **[[4wub]], [[4wuc]], [[4wud]], [[4xtj]] - EcGyrB N-terminal<br /> | ||
**[[1kzn]], [[1ei1]], [[1aj6]] - EcGyrB N-terminal+ antibiotic<br /> | **[[1kzn]], [[1ei1]], [[1aj6]] - EcGyrB N-terminal+ antibiotic<br /> | ||
**[[4duh]], [[4zvi]], [[5l3j]] | **[[4duh]], [[4zvi]], [[5l3j]], [[6f8j]], [[4hyp]], [[6f86]], [[5z9q]], [[5z9p]], [[5z9b]], [[5z9e]], [[5z9f]], [[5z9l]], [[5z9m]], [[5z9n]], [[5z4o]], [[5z4h]] - EcGyrB N-terminal+ inhibitor<br /> | ||
**[[4prv]], [[4prx]], [[4pu9]] - EcGyrB N-terminal+ ADP<br /> | **[[4prv]], [[4prx]], [[4pu9]] - EcGyrB N-terminal+ ADP<br /> | ||
**[[ | **[[5mmn]], [[5mmo]], [[5mmp]] - EcGyrB N-terminal + antibacterial<br /> | ||
**[[1kij]] – | **[[6f96]], [[6f94]] - EcGyrB N-terminal + inhibitor<br /> | ||
**[[4b6c]] - GyrB | **[[1kij]] – TtGyrB N-terminal+ antibiotic – ''Thermus thermophilus''<br /> | ||
**[[6enh]], [[6eng]] - TtGyrB ATPase domain + coumarine derivative<br /> | |||
**[[4b6c]] - GyrB N-terminal – ''Mycobacterium smegmatis''<br /> | |||
**[[4gee]], [[4gfn]], [[4ggl]], [[4hxw]], [[4k4o]], [[4kfg]], [[4ksg]], [[4ksh]], [[4ktn]] – GyrB + inhibitor – ''Enterococcus faecalis''<br /> | **[[4gee]], [[4gfn]], [[4ggl]], [[4hxw]], [[4k4o]], [[4kfg]], [[4ksg]], [[4ksh]], [[4ktn]] – GyrB + inhibitor – ''Enterococcus faecalis''<br /> | ||
**[[3zkb]], [[3zkd]] - MtGyrB | **[[2zjt]], [[3ig0]], [[3m4i]] - MtGyrB C-terminal<br /> | ||
**[[3zm7]] - MtGyrB | **[[3zkb]], [[3zkd]] - MtGyrB N-terminal + AMPPNP<br /> | ||
**[[4bae]] - MtGyrB | **[[3zm7]] - MtGyrB N-terminal + AMPPCP<br /> | ||
**[[4bae]] - MtGyrB N-terminal (mutant) + inhibitor<br /> | |||
*Gyrase Subunit A+Subunit B | *Gyrase Subunit A+Subunit B | ||
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**[[2xct]] - SaGyrB C-terminal/SaGyrA N-terminal (mutant) +DNA+ antibiotic<br /> | **[[2xct]] - SaGyrB C-terminal/SaGyrA N-terminal (mutant) +DNA+ antibiotic<br /> | ||
**[[4tma]] - SaGyrB C-terminal- + SaGyrA N-terminal + Gyr inhibitor YACG<br /> | **[[4tma]] - SaGyrB C-terminal- + SaGyrA N-terminal + Gyr inhibitor YACG<br /> | ||
**[[5cdn]], [[5cdo]], [[5cdp]], [[6fqv]] – SaGyrA + SaGyrB + DNA<br /> | **[[5cdn]], [[5cdo]], [[5cdp]], [[6fqv]] – SaGyrA + SaGyrB + DNA<br /> | ||
**[[6qx2]], [[6qx1]], [[6qtp]], [[6qtk]] – SaGyrA + SaGyrB + DNA + inhibitor<br /> | |||
**[[5cdq]], [[6fqm]], [[6fqs]] - SaGyrB + GyrA + DNA + antibiotic<br /> | **[[5cdq]], [[6fqm]], [[6fqs]] - SaGyrB + GyrA + DNA + antibiotic<br /> | ||
**[[5bs3]], [[5iwi]], [[5iwm]] - SaGyrB + GyrA + DNA + inhibitor<br /> | |||
**[[6fm4]] - SaGyrB (mutant) + GyrA + DNA + inhibitor<br /> | |||
**[[5cdm]] – SaGyrA + SaGyrB (mutant) + DNA<br /> | **[[5cdm]] – SaGyrA + SaGyrB (mutant) + DNA<br /> | ||
**[[5cdr]] – SaGyrA (mutant) + SaGyrB (mutant) + DNA<br /> | **[[5cdr]] – SaGyrA (mutant) + SaGyrB (mutant) + DNA<br /> | ||
