1kij
From Proteopedia
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|PDB= 1kij |SIZE=350|CAPTION= <scene name='initialview01'>1kij</scene>, resolution 2.30Å | |PDB= 1kij |SIZE=350|CAPTION= <scene name='initialview01'>1kij</scene>, resolution 2.30Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=FMT:FORMIC+ACID'>FMT</scene>, <scene name='pdbligand=NOV:NOVOBIOCIN'>NOV</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/DNA_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_topoisomerase_(ATP-hydrolyzing) DNA topoisomerase (ATP-hydrolyzing)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.99.1.3 5.99.1.3] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kij FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kij OCA], [http://www.ebi.ac.uk/pdbsum/1kij PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1kij RCSB]</span> | ||
}} | }} | ||
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[[Category: Moras, D.]] | [[Category: Moras, D.]] | ||
[[Category: Oudet, P.]] | [[Category: Oudet, P.]] | ||
| - | [[Category: FMT]] | ||
| - | [[Category: NOV]] | ||
[[Category: gyrase b-coumarin complex]] | [[Category: gyrase b-coumarin complex]] | ||
[[Category: topoisomerase]] | [[Category: topoisomerase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:49:04 2008'' |
Revision as of 18:49, 30 March 2008
| |||||||
| , resolution 2.30Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , | ||||||
| Activity: | DNA topoisomerase (ATP-hydrolyzing), with EC number 5.99.1.3 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of the 43K ATPase domain of Thermus thermophilus gyrase B in complex with novobiocin
Overview
DNA gyrase forms an A(2)B(2) tetramer involved in DNA replication, repair, recombination, and transcription in which the B subunit catalyzes ATP hydrolysis. The Thermus thermophilus and Escherichia coli gyrases are homologues and present the same catalytic activity. When compared with that of the E. coli 43K-5'-adenylyl-beta,gamma-imidodiphosphate complex, the crystal structure of Gyrase B 43K ATPase domain in complex with novobiocin, one of the most potent inhibitors of gyrase shows large conformational changes of the subdomains within the dimer. The stabilization of loop 98-118 closing the active site through dimeric contacts and interaction with domain 2 allows to observe novobiocin-protein interactions that could not be seen in the 24K-inhibitor complexes. Furthermore, this loop adopts a position which defines an "open" conformation of the active site in absence of ATP, in contrast with the "closed" conformation adopted upon ATP binding. All together, these results indicate how the subdomains may propagate conformational changes from the active site and provide crucial information for the design of more specific inhibitors.
About this Structure
1KIJ is a Single protein structure of sequence from Thermus thermophilus. Full crystallographic information is available from OCA.
Reference
An open conformation of the Thermus thermophilus gyrase B ATP-binding domain., Lamour V, Hoermann L, Jeltsch JM, Oudet P, Moras D, J Biol Chem. 2002 May 24;277(21):18947-53. Epub 2002 Feb 15. PMID:11850422
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