Research graph
References from Unveiling the interdomain dynamics of type II DNA topoisomerase through all-atom simulations: Implications for understanding its catalytic cycle. Local targets link to admitted publications; unresolved targets remain external evidence.
10.1038/nrc2608
10.1038/nrc2608 · External reference
10.1038/nrm3228
10.1038/nrm3228 · External reference
10.1017/s0033583598003424
10.1017/s0033583598003424 · External reference
10.1038/nrm831
10.1038/nrm831 · External reference
10.1146/annurev.biochem.70.1.369
10.1146/annurev.biochem.70.1.369 · External reference
10.1017/s003358350800468x
10.1017/s003358350800468x · External reference
10.1038/nrm.2016.111
10.1038/nrm.2016.111 · External reference
10.1016/s0167-4781(98)00128-6
10.1016/s0167-4781(98)00128-6 · External reference
10.1016/j.mrfmmm.2007.06.009
10.1016/j.mrfmmm.2007.06.009 · External reference
10.1038/nrc2607
10.1038/nrc2607 · External reference
Type II DNA topoisomerase from Saccharomyces cerevisiae is a stable dimer
10.1021/bi970152f · 1997 · External reference
10.1002/bies.202000286
10.1002/bies.202000286 · External reference
10.1038/nsmb.2388
10.1038/nsmb.2388 · External reference
The N-terminal domain of human topoisomerase IIalpha is a DNA-dependent ATPase
10.1021/bi9818321 · 1998 · External reference
10.1073/pnas.96.24.13685
10.1073/pnas.96.24.13685 · External reference
10.1016/s0968-0004(99)01503-0
10.1016/s0968-0004(99)01503-0 · External reference
10.1074/jbc.275.17.13041
10.1074/jbc.275.17.13041 · External reference
The QTK loop is essential for the communication between the N-terminal ATPase domain and the central cleavage-ligation region in human topoisomerase II alpha
10.1021/bi9005978 · 2009 · External reference
10.1016/j.sbi.2012.11.011
10.1016/j.sbi.2012.11.011 · External reference
10.1073/pnas.1115704109
10.1073/pnas.1115704109 · External reference
10.1038/nature08974
10.1038/nature08974 · External reference
The interplay between DNA topoisomerase 2alpha post-translational modifications and drug resistance
2020 · External reference
Post-translational modifications in DNA topoisomerase 2alpha highlight the role of a eukaryote-specific residue in the ATPase domain
10.1038/s41598-018-27606-8 · 2018 · External reference
DNA transport by a type II DNA topoisomerase: evidence in favor of a two-gate mechanism
10.1016/0092-8674(94)90222-4 · 1994 · External reference
DNA transport by a type II topoisomerase: direct evidence for a two-gate mechanism
10.1073/pnas.93.9.4057 · 1996 · External reference
10.1074/jbc.m402555200
10.1074/jbc.m402555200 · External reference
10.1039/c003759a
10.1039/c003759a · External reference
Probing conformational changes in human DNA topoisomerase IIalpha by pulsed alkylation mass spectrometry
10.1074/jbc.m112.377606 · 2012 · External reference
10.1093/nar/gkr258
10.1093/nar/gkr258 · External reference
10.1042/bst0380438
10.1042/bst0380438 · External reference
Energy coupling in type II topoisomerases: why do they hydrolyze ATP?
10.1021/bi700789g · 2007 · External reference
A human topoisomerase II alpha heterodimer with only one ATP binding site can go through successive catalytic cycles
10.1074/jbc.m210332200 · 2003 · External reference
Bioassays and in silico methods in the identification of human DNA topoisomerase IIα inhibitors
10.2174/0929867325666180306165725 · 2018 · External reference
10.1002/cpz1.250
10.1002/cpz1.250 · External reference
10.1038/nature06396
10.1038/nature06396 · External reference
10.1038/s41467-018-05406-y
10.1038/s41467-018-05406-y · External reference
Structure and mechanism of DNA topoisomerase II
10.1038/379225a0 · 1996 · External reference
10.1074/jbc.m506520200
10.1074/jbc.m506520200 · External reference
10.1016/j.str.2022.05.009
10.1016/j.str.2022.05.009 · External reference
10.1038/s41467-021-23136-6
10.1038/s41467-021-23136-6 · External reference
10.1021/acs.biochem.1c00240
10.1021/acs.biochem.1c00240 · External reference
10.1021/cr200325f
10.1021/cr200325f · External reference
10.1016/s0167-4781(98)00139-0
10.1016/s0167-4781(98)00139-0 · External reference
10.1124/pr.56.2.6
10.1124/pr.56.2.6 · External reference
Recent developments of DNA poisons - human DNA topoisomerase IIα inhibitors - as anticancer agents
10.2174/1381612811319130016 · 2013 · External reference
Recent advances in the development of catalytic inhibitors of human DNA topoisomerase IIα as novel anticancer agents
10.2174/092986713804999402 · 2013 · External reference
Dynophore-based approach in virtual screening: a case of human DNA topoisomerase iialpha
10.3390/ijms222413474 · 2021 · External reference
10.1016/j.ejmech.2019.04.055
10.1016/j.ejmech.2019.04.055 · External reference
10.1021/acs.jcim.0c00202
10.1021/acs.jcim.0c00202 · External reference
10.1021/acs.jmedchem.7b01202
10.1021/acs.jmedchem.7b01202 · External reference
10.1016/j.jmb.2012.07.014
10.1016/j.jmb.2012.07.014 · External reference
10.1146/annurev-biophys-042910-155245