**[[4z2c]], [[4z2d]] - SpGyrB + GyrA + DNA – ''Streptococcus pneumoniae''<br /> | **[[4z2c]], [[4z2d]] - SpGyrB + GyrA + DNA – ''Streptococcus pneumoniae''<br /> | ||
**[[4z2e]] - SpGyrB + GyrA + DNA + antibiotic<br /> | **[[4z2e]] - SpGyrB + GyrA + DNA + antibiotic<br /> | ||
**[[ | **[[6gav]], [[6gau]] - MtGyrB + GyrA <br /> | ||
**[[5bs8]], [[5bta]], [[5btd]], [[5btg]], [[5btl]] - MtGyrB + GyrA + DNA + antibiotic<br /> | **[[5bs8]], [[5bta]], [[5btd]], [[5btg]], [[5btl]] - MtGyrB + GyrA + DNA + antibiotic<br /> | ||
**[[5btc]], [[5btf]], [[5bti]], [[5btn]] - MtGyrB + GyrA (mutant) + DNA + antibiotic<br /> | **[[5btc]], [[5btf]], [[5bti]], [[5btn]] - MtGyrB + GyrA (mutant) + DNA + antibiotic<br /> | ||
**[[3nuh]] – EcGyrA+EcGyrB<br /> | |||
*Reverse Gyrase | *Reverse Gyrase | ||
Revision as of 13:20, 21 July 2019
FunctionGyrase (Gyr) is a type of topoisomerase II in prokaryotes which unwinds double stranded DNA. The DNA Gyr cutting allows the formation of a negative DNA supercoil which enables replication of DNA[1] Gyr consists of 2 subunits: GyrA and GyrB. Reverse gyrase (Top-RG) is a type of topoisomerase I which catalyses the formation of positive DNA supercoil. [2] See also Isomerases. RelevanceGyrA inhibitor Ciprofloxacin is used as antibiotic drug. Fluoroquinolones are Gyr inhibitors used in treatment of multi drug-resistant tuberculosis[3] Structural highlights. A [4]. Water molecules shown as red spheres. 3D Structure of Gyrase
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3D Structure of Gyrase3D Structure of Gyrase
Updated on 21-July-2019
Additional ResourcesAdditional Resources
For additional information, see: Bacterial Infections
ReferencesReferences
- ↑ Reece RJ, Maxwell A. DNA gyrase: structure and function. Crit Rev Biochem Mol Biol. 1991;26(3-4):335-75. PMID:1657531 doi:http://dx.doi.org/10.3109/10409239109114072
- ↑ Napoli A, Valenti A, Salerno V, Nadal M, Garnier F, Rossi M, Ciaramella M. Functional interaction of reverse gyrase with single-strand binding protein of the archaeon Sulfolobus. Nucleic Acids Res. 2005 Jan 26;33(2):564-76. Print 2005. PMID:15673717 doi:http://dx.doi.org/10.1093/nar/gki202
- ↑ Aubry A, Pan XS, Fisher LM, Jarlier V, Cambau E. Mycobacterium tuberculosis DNA gyrase: interaction with quinolones and correlation with antimycobacterial drug activity. Antimicrob Agents Chemother. 2004 Apr;48(4):1281-8. PMID:15047530
- ↑ Singh SB, Kaelin DE, Wu J, Miesel L, Tan CM, Meinke PT, Olsen D, Lagrutta A, Bradley P, Lu J, Patel S, Rickert KW, Smith RF, Soisson S, Wei C, Fukuda H, Kishii R, Takei M, Fukuda Y. Oxabicyclooctane-linked novel bacterial topoisomerase inhibitors as broad spectrum antibacterial agents. ACS Med Chem Lett. 2014 Mar 12;5(5):609-14. doi: 10.1021/ml500069w. eCollection, 2014 May 8. PMID:24900889 doi:http://dx.doi.org/10.1021/ml500069w