Author details

Full Name

Turkan Haliloglu

Affiliation

ORCID

Career Start Year

1997

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37385079	Deciphering the dynamic codes: Advances in biomolecular modeling and simulation.		2023
35674396	Prediction of allosteric communication pathways in proteins.		2022
35644497	Subsets of Slow Dynamic Modes Reveal Global Information Sources as Allosteric Sites.	Journal of Molecular Biology	2022
34349176	Structural insight into host plasma membrane association and assembly of HIV-1 matrix protein.	Scientific Reports	2021
33914546	Global Dynamics Renders Protein Sites with High Functional Response.	Journal of Physical Chemistry B	2021
33515600	Oncogenic mutations on Rac1 affect global intrinsic dynamics underlying GTP and PAK1 binding.	Biophysical Journal	2021
33550612	Protein dynamics analysis identifies candidate cancer driver genes and mutations in TCGA data.	Proteins	2021
33231066	Local and Global Motions Underlying Antibiotic Binding in Bacterial Ribosome.	Journal of Chemical Information and Modeling	2020
32320672	Distinct Allosteric Networks Underlie Mechanistic Speciation of ABC Transporters.	Structure	2020
30785643	Protein dynamics analysis reveals that missense mutations in cancer-related genes appear frequently on hinge-neighboring residues.	Proteins	2019
29915236	Single-molecule probing of the conformational homogeneity of the ABC transporter BtuCD.	Nature Chemical Biology	2018
28082425	Cullin neddylation may allosterically tune polyubiquitin chain length and topology.	Biochem J	2017
26338442	Allosteric Dynamic Control of Binding.	Biophysical Journal	2015
25685193	Drug-resistant HIV-1 protease regains functional dynamics through cleavage site coevolution.	Evol Appl	2015
26269288	Changes to the dynamic nature of hemagglutinin and the emergence of the 2009 pandemic H1N1 influenza virus.	Scientific Reports	2015
26506003	DynaFace: Discrimination between Obligatory and Non-obligatory Protein-Protein Interactions Based on the Complex's Dynamics.	PLoS Computational Biology	2015
26254902	Adaptability of protein structures to enable functional interactions and evolutionary implications.	Curr Opin Struct Biol	2015
26417087	NhaA antiporter functions using 10 helices, and an additional 2 contribute to assembly/stability.	Proceedings of the National Academy of Sciences of the United States of America	2015
24922573	Emergence and transmission of arbovirus evolutionary intermediates with epidemic potential.	Cell Host Microbe	2014
25458835	Structural and dynamics aspects of ASC speck assembly.	Structure	2014
25474149	Structure, dynamics and implied gating mechanism of a human cyclic nucleotide-gated channel.	PLoS Comput Biol	2014
24940783	Features of large hinge-bending conformational transitions. Prediction of closed structure from open state.	Biophysical Journal	2014
23874183	Dynamic fluctuations provide the basis of a conformational switch mechanism in apo cyclic AMP receptor protein.	PLoS Computational Biology	2013
24023934	Hot spots in a network of functional sites.	PLoS ONE	2013
23742907	MCPath: Monte Carlo path generation approach to predict likely allosteric pathways and functional residues.	Nucleic Acids Research	2013
24932138	The Transmembrane Helix Tilt May Be Determined by the Balance between Precession Entropy and Lipid Perturbation.	Journal of Chemical Theory and Computation	2012
22438798	Conformational control of the binding of the transactivation domain of the MLL protein and c-Myb to the KIX domain of CREB.	PLoS Comput Biol	2012
22695797	Monte Carlo simulations of peptide-membrane interactions with the MCPep web server.	Nucleic Acids Research	2012
22431724	A model-structure of a periplasm-facing state of the NhaA antiporter suggests the molecular underpinnings of pH-induced conformational changes.	Journal of Biological Chemistry	2012
22771213	How does KCNE1 regulate the Kv7.1 potassium channel? Model-structure, mutations, and dynamics of the Kv7.1-KCNE1 complex.	Structure	2012
22712830	Extreme entropy-enthalpy compensation in a drug-resistant variant of HIV-1 protease.	ACS Chem Biol	2012
24348205	HIV-1 Protease and Substrate Coevolution Validates the Substrate Envelope As the Substrate Recognition Pattern.	J Chem Theory Comput	2012
21742258	Dynamic allostery: linkers are not merely flexible.	Structure	2011
21216249	Alternative allosteric mechanisms can regulate the substrate and E2 in SUMO conjugation.	J Mol Biol	2011
21762811	Dynamics of preferential substrate recognition in HIV-1 protease: redefining the substrate envelope.	J Mol Biol	2011
22001016	Community-wide assessment of protein-interface modeling suggests improvements to design methodology.	J Mol Biol	2011
20628622	Predicting important residues and interaction pathways in proteins using Gaussian Network Model: binding and stability of HLA proteins.	PLoS Computational Biology	2010
20865051	A mechanistic view of the role of E3 in sumoylation.	PLoS Comput Biol	2010
20816079	Rationale for more diverse inhibitors in competition with substrates in HIV-1 protease.	Biophys J	2010
20534491	C(alpha)-trace model of the transmembrane domain of human copper transporter 1, motion and functional implications.	Proceedings of the National Academy of Sciences of the United States of America	2010
20483326	Independent and cooperative motions of the Kv1.2 channel: voltage sensing and gating.	Biophysical Journal	2010
20478828	DNABINDPROT: fluctuation-based predictor of DNA-binding residues within a network of interacting residues.	Nucleic Acids Research	2010
20542913	MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data.	Nucleic Acids Res	2010
19840377	Machine learning integration for predicting the effect of single amino acid substitutions on protein stability.	BMC Struct Biol	2009
19443950	Folding pathways explored with artificial potential functions.	Physical Biology	2009
19257794	Analysis of correlations between energy and residue fluctuations in native proteins and determination of specific sites for binding.	Physical Review Letters	2009
18643462	Prediction of binding sites in receptor-ligand complexes with the Gaussian Network Model.	Physical Review Letters	2008
19031068	What can we learn from highly connected beta-rich structures for structural interface design?	Methods Mol Biol	2008
17847101	HingeProt: automated prediction of hinges in protein structures.	Proteins	2008
18676657	Conformational transition pathways explored by Monte Carlo simulation integrated with collective modes.	Biophysical Journal	2008