PubRank

Andrzej Kloczkowski

Author PubWeight™ 41.66‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 The Extent of Cooperativity of Protein Motions Observed with Elastic Network Models Is Similar for Atomic and Coarser-Grained Models. J Chem Theory Comput 2006 1.33
2 GOR V server for protein secondary structure prediction. Bioinformatics 2005 1.30
3 Inferring ideal amino acid interaction forms from statistical protein contact potentials. Proteins 2005 1.24
4 Four-body contact potentials derived from two protein datasets to discriminate native structures from decoys. Proteins 2007 1.19
5 MAVENs: motion analysis and visualization of elastic networks and structural ensembles. BMC Bioinformatics 2011 1.16
6 Ideal amino acid exchange forms for approximating substitution matrices. Proteins 2007 1.16
7 Functional clustering of yeast proteins from the protein-protein interaction network. BMC Bioinformatics 2006 1.05
8 Predicting binding sites of hydrolase-inhibitor complexes by combining several methods. BMC Bioinformatics 2004 1.01
9 Prediction of protein secondary structure by mining structural fragment database. Polymer (Guildf) 2005 1.01
10 The origin and extent of coarse-grained regularities in protein internal packing. Proteins 2003 1.00
11 Packing regularities in biological structures relate to their dynamics. Methods Mol Biol 2007 0.95
12 Multibody coarse-grained potentials for native structure recognition and quality assessment of protein models. Proteins 2011 0.95
13 A Consensus Data Mining secondary structure prediction by combining GOR V and Fragment Database Mining. Protein Sci 2006 0.94
14 The ribosome structure controls and directs mRNA entry, translocation and exit dynamics. Phys Biol 2008 0.93
15 Human telomerase model shows the role of the TEN domain in advancing the double helix for the next polymerization step. Proc Natl Acