| scholarly article | Q13442814 |
| P8978 | DBLP publication ID | journals/jcc/IidaMKHMGFNH16 |
| P356 | DOI | 10.1002/JCC.24494 |
| P932 | PMC publication ID | 5242334 |
| P698 | PubMed publication ID | 27735058 |
| P50 | author | Yoshifumi Fukunishi | Q55405001 |
| Haruki Nakamura | Q60465926 | ||
| P2093 | author name string | Yuji Goto | |
| Hironobu Hojo | |||
| Junichi Higo | |||
| Hiroya Muta | |||
| Tadaaki Mashimo | |||
| Takashi Kurosawa | |||
| Shinji Iida | |||
| P2860 | cites work | Multicanonical ensemble: A new approach to simulate first-order phase transitions | Q21698968 |
| Intrinsically Disordered Proteins in Human Diseases: Introducing the D 2 Concept | Q22061726 | ||
| Structure of the MDM2 oncoprotein bound to the p53 tumor suppressor transactivation domain | Q24314763 | ||
| A series of PDB related databases for everyday needs | Q24613221 | ||
| Intrinsically disordered proteins are potential drug targets | Q24633854 | ||
| Comparison of simple potential functions for simulating liquid water | Q26778447 | ||
| Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs) | Q26823798 | ||
| Acetylation of lysine 382 and phosphorylation of serine 392 in p53 modulate the interaction between p53 and MDC1 in vitro | Q27303150 | ||
| Structure of the negative regulatory domain of p53 bound to S100B(betabeta) | Q27625154 | ||
| Structure of a Sir2 enzyme bound to an acetylated p53 peptide | Q27639892 | ||
| Specificity determinants of recruitment peptides bound to phospho-CDK2/cyclin A | Q27640246 | ||
| Structural mechanism of the bromodomain of the coactivator CBP in p53 transcriptional activation | Q27643078 | ||
| ON THE NATURE OF ALLOSTERIC TRANSITIONS: A PLAUSIBLE MODEL | Q27861036 | ||
| Systematic validation of protein force fields against experimental data | Q28731830 | ||
| Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes | Q29397708 | ||
| UniProt: a hub for protein information | Q29547457 | ||
| Accurate secondary structure prediction and fold recognition for circular dichroism spectroscopy | Q30375263 | ||
| Understanding protein non-folding. | Q30385084 | ||
| Single-stranded DNA mimicry in the p53 transactivation domain interaction with replication protein A | Q30446685 | ||
| Simulation study on the disordered state of an Alzheimer's beta amyloid peptide Abeta(12 36) in water consisting of random-structural, beta-structural, and helical clusters. | Q31119925 | ||
| Flexible nets: disorder and induced fit in the associations of p53 and 14-3-3 with their partners | Q33325589 | ||
| Binding of two intrinsically disordered peptides to a multi-specific protein: a combined Monte Carlo and molecular dynamics study | Q34426339 | ||
| Fuzzy complexes: polymorphism and structural disorder in protein-protein interactions | Q34720702 | ||
| Speeding molecular recognition by using the folding funnel: the fly-casting mechanism | Q35189399 | ||
| Functional advantages of dynamic protein disorder | Q36101573 | ||
| Dynamic energy landscape view of coupled binding and protein conformational change: induced-fit versus population-shift mechanisms | Q36837448 | ||
| Hub promiscuity in protein-protein interaction networks | Q37756001 | ||
| Conformational Ensembles of an Intrinsically Disordered Protein pKID with and without a KIX Domain in Explicit Solvent Investigated by All-Atom Multicanonical Molecular Dynamics | Q39869280 | ||
| Mechanism of coupled folding and binding of an intrinsically disordered protein | Q40210194 | ||
| Molecular Dynamics Simulations Accelerated by GPU for Biological Macromolecules with a Non-Ewald Scheme for Electrostatic Interactions. | Q40291829 | ||
| Multi-scale ensemble modeling of modular proteins with intrinsically disordered linker regions: application to p53. | Q42183058 | ||
| Side-chain conformational changes of transcription factor PhoB upon DNA binding: a population-shift mechanism | Q42932843 | ||
| Potential conformational heterogeneity of p53 bound to S100B(ββ). | Q43968411 | ||
| Modeling the relationship between the p53 C-terminal domain and its binding partners using molecular dynamics. | Q44959864 | ||
| A virtual-system coupled multicanonical molecular dynamics simulation: principles and applications to free-energy landscape of protein-protein interaction with an all-atom model in explicit solvent. | Q50992415 | ||
| Simple and accurate scheme to compute electrostatic interaction: zero-dipole summation technique for molecular system and application to bulk water. | Q51333111 | ||
| Molecular dynamics scheme for precise estimation of electrostatic interaction via zero-dipole summation principle. | Q51574046 | ||
| Intrinsically disordered p53 extreme C-terminus binds to S100B(betabeta) through "fly-casting". | Q51822571 | ||
| Group additive contributions to the alcohol-induced alpha-helix formation of melittin: implication for the mechanism of the alcohol effects on proteins. | Q52249032 | ||
| A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules | Q55918670 | ||
| Molecular dynamics, Langevin and hydrid Monte Carlo simulations in a multicanonical ensemble | Q57906319 | ||
| Mechanism of helix induction by trifluoroethanol: a framework for extrapolating the helix-forming properties of peptides from trifluoroethanol/water mixtures back to water | Q73470090 | ||
| Structure of the Tfb1/p53 complex: Insights into the interaction between the p62/Tfb1 subunit of TFIIH and the activation domain of p53 | Q79773486 | ||
| Theory for trivial trajectory parallelization of multicanonical molecular dynamics and application to a polypeptide in water | Q83676966 | ||
| A free-energy landscape for coupled folding and binding of an intrinsically disordered protein in explicit solvent from detailed all-atom computations | Q84232798 | ||
| Posttranslational modifications affect the interaction of S100 proteins with tumor suppressor p53 | Q84696189 | ||
| P433 | issue | 31 | |
| P921 | main subject | energy landscape | Q5377166 |
| P304 | page(s) | 2687-2700 | |
| P577 | publication date | 2016-10-13 | |
| P1433 | published in | Journal of Computational Chemistry | Q3186908 |
| P1476 | title | Variation of free-energy landscape of the p53 C-terminal domain induced by acetylation: Enhanced conformational sampling | |
| P478 | volume | 37 |
| Q57492347 | Adaptive Steered Molecular Dynamics Combined With Protein Structure Networks Revealing the Mechanism of Y68I/G109P Mutations That Enhance the Catalytic Activity of D-psicose 3-Epimerase From |
| Q58583416 | Insight into novel clinical mutants of RpsA-S324F, E325K, and G341R of associated with pyrazinamide resistance |
| Q92347216 | Mechanistic Insights into the Effect of Ligands on Structural Stability and Selectivity of Sulfotransferase 2A1 (SULT2A1) |
| Q47658579 | Multi-dimensional virtual system introduced to enhance canonical sampling |
| Q64262145 | Structural and free energy landscape of novel mutations in ribosomal protein S1 (rpsA) associated with pyrazinamide resistance |
| Q91866615 | Studies on Molecular Dynamics of Intrinsically Disordered Proteins and Their Fuzzy Complexes: A Mini-Review |
| Q52614614 | The transient manifold structure of the p53 extreme C-terminal domain: insight into disorder, recognition, and binding promiscuity by molecular dynamics simulations. |
| Q41982634 | Understanding the differences of the ligand binding/unbinding pathways between phosphorylated and non-phosphorylated ARH1 using molecular dynamics simulations |
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