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9GEF

Experimental localization of metal-binding sites reveals the role of metal ions in the delafloxacin-stabilized streptococcus pneumoniae topoisomerase iv dna cleavage complex

PDB DOI: 10.2210/pdb9gef/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Streptococcus Pneumoniae , Synthetic Construct

Deposited: 2024-08-08
Deposition Author(s): Chayen, N.E. , Fisher, L.M. , Govada, L. , Mykhaylyk, V. , Najmudin, S. , Orr, C. , Pan, X.-S. , Sanderson, M.R. , Wagner, A. , Wang, B.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.62 Å

9gef
Literature

Experimental localization of metal-binding sites reveals the role of metal ions in the delafloxacin-stabilized streptococcus pneumoniae topoisomerase iv dna cleavage complex

Chayen, N.E. , Fisher, L.M. , Govada, L. , Mykhaylyk, V. , Najmudin, S. , Orr, C. , Pan, X.-S. , Sanderson, M.R. , Wagner, A. , Wang, B.

Primary Citation of Related Structures: 9GEF


Proteins
Molecule Chains Sequence Length Organism Sequence
DNA TOPOISOMERASE (ATP-HYDROLYZING),DNA TOPOISOMERASE 4 A 723 Streptococcus Pneumoniae , Synthetic Construct LLSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGVGADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVEAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGELEELRKQFGKGATLQRYKGLGEMNADQLWETTMNPETRTLIRVTIEDLARAERRVNVLMGDKVEPRRKWIEDNVKFTLEEATVFHMSNIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKSAKSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEARLSEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPNLLVNGSTGISAGYATDIPPHNLAEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAIIQGRDEIKKAYETGKGRVVVRSKTEIEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIELKKDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPILSSYIAHRREVILARSRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAKENLKVSYDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMKKELREVKKKFATPRLSSLEDT
DNA TOPOISOMERASE (ATP-HYDROLYZING),DNA TOPOISOMERASE 4 B 723 Streptococcus Pneumoniae , Synthetic Construct LLSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGVGADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVEAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGELEELRKQFGKGATLQRYKGLGEMNADQLWETTMNPETRTLIRVTIEDLARAERRVNVLMGDKVEPRRKWIEDNVKFTLEEATVFHMSNIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKSAKSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEARLSEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPNLLVNGSTGISAGYATDIPPHNLAEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAIIQGRDEIKKAYETGKGRVVVRSKTEIEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIELKKDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPILSSYIAHRREVILARSRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAKENLKVSYDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMKKELREVKKKFATPRLSSLEDT

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
DNA (5'-D(*TP*GP*TP*GP*GP*AP*T)-3') e 7 NA TGTGGAT
DNA (5'-D(P*GP*GP*TP*TP*AP*TP*CP*CP*AP*CP*A)-3') f 11 NA GGTTATCCACA
DNA (5'-D(*GP*TP*AP*AP*TP*AP*C)-3') g 7 NA GTAATAC
DNA (5'-D(P*AP*AP*CP*CP*GP*TP*AP*TP*TP*AP*C)-3') h 11 NA AACCGTATTAC
Experimental Data

Method: X-RAY DIFFRACTION

Deposited Date: 2024-08-08
Deposition Author(s): Chayen, N.E. , Fisher, L.M. , Govada, L. , Mykhaylyk, V. , Najmudin, S. , Orr, C. , Pan, X.-S. , Sanderson, M.R. , Wagner, A. , Wang, B.