Skip to main content
U.S. Department of Energy
Office of Scientific and Technical Information

Surface salt bridges contribute to the extreme thermal stability of an FN3-like domain from a thermo

Journal Article · · Proteins
DOI:https://doi.org/10.1002/prot.26218· OSTI ID:1877203
Research Organization:
Advanced Photon Source (APS), Argonne National Laboratory (ANL), Argonne, IL (US)
Sponsoring Organization:
DOE - Office Of Science; INDUSTRY
OSTI ID:
1877203
Journal Information:
Proteins, Journal Name: Proteins Journal Issue: (1) Vol. 90
Country of Publication:
United States
Language:
ENGLISH

References (65)

Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: results of a comprehensive survey journal May 2000
Selection of high-affinity Centyrin FN3 domains from a simple library diversified at a combination of strand and loop positions journal April 2014
On the physics of thermal-stability changes upon mutations of a protein journal September 2015
Protein stability: computation, sequence statistics, and new experimental methods journal August 2015
Energy Functions for Protein Design: Adjustment with Protein–Protein Complex Affinities, Models for the Unfolded State, and Negative Design of Solubility and Specificity journal March 2005
I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure journal July 2005
Protein Structure Prediction Using Rosetta book January 2004
Examining the Feasibility of Using Free Energy Perturbation (FEP+) in Predicting Protein Stability journal June 2017
Predicting resistance of clinical Abl mutations to targeted kinase inhibitors using alchemical free-energy calculations journal June 2018
Features and development of Coot journal March 2010
Folding and stability of a fibronectin type III domain of human tenascin journal August 1997
Predicting free energy changes using structural ensembles journal January 2009
Effect of ProNectin F derivatives on cell attachment and proliferation journal February 2013
Applying Physics-Based Scoring to Calculate Free Energies of Binding for Single Amino Acid Mutations in Protein-Protein Complexes journal December 2013
Principles of Protein Stability and Their Application in Computational Design journal June 2018
Highly conserved salt bridge stabilizes a proteinase K subfamily enzyme, Aqualysin I, from Thermus aquaticus YT-1 journal August 2014
Thermal adaptation analyzed by comparison of protein sequences from mesophilic and extremely thermophilic Methanococcus species journal March 1999
Stabilizing Salt-Bridge Enhances Protein Thermostability by Reducing the Heat Capacity Change of Unfolding journal June 2011
The stability of salt bridges at high temperatures: implications for hyperthermophilic proteins 1 1Edited by B. Honig journal November 1998
Improved molecular replacement by density- and energy-guided protein structure optimization journal May 2011
How do thermophilic proteins deal with heat? journal August 2001
Protein Thermal Stability Enhancement by Designing Salt Bridges: A Combined Computational and Experimental Study journal November 2014
The three-dimensional structure of the tenth type III module of fibronectin: An insight into RGD-mediated interactions journal November 1992
Molecular dynamics---Scalable algorithms for molecular dynamics simulations on commodity clusters conference January 2006
Thermo- and Mesostabilizing Protein Interactions Identified by Temperature-Dependent Statistical Potentials journal February 2010
The fibronectin type III domain as a scaffold for novel binding proteins journal December 1998
Relationship between Ion Pair Geometries and Electrostatic Strengths in Proteins journal September 2002
Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments journal March 2013
Stability of "salt bridges" in membrane proteins. journal September 1984
Contribution of Salt Bridges Toward Protein Thermostability journal January 2000
Voronoia: analyzing packing in protein structures journal January 2009
Predicting the Effect of Amino Acid Single-Point Mutations on Protein Stability—Large-Scale Validation of MD-Based Relative Free Energy Calculations journal April 2017
Design of novel FN3 domains with high stability by a consensus sequence approach journal January 2012
OPLS3: A Force Field Providing Broad Coverage of Drug-like Small Molecules and Proteins journal December 2015
Thermophilic proteins: insight and perspective from in silico experiments journal January 2012
2.0 Å Crystal Structure of a Four-Domain Segment of Human Fibronectin Encompassing the RGD Loop and Synergy Region journal January 1996
Free Energy Perturbation Calculation of Relative Binding Free Energy between Broadly Neutralizing Antibodies and the gp120 Glycoprotein of HIV-1 journal April 2017
VMD: Visual molecular dynamics journal February 1996
Relative Binding Affinity Prediction of Charge-Changing Sequence Mutations with FEP in Protein–Protein Interfaces journal March 2019
Protein Stability and Surface Electrostatics:  A Charged Relationship journal March 2006
Structure- and sequence-analysis inspired engineering of proteins for enhanced thermostability journal August 2013
Consensus protein design journal June 2016
Protein structure prediction and analysis using the Robetta server journal July 2004
Engineering proteins for thermostability through rigidifying flexible sites journal March 2014
The role of salt bridges on the temperature adaptation of aqualysin I, a thermostable subtilisin-like proteinase journal December 2014
Electrostatic contributions to the stability of hyperthermophilic proteins 1 1Edited by J. M. Thornton journal June 1999
Ion pairs and the thermotolerance of proteins from hyperthermophiles: a ‘traffic rule’ for hot roads journal September 2001
Contribution of main chain and side chain atoms and their locations to the stability of thermophilic proteins journal March 2016
Non-immunoglobulin scaffolds: a focus on their targets journal July 2015
XDS journal January 2010
Estimating the contribution of engineered surface electrostatic interactions to protein stability by using double-mutant cycles journal October 1990
Engineering proteins for thermostability the use of sequence alignments versus rational design and directed evolution journal August 2001
Rational stabilization of enzymes by computational redesign of surface charge–charge interactions journal February 2009
Salt Bridges in the Hyperthermophilic Protein Ssh10b Are Resilient to Temperature Increases journal November 2008
Surface Salt Bridges, Double-Mutant Cycles, and Protein Stability:  an Experimental and Computational Analysis of the Interaction of the Asp 23 Side Chain with the N-Terminus of the N-Terminal Domain of the Ribosomal Protein L9 journal May 2003
MolProbity: all-atom contacts and structure validation for proteins and nucleic acids journal May 2007
Protein homology detection by HMM-HMM comparison journal November 2004
Consensus-Based Engineering of Protein Stability: From Intrabodies to Thermostable Enzymes book January 2004
Improving the Accuracy of Protein Thermostability Predictions for Single Point Mutations journal July 2020
Molecular Simulations Suggest Protein Salt Bridges Are Uniquely Suited to Life at High Temperatures journal January 2004
Structure of a fibronectin type III domain from tenascin phased by MAD analysis of the selenomethionyl protein journal November 1992
Knottins: disulfide-bonded therapeutic and diagnostic peptides journal April 2012
Recent developments in the PHENIX software for automated crystallographic structure determination journal November 2003
Adnectins: engineered target-binding protein therapeutics journal November 2010
Toward the Physical Basis of Thermophilic Proteins: Linking of Enriched Polar Interactions and Reduced Heat Capacity of Unfolding journal December 2002

Similar Records

Design of novel FN3 domains with high stability by a consensus sequence approach
Journal Article · 2014 · Protein Eng. Des. Sel. · OSTI ID:1090103

A potent and highly specific FN3 monobody inhibitor of the Abl SH2 domain
Journal Article · 2010 · Nat. Struct. Mol. Biol. · OSTI ID:1002376

The C‐Terminal Domain of α‐Synuclein Confers Steric Stabilization on Synaptic Vesicle‐Like Surfaces
Journal Article · 2020 · Advanced Materials Interfaces · OSTI ID:1630949

Related Subjects