3RAD	Isomerase Dna Antibiotic	date	Mar 28, 2011
title	Quinolone(Clinafloxacin)-Dna Cleavage Complex Of Type Iv Top From S. Pneumoniae
authors	I.Laponogov, X.S.Pan, D.A.Veselkov, K.E.Mcauley, L.M.Fisher, M.R.Sanderson
compound		source
Molecule: Dna Topoisomerase 4 Subunit A Chain: A, B Fragment: Unp Residues 1-488 Synonym: Topoisomerase Iv Subunit A Ec: 5.99.1.- Engineered: Yes		Organism_scientific: Streptococcus Pneumoniae Organism_taxid: 1313 Strain: 7785 Gene: Parc, Sp_0855 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet29a
Molecule: Dna Topoisomerase 4 Subunit B Chain: C, D Fragment: Unp Residues 404-647 Synonym: Topoisomerase Iv Subunit B Ec: 5.99.1.- Engineered: Yes		Organism_scientific: Streptococcus Pneumoniae Organism_taxid: 1313 Strain: 7785 Gene: Pare, Sp_0852 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet19b
Molecule: 5'-D(Cpaptpgpapapt)-3' Chain: E Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 5'-D(Papgptpcpaptptpcpaptpg)-3' Chain: F Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 5'-D(Cpgptpgpcpapt)-3' Chain: G Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 5'-D(Pgpapcptpaptpgpcpapcpg)-3' Chain: H Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 31 2 1	R_factor 0.177 R_Free 0.228
crystal cell	length a length b length c angle alpha angle beta angle gamma 157.128 157.128 211.091 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	3.35 Å
ligand	MG, NFX	enzyme	Isomerase E.C.5.99.1 BRENDA
Gene	SP ; SP
Gene Ontology	Chain Function Process Component A, B D, C
Primary reference	Exploring the active site of the Streptococcus pneumoniae topoisomerase IV-DNA cleavage complex with novel 7,8-bridged fluoroquinolones., Laponogov I, Pan XS, Veselkov DA, Cirz RT, Wagman A, Moser HE, Fisher LM, Sanderson MR, Open Biol. 2016 Sep;6(9). pii: rsob.160157. doi: 10.1098/rsob.160157. PMID:27655731

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (493 Kb) [Save to disk] Biological Unit Coordinates (3rad.pdb1.gz) 477 Kb LPC: Ligand-Protein Contacts for 3RAD CSU: Contacts of Structural Units for 3RAD Structure Factors (435 Kb) Retrieve 3RAD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3RAD from S2C, [Save to disk] Re-refined 3rad structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3RAD in 3D

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Visual 3D analysis of 3RAD

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3RAD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3rad_B] [3rad_D] [3rad] [3rad_H] [3rad_F] [3rad_G] [3rad_C] [3rad_A] [3rad_E] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3RAD: [TOP2c] [TOP4c ] by SMART

Other resources with information on 3RAD

Community annotation for 3RAD at PDBWiki (http://pdbwiki.org)

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