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List of works by Robert L Jernigan

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Global ribosome motions revealed with elastic network model

scientific article
Crystal structure of the CusBA heavy-metal efflux complex of Escherichia coli

scientific article published on February 24, 2011
Dynamics of large proteins through hierarchical levels of coarse-grained structures

scientific article
Crystal structures of the CusA efflux pump suggest methionine-mediated metal transport

scientific article published on September 23, 2010
How well can we understand large-scale protein motions using normal modes of elastic network models?

scientific article published on 4 May 2007
RNABindR: a server for analyzing and predicting RNA-binding sites in proteins

scientific article (publication date: 8 May 2007)
Protein elastic network models and the ranges of cooperativity

scholarly article
Correlation between Native-State Hydrogen Exchange and Cooperative Residue Fluctuations from a Simple Model

scientific article published on January 27, 1998
Molecular Mechanisms of Chaperonin GroEL−GroES Function

scientific article published on January 15, 2002
Prediction of RNA binding sites in proteins from amino acid sequence

scientific article
Close correspondence between the motions from principal component analysis of multiple HIV-1 protease structures and elastic network modes

scientific article
Vibrational dynamics of transfer RNAs: comparison of the free and synthetase-bound forms 1 1Edited by I. Tinoco

scientific article published on September 4, 1998
Relating molecular flexibility to function: a case study of tubulin

scientific article
Predicting DNA-binding sites of proteins from amino acid sequence

scientific article published on 19 May 2006
GOR V server for protein secondary structure prediction

scientific article
A role for CH…O interactions in protein-DNA recognition

scientific article published on April 17, 1998
The Extent of Cooperativity of Protein Motions Observed with Elastic Network Models Is Similar for Atomic and Coarser-Grained Models

scientific article published on January 2006
Four-body contact potentials derived from two protein datasets to discriminate native structures from decoys

scientific article published in July 2007
Characterization of protein-protein interfaces

scientific article
Short-range conformational energies, secondary structure propensities, and recognition of correct sequence-structure matches

scientific article published on November 1, 1997
Inferring ideal amino acid interaction forms from statistical protein contact potentials

scientific article published on April 2005
Comparison of tRNA motions in the free and ribosomal bound structures

scientific article published on 19 August 2005
Loop motions of triosephosphate isomerase observed with elastic networks.

scientific article published in January 2006
MAVENs: motion analysis and visualization of elastic networks and structural ensembles

scientific article
Computational and experimental characterization of RNA cubic nanoscaffolds

scientific article
Collective dynamics of the ribosomal tunnel revealed by elastic network modeling

scientific article published on June 2009
The ribosome structure controls and directs mRNA entry, translocation and exit dynamics

scientific article published on 24 November 2008
Functional clustering of yeast proteins from the protein-protein interaction network

scientific article published on 24 July 2006
Multibody coarse-grained potentials for native structure recognition and quality assessment of protein models

scientific article published on 19 April 2011
Sequence-Dependent B↔A Transition in DNA Evaluated with Dimeric and Trimeric Scales

scientific article published on December 1, 2001
The origin and extent of coarse-grained regularities in protein internal packing

scientific article
An enhanced elastic network model to represent the motions of domain-swapped proteins

scientific article published on 01 April 2006
Functional motions can be extracted from on‐lattice construction of protein structures

scientific article published on November 1, 2003
Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization step.

scientific article
Focused functional dynamics of supramolecules by use of a mixed-resolution elastic network model

scientific article published on August 2009
Distance matrix-based approach to protein structure prediction

scientific article
Coarse Grained Normal Mode Analysis vs. Refined Gaussian Network Model for Protein Residue-Level Structural Fluctuations

scientific article published on January 8, 2013
Understanding the recognition of protein structural classes by amino acid composition

scientific article published on October 1, 1997
Comparisons of experimental and computed protein anisotropic temperature factors

scientific article published on July 2009
Ideal architecture of residue packing and its observation in protein structures

scientific article published on October 1, 1997
Potentials 'R' Us web-server for protein energy estimations with coarse-grained knowledge-based potentials

scientific article
Predicting binding sites of hydrolase-inhibitor complexes by combining several methods

scientific article
Predicting the order in which contacts are broken during single molecule protein stretching experiments

scientific article
The energy profiles of atomic conformational transition intermediates of adenylate kinase

scientific article
Elastic network models capture the motions apparent within ensembles of RNA structures

scientific article (publication date: June 2014)
Consensus Data Mining (CDM) Protein Secondary Structure Prediction Server: combining GOR V and Fragment Database Mining (FDM)

scientific article
Effects of protein subunits removal on the computed motions of partial 30S structures of the ribosome

scientific article published in September 2008
A Consensus Data Mining secondary structure prediction by combining GOR V and Fragment Database Mining

scientific article
The importance of slow motions for protein functional loops

scientific article published on 07 February 2012
Prediction of protein secondary structure by mining structural fragment database

scientific article published on May 2005

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