相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。Structure network-based landscape of rhodopsin misfolding by mutations and algorithmic prediction of small chaperone action
Angelo Felline et al.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL (2021)
webPSN v2.0: a webserver to infer fingerprints of structural communication in biomacromolecules
Angelo Felline et al.
NUCLEIC ACIDS RESEARCH (2020)
Dynamics and structural communication in the ternary complex of fully phosphorylated V2 vasopressin receptor, vasopressin, and β-arrestin 1
Luca Bellucci et al.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES (2020)
NAPS update: network analysis of molecular dynamics data and protein-nucleic acid complexes
Broto Chakrabarty et al.
NUCLEIC ACIDS RESEARCH (2019)
Interconnecting Flexibility, Structural Communication, and Function in RhoGEF Oncoproteins
Angelo Felline et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2019)
gRINN: a tool for calculation of residue interaction energies and protein energy network analysis of molecular dynamics simulations
Onur Sercinoglu et al.
NUCLEIC ACIDS RESEARCH (2018)
Protein Residue Networks from Energetic and Geometric Data: Are They Identical?
Vladimir Sladek et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2018)
A Small Chaperone Improves Folding and Routing of Rhodopsin Mutants Linked to Inherited Blindness
Petra Behnen et al.
ISCIENCE (2018)
Structural Determinants of Constitutive Activation of Gα Proteins: Transducin as a Paradigm
Angelo Feline et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2017)
An optimal distance cutoff for contact- based Protein Structure Networks using side- chain centers of mass
Juan Salamanca Viloria et al.
SCIENTIFIC REPORTS (2017)
MD-TASK: a software suite for analyzing molecular dynamics trajectories
David K. Brown et al.
BIOINFORMATICS (2017)
Protein Structure and Function: Looking through the Network of Side-Chain Interactions
Moitrayee Bhattacharyya et al.
CURRENT PROTEIN & PEPTIDE SCIENCE (2016)
MDN: A Web Portal for Network Analysis of Molecular Dynamics Simulations
Andre A. S. T. Ribeiro et al.
BIOPHYSICAL JOURNAL (2015)
Catching Functional Modes and Structural Communication in Dbl Family Rho Guanine Nucleotide Exchange Factors
Francesco Raimondi et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2015)
Molecular Dynamics Simulations and Structural Network Analysis of c-Abl and c-Src Kinase Core Proteins: Capturing Allosteric Mechanisms and Communication Pathways from Residue Centrality
Amanda Tse et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2015)
WebPSN: a web server for high-throughput investigation of structural communication in biomacromolecules
Michele Seeber et al.
BIOINFORMATICS (2015)
PyInteraph: A Framework for the Analysis of Interaction Networks in Structural Ensembles of Proteins
Matteo Tiberti et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2014)
Light on the structural communication in Ras GTPases
Francesco Raimondi et al.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2013)
A Mixed Protein Structure Network and Elastic Network Model Approach to Predict the Structural Communication in Biomolecular Systems: The PDZ2 Domain from Tyrosine Phosphatase 1E As a Case Study
Francesco Raimondi et al.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION (2013)
Molecular signatures of G-protein-coupled receptors
A. J. Venkatakrishnan et al.
NATURE (2013)
An automated approach to network features of protein structure ensembles
Moitrayee Bhattacharyya et al.
PROTEIN SCIENCE (2013)
Network and Atomistic Simulations Unveil the Structural Determinants of Mutations Linked to Retinal Diseases
Simona Mariani et al.
PLOS COMPUTATIONAL BIOLOGY (2013)
A Mechanistic Understanding of Allosteric Immune Escape Pathways in the HIV-1 Envelope Glycoprotein
Anurag Sethi et al.
PLOS COMPUTATIONAL BIOLOGY (2013)
Detection of allosteric signal transmission by information-theoretic analysis of protein dynamics
Alessandro Pandini et al.
FASEB JOURNAL (2012)
Allosteric Communication between the Pyridoxal 5′-Phosphate (PLP) and Heme Sites in the H2S Generator Human Cystathionine β-Synthase
Pramod Kumar Yadav et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2012)
xPyder: A PyMOL Plugin To Analyze Coupled Residues and Their Networks in Protein Structures
Marco Pasi et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2012)
Paths of long-range communication in the E2 enzymes of family 3: a molecular dynamics investigation
Elena Papaleo et al.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2012)
Conserved amino acids participate in the structure networks deputed to intramolecular communication in the lutropin receptor
Krassimira Angelova et al.
CELLULAR AND MOLECULAR LIFE SCIENCES (2011)
Wordom: A User-Friendly Program for the Analysis of Molecular Structures, Trajectories, and Free Energy Surfaces
Michele Seeber et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2011)
ASD: a comprehensive database of allosteric proteins and modulators
Zhimin Huang et al.
NUCLEIC ACIDS RESEARCH (2011)
Analyzing and visualizing residue networks of protein structures
Nadezhda T. Doncheva et al.
TRENDS IN BIOCHEMICAL SCIENCES (2011)
Interaction Energy Based Protein Structure Networks
M. S. Vijayabaskar et al.
BIOPHYSICAL JOURNAL (2010)
Structural insights into retinitis pigmentosa from unfolding simulations of rhodopsin mutants
Francesca Fanelli et al.
FASEB JOURNAL (2010)
Identification of an Allosteric Signaling Network within Tec Family Kinases
Raji E. Joseph et al.
JOURNAL OF MOLECULAR BIOLOGY (2010)
Allostery and conformational free energy changes in human tryptophanyl-tRNA synthetase from essential dynamics and structure networks
Moitrayee Bhattacharyya et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2010)
Intra and Inter-Molecular Communications Through Protein Structure Network
Saraswathi Vishveshwara et al.
CURRENT PROTEIN & PEPTIDE SCIENCE (2009)
Hidden dynamic allostery in a PDZ domain
Chad M. Petit et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Dynamical networks in tRNA: protein complexes
Anurag Sethi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Coupling between global dynamics and signal transduction pathways: a mechanism of allostery for chaperonin GroEL
Chakra Chennubhotla et al.
MOLECULAR BIOSYSTEMS (2008)
Revisiting youden's index as a useful measure of the misclassification error in meta-analysis of diagnostic studies
Dankmar Bohning et al.
STATISTICAL METHODS IN MEDICAL RESEARCH (2008)
A study of communication pathways in methionyl-tRNA synthetase by molecular dynamics simulations and structure network analysis
Amit Ghosh et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)
Signal propagation in proteins and relation to equilibrium fluctuations
Chakra Chennubhotla et al.
PLOS COMPUTATIONAL BIOLOGY (2007)
Anisotropic fluctuations of amino acids in protein structures: insights from X-ray crystallography and elastic network models
Eran Eyal et al.
BIOINFORMATICS (2007)
Network analysis of protein dynamics
Csaba Boede et al.
FEBS LETTERS (2007)
Biological network comparison using graphlet degree distribution
Natasa Przulj
BIOINFORMATICS (2007)
Residue centrality, functionally important residues, and active site shape: Analysis of enzyme and non-enzyme families
Antonio del Sol et al.
PROTEIN SCIENCE (2006)
Generalized correlation for biomolecular dynamics
OF Lange et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2006)
Vitamin D receptor: Ligand recognition and allosteric network
K Yamamoto et al.
JOURNAL OF MEDICINAL CHEMISTRY (2006)
A solution for the most basic optimization problem associated with an ROC curve
Chap T. Le
STATISTICAL METHODS IN MEDICAL RESEARCH (2006)
A network representation of protein structures: Implications for protein stability
KV Brinda et al.
BIOPHYSICAL JOURNAL (2005)
Structural determinants of allosteric ligand activation in RXR heterodimers
AI Shulman et al.
CELL (2004)
Network analysis of protein structures identifies functional residues
G Amitai et al.
JOURNAL OF MOLECULAR BIOLOGY (2004)
Crystal structures of the vitamin D receptor complexed to superagonist 20-epi ligands
G Tocchini-Valentini et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2001)
Three key residues form a critical contact network in a protein folding transition state
M Vendruscolo et al.
NATURE (2001)
PDZ domains and the organization of supramolecular complexes
M Sheng et al.
ANNUAL REVIEW OF NEUROSCIENCE (2001)
分享论文