10.1146/annurev-biophys-042910-155245 · External reference
10.1126/science.1187409
10.1126/science.1187409 · External reference
10.1016/j.str.2009.09.001
10.1016/j.str.2009.09.001 · External reference
10.1038/s43588-021-00060-9
10.1038/s43588-021-00060-9 · External reference
Catalytic mechanism of ATP hydrolysis in the ATPase domain of human DNA topoisomerase iialpha
10.1021/acs.jcim.2c00303 · 2022 · External reference
10.1038/onc.2014.332
10.1038/onc.2014.332 · External reference
Pre-steady-state analysis of ATP hydrolysis by Saccharomyces cerevisiae DNA topoisomerase II. 1. A DNA-dependent burst in ATP hydrolysis
10.1021/bi9729099 · 1998 · External reference
Collective motions in proteins: a covariance analysis of atomic fluctuations in molecular dynamics and normal mode simulations
10.1002/prot.340110305 · 1991 · External reference
Essential dynamics: foundation and applications
10.1002/wcms.1099 · 2012 · External reference
10.1093/nar/gkn994
10.1093/nar/gkn994 · External reference
10.1093/nar/gkn937
10.1093/nar/gkn937 · External reference
Next generation 3D pharmacophore modeling
10.1002/wcms.1468 · 2020 · External reference
10.1023/a:1008763014207
10.1023/a:1008763014207 · External reference
10.1038/s41467-018-05005-x
10.1038/s41467-018-05005-x · External reference
Large-scale conformational changes and protein function: breaking the in silico barrier
10.3389/fmolb.2019.00117 · 2019 · External reference
DNA G-segment bending is not the sole determinant of topology simplification by type II DNA topoisomerases
10.1038/srep06158 · 2014 · External reference
A standard reference frame for the description of nucleic acid base-pair geometry
10.1006/jmbi.2001.4987 · 2001 · External reference
The nucleic acid database. A comprehensive relational database of three-dimensional structures of nucleic acids
10.1016/s0006-3495(92)81649-1 · 1992 · External reference
Structural basis of gate-DNA breakage and resealing by type II topoisomerases
10.1371/annotation/deacc2fd-665b-4736-b668-dc69a38bb4f9 · 2010 · External reference
10.1093/nar/gkt749
10.1093/nar/gkt749 · External reference
10.1093/nar/gkv672
10.1093/nar/gkv672 · External reference
10.1006/jmbi.1993.1626
10.1006/jmbi.1993.1626 · External reference
Modeller: generation and refinement of homology-based protein structure models
10.1016/s0076-6879(03)74020-8 · 2003 · External reference
10.1110/ps.062416606
10.1110/ps.062416606 · External reference
10.1093/nar/gks375
10.1093/nar/gks375 · External reference
10.1093/nar/gki464
10.1093/nar/gki464 · External reference
10.1002/prot.20922
10.1002/prot.20922 · External reference
10.1063/1.445869
10.1063/1.445869 · External reference
10.1021/acs.jctc.5b00255
10.1021/acs.jctc.5b00255 · External reference
10.1038/nmeth.3658
10.1038/nmeth.3658 · External reference
10.1002/jcc.10262
10.1002/jcc.10262 · External reference
10.1021/j100384a009
10.1021/j100384a009 · External reference
Application of RESP charges to calculate conformational energies, hydrogen bond energies, and free energies of solvation
10.1021/ja00074a030 · 2002 · External reference
Application of the multimolecule and multiconformational RESP methodology to biopolymers: Charge derivation for DNA, RNA, and proteins
10.1002/jcc.540161106 · 1995 · External reference
Unresolved reference
External reference
10.1103/physreva.33.3628
10.1103/physreva.33.3628 · External reference
10.1063/1.448118
10.1063/1.448118 · External reference
10.1063/1.464397
10.1063/1.464397 · External reference
Molecular-dynamics study of atomic motions in water
10.1103/physrevb.31.2643 · 1985 · External reference
Large-scape molecular simulations for highly parallel infrastructures, faculty of informatics, Masaryk University
2014 · External reference
10.1016/0021-9991(77)90098-5
10.1016/0021-9991(77)90098-5 · External reference
Unresolved reference
External reference
10.1093/bioinformatics/btl461
10.1093/bioinformatics/btl461 · External reference
Unresolved reference
External reference
10.1093/nar/gkr316
10.1093/nar/gkr316 · External reference
10.1016/0263-7855(96)00018-5
10.1016/0263-7855(96)00018-5 · External reference
Unresolved reference
External reference
visualization system for exploratory research and analysis
10.1002/jcc.20084 · 2004 · External reference
10.1093/bioinformatics/btr168
10.1093/bioinformatics/btr168 · External reference
10.1002/prot.20784
10.1002/prot.20784 · External reference
10.1021/ct700119m
10.1021/ct700119m · External reference
The MM/PBSA and MM/GBSA methods to estimate ligand-binding affinities
10.1517/17460441.2015.1032936 · 2015 · External reference
Recent developments and applications of the MMPBSA method
10.3389/fmolb.2017.00087 · 2017 · External reference
Structural insight into inhibition of CsrA-RNA interaction revealed by docking, molecular dynamics and free energy calculations
2017 · External reference
10.1021/ci049885e
10.1021/ci049885e · External reference
