Research graph
References from CONFORMATIONAL SAMPLING IN TEMPLATE-FREE PROTEIN LOOP STRUCTURE MODELING: AN OVERVIEW. Local targets link to admitted publications; unresolved targets remain external evidence.
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Ab initio loop modeling and its application to homology modeling
2000 · External reference
10.1110/ps.072776307
10.1110/ps.072776307 · External reference
Modeling antibody hypervariable loops: a combined algorithm
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Identification of the prokaryotic ligand-gated ion channels and their implications for the mechanisms and origins of animal Cys-loop ion channels
10.1186/gb-2004-6-1-r4 · 2005 · External reference
10.1073/pnas.0602350103
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Unresolved reference
1969 · External reference
10.1021/jp7096313
10.1021/jp7096313 · External reference
Structural similarity of loops in protein families: toward the understanding of protein evolution
10.1186/1471-2148-5-10 · 2005 · External reference
Backbone Statistical Potential from Local Sequence-Structure Interactions in Protein Loops
10.1021/jp909874g · 2010 · External reference
On the use of sequence homologies to predict protein structure: Identical pentapeptides can have completely different conformations
10.1073/pnas.81.4.1075 · 1983 · External reference
10.1002/pro.5560021213
10.1002/pro.5560021213 · External reference
The Protein Coil Library: a structural database of nonhelix, nonstrand fragments derived from the PDB
10.1002/prot.20394 · 2005 · External reference
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10.1093/bioinformatics/btg224 · 2003 · External reference
Model for haptoglobin heavy chain based upon structural homology
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10.1016/0022-2836(92)90553-v
10.1016/0022-2836(92)90553-v · External reference
10.1002/prot.340130306
10.1002/prot.340130306 · External reference
A global taxonomy of loops in globular proteins
10.1006/jmbi.1996.0363 · 1996 · External reference
10.1126/science.181.4096.223
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A Fast and Efficient Program for Modeling Protein Loops
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10.1093/protein/gzn056
10.1093/protein/gzn056 · External reference
Prediction of loop geometries using a generalized born model of solvation effects
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10.1002/prot.10235
10.1002/prot.10235 · External reference
A second generation force-field for the simulation of proteins, nucleic-acids, and organic-molecules
10.1021/ja00124a002 · 1995 · External reference
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10.1093/protein/gzm083 · 2008 · External reference
CHARMM: a program for macromolecular energy, minimization and dynamics calculations
10.1002/jcc.540040211 · 1983 · External reference
10.1002/prot.10613
10.1002/prot.10613 · External reference
OPLS All-Atom Force Field for Carbohydrates
1997 · External reference
Prediction of protein loop geometries in solution
10.1002/prot.21503 · 2007 · External reference
Long Loop Prediction Using the Protein Local Optimization Program
10.1002/prot.21040 · 2006 · External reference
Prediction of Protein Loop Conformation Using the AGBNP Implicit Solvent Model and Torsion Angle Sampling
10.1021/ct800051k · 2008 · External reference
AGBNP: An Analytic Implicit Solvent Model Suitable for Molecular Dynamics Simulations and High-Resolution Modeling
10.1002/jcc.10400 · 2004 · External reference
10.1002/prot.21990
10.1002/prot.21990 · External reference
10.1021/ar000033j
10.1021/ar000033j · External reference
10.1110/ps.041004105
10.1110/ps.041004105 · External reference
Calculation of conformational ensembles from potentials of mean force – an approach to the knowledge-based prediction of local structures in globular proteins
10.1016/s0022-2836(05)80269-4 · 1990 · External reference
10.1110/ps.0217002
10.1110/ps.0217002 · External reference
10.1110/ps.062416606
10.1110/ps.062416606 · External reference
10.1002/prot.21968
10.1002/prot.21968 · External reference
10.1110/ps.9.9.1753
10.1110/ps.9.9.1753 · External reference
10.1002/prot.10629
10.1002/prot.10629 · External reference
10.1038/nmeth0809-551
10.1038/nmeth0809-551 · External reference
10.1002/(sici)1097-0134(1999)37:3<171::aid-prot21>3.0.co;2-z
10.1002/(sici)1097-0134(1999)37:3<171::aid-prot21>3.0.co;2-z · External reference
10.1073/pnas.102179699
10.1073/pnas.102179699 · External reference
Modeling of protein loops by simulated annealing
10.1002/pro.5560020915 · 1993 · External reference
Exact Analytical Loop Closure in Proteins Using Polynomial Equations
10.1002/(sici)1096-987x(199906)20:8<819::aid-jcc8>3.0.co;2-y · 1999 · External reference
A kinematic view of loop closure
10.1002/jcc.10416 · 2004 · External reference
10.1002/bip.360261207
10.1002/bip.360261207 · External reference
10.1002/jcc.10245
10.1002/jcc.10245 · External reference
10.1110/ps.0242703
10.1110/ps.0242703 · External reference
Inverse Kinematics in Biology: The Protein Loop Closure Problem
10.1177/0278364905050352 · 2005 · External reference
Full cyclic coordinate descent: solving the protein loop closure problem in Cα space
10.1186/1471-2105-6-159 · 2005 · External reference
Loop modelling: sampling, filtering, and scoring
10.1002/prot.21612 · 2008 · External reference
A Self-Organizing Algorithm for Modeling Protein Loops
10.1371/journal.pcbi.1000478 · 2009 · External reference
Improving Predicted Protein Loop Structure Ranking using a Pareto-Optimality Consensus Method
10.1186/1472-6807-10-22 · 2010 · External reference
10.1021/ct1006696
10.1021/ct1006696 · External reference
Protein loop modelling with optimized backbone potential functions
10.1021/ct300131p · 2012 · External reference
Ab initio modelling of small, medium, and large loops in proteins
10.1002/1097-0282(2001)60:2<153::aid-bip1010>3.0.co;2-6 · 2001 · External reference
10.1002/prot.10285
10.1002/prot.10285 · External reference
Prediction of protein loop conformations using multiscale modeling methods with physical energy scoring functions
10.1002/jcc.20827 · 2008 · External reference
10.1080/00268979909482855
10.1080/00268979909482855 · External reference
Improved protein loop prediction from sequence alone
10.1093/protein/14.7.473 · 2001 · External reference
Conformational sampling of loop structures using genetic algorithms
10.1002/ijch.199400028 · 1994 · External reference
10.1063/1.1699114
10.1063/1.1699114 · External reference
Sampling Multiple Scoring Functions Can Improve Protein Loop Structure Prediction Accuracy
10.1021/ci200143u · 2011 · External reference
MOMCMC: An Efficient Monte Carlo Method for Multi-objective sampling over real parameter space
10.1016/j.camwa.2012.09.003 · 2012 · External reference
Modeling of loops in proteins: a multi-method approach
10.1186/1472-6807-10-5 · 2010 · External reference
10.1002/prot.22849
10.1002/prot.22849 · External reference
CODA: a combined algorithm for predicting the structurally variable regions of protein models
10.1110/ps.37601 · 2001 · External reference
Mining protein loops using a structural alphabet and statistical exceptionality
10.1186/1471-2105-11-75 · 2010 · External reference
Ring closure and local conformational deformations of chain molecules
10.1021/ma60014a012 · 1970 · External reference
Progress in super long loop prediction
10.1002/prot.23129 · 2011 · External reference
Predicting flexible loop regions that interact with ligands: the challenge of accurate scoring
10.1002/prot.23199 · 2012 · External reference
10.1073/pnas.0707977104
10.1073/pnas.0707977104 · External reference
A structure refinement method based on molecular dynamics in four spatial dimensions
10.1006/jmbi.1993.1624 · 1993 · External reference
An expert protein loop refinement protocol by molecular dynamics simulations with restraints
2012 · External reference
The genetic algorithm approach to protein structure prediction
10.1007/b13936 · 2004 · External reference
10.1002/prot.24098
10.1002/prot.24098 · External reference
A novel exhaustive search algorithm for predicting the conformation of polypeptide segments in proteins
10.1002/(sici)1097-0134(20000701)40:1<135::aid-prot150>3.0.co;2-1 · 2000 · External reference
10.1002/prot.24098
10.1002/prot.24098 · External reference
Anovelexhaustivesearch algorithm for predicting the conformation of polypeptide segments in proteins
10.1002/(sici)1097-0134(20000701)40:1<135::aid-prot150>3.0.co;2-1 · 2000 · External reference
