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8QMC

High resolution structure of the streptococcus pneumoniae topoisomerase iv-complex with the v-site 18mer dsdna and novel fluoroquinolone delafloxacin

PDB DOI: 10.2210/pdb8qmc/pdb

Classification: ISOMERASE
Organism(s): Streptococcus Pneumoniae , Synthetic Construct

Deposited: 2023-09-21
Deposition Author(s): Chayen, N.E. , Fisher, L.M. , Najmudin, S. , Pan, X.S. , Sanderson, M.R. , Wang, B.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.402 Å

8qmc
Literature

High resolution structure of the streptococcus pneumoniae topoisomerase iv-complex with the v-site 18mer dsdna and novel fluoroquinolone delafloxacin

Chayen, N.E. , Fisher, L.M. , Najmudin, S. , Pan, X.S. , Sanderson, M.R. , Wang, B.

Primary Citation of Related Structures: 8QMC


Proteins
Molecule Chains Sequence Length Organism Sequence
DNA topoisomerase (ATP-hydrolyzing),DNA topoisomerase 4 subunit A A 742 Streptococcus Pneumoniae , Synthetic Construct MKNKKDKGLLSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGVGADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVEAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGELEELRKQFGKGATLQRYKGLGEMNADQLWETTMNPETRTLIRVTIEDLARAERRVNVLMGDKVEPRRKWIEDNVKFTLEEATVFHMSNIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKSAKSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEARLSEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPNLLVNGSTGISAGYATDIPPHNLAEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAIIQGRDEIKKAYETGKGRVVVRSKTEIEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIELKKDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPILSSYIAHRREVILARSRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAKENLKVSYDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMKKELREVKKKFATPRLSSLEDTAKALEHHHHHH
DNA topoisomerase (ATP-hydrolyzing),DNA topoisomerase 4 subunit A B 742 Streptococcus Pneumoniae , Synthetic Construct MKNKKDKGLLSGKLTPAQSKNPAKNELYLVEGDSAGGSAKQGRDRKFQAILPLRGKVINTAKAKMADILKNEEINTMIYTIGAGVGADFSIEDANYDKIIIMTDADTDGAHIQTLLLTFFYRYMRPLVEAGHVYIALPPLYKMSKGKGKKEEVAYAWTDGELEELRKQFGKGATLQRYKGLGEMNADQLWETTMNPETRTLIRVTIEDLARAERRVNVLMGDKVEPRRKWIEDNVKFTLEEATVFHMSNIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDSNTFDKSYRKSAKSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMHGNNGSMDGDPPAAMRYTEARLSEIAGYLLQDIEKKTVPFAWNFDDTEKEPTVLPAAFPNLLVNGSTGISAGYATDIPPHNLAEVIDAAVYMIDHPTAKIDKLMEFLPGPDFPTGAIIQGRDEIKKAYETGKGRVVVRSKTEIEKLKGGKEQIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIELKKDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPILSSYIAHRREVILARSRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAKENLKVSYDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMKKELREVKKKFATPRLSSLEDTAKALEHHHHHH

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

Method: X-RAY DIFFRACTION

Deposited Date: 2023-09-21
Deposition Author(s): Chayen, N.E. , Fisher, L.M. , Najmudin, S. , Pan, X.S. , Sanderson, M.R. , Wang, B.