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An Information Portal to 105339 Biological Macromolecular Structures

Structural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases
Biology and Chemistry Report
3FOE
  •   Structure Details   Hide

    Structure Keywords

    Keywords ISOMERASE/DNA
    Text quinolone, topoisomerase, DNA, protein-DNA cleavage complex, Streptococcus pneumoniae, clinafloxacin, Cell membrane, DNA-binding, Isomerase, Membrane, ATP-binding, Nucleotide-binding, ISOMERASE-DNA COMPLEX

    Polymeric Molecules

    Chain A,B
    Description DNA topoisomerase 4 subunit A 
    Fragment residues 1-488 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 56456.1 
    Source Method genetically manipulated  
    Entity Name ParC55, Topoisomerase IV subunit A 
    Chain C,D
    Description DNA topoisomerase 4 subunit B 
    Fragment residues 404-647 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 30415.9 
    Source Method genetically manipulated  
    Entity Name ParE30, Topoisomerase IV subunit B 
    Chain E
    Description DNA (5'-D(P*AP*CP*CP*AP*AP*GP*GP*TP*CP*AP*TP*GP*AP*AP*T)-3') 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polydeoxyribonucleotide 
    Formula Weight 4602.1 
    Source Method synthetic  
    Chain F
    Description DNA (5'-D(P*AP*GP*TP*CP*AP*TP*TP*CP*AP*TP*GP*AP*CP*CP*TP*TP*GP*GP*T)-3') 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polydeoxyribonucleotide 
    Formula Weight 5810.8 
    Source Method synthetic  
    Chain G
    Description DNA (5'-D(P*CP*TP*GP*TP*TP*TP*TP*AP*CP*GP*TP*GP*CP*AP*T)-3') 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polydeoxyribonucleotide 
    Formula Weight 4566.0 
    Source Method synthetic  
    Chain H
    Description DNA (5'-D(P*GP*AP*CP*TP*AP*TP*GP*CP*AP*CP*GP*TP*AP*AP*AP*AP*CP*AP*G)-3') 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polydeoxyribonucleotide 
    Formula Weight 5846.9 
    Source Method synthetic  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    NFX  7-[(3R)-3-aminopyrrolidin-1-yl]-8-chloro-1-cyclopropyl-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid  C17 H17 Cl F N3 O3   365.79  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,B PARC_STRPN P72525     
    C,D PARE_STRPN P77956     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc Catalytic Site(s)
    A B  5.99.1.3        
    C D  5.99.1.3        
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,B
    GO ID   Ontology GO Term Definition
    6259   DNA Metabolic Process  Any Cellular Metabolic Process Involving Deoxyribonucleic Acid. This Is One of the Two Main Types of Nucleic Acid Consisting of a Long Unbranched Macromolecule Formed From One or More Commonly Two Strands of Linked Deoxyribonucleotides. 
    6265   DNA Topological Change  The Process in Which a Transformation Is Induced in the Topological Structure of a Double Stranded DNA Helix Resulting in a Change in Linking Number. 
    5694   Chromosome  A Structure Composed of a Very Long Molecule of DNA and Associated Proteins (e.g. Histones) That Carries Hereditary Information. 
    3677   DNA Binding  Any Molecular Function by Which a Gene Product Interacts Selectively and Non Covalently with DNA (deoxyribonucleic Acid). 
    3918   DNA topoisomerase type II (ATP-hydrolyzing) activity  Catalysis of a DNA Topological Transformation by Transiently Cleaving a Pair of Complementary DNA Strands to Form a Gate Through Which a Second Double Stranded DNA Segment Is Passed After Which the Severed Strands in the First DNA Segment Are Rejoined; Product Release Is Coupled to ATP Binding and Hydrolysis; Changes the Linking Number in Multiples of 2. 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 
    Chain C,D
    GO ID   Ontology GO Term Definition
    6265   DNA Topological Change  The Process in Which a Transformation Is Induced in the Topological Structure of a Double Stranded DNA Helix Resulting in a Change in Linking Number. 
    3677   DNA Binding  Any Molecular Function by Which a Gene Product Interacts Selectively and Non Covalently with DNA (deoxyribonucleic Acid). 
    3918   DNA topoisomerase type II (ATP-hydrolyzing) activity  Catalysis of a DNA Topological Transformation by Transiently Cleaving a Pair of Complementary DNA Strands to Form a Gate Through Which a Second Double Stranded DNA Segment Is Passed After Which the Severed Strands in the First DNA Segment Are Rejoined; Product Release Is Coupled to ATP Binding and Hydrolysis; Changes the Linking Number in Multiples of 2. 
    5524   ATP Binding  Interacting Selectively and Non Covalently with ATP Adenosine 5' Triphosphate a Universally Important Coenzyme and Enzyme Regulator. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain C,D
    Scientific Name Streptococcus pneumoniae  
    Gene pare, sp_0852
    Host Scientific Name Escherichia coli  


    Chain A,B
    Scientific Name Streptococcus pneumoniae  
    Gene parc, sp_0855
    Host Scientific Name Escherichia coli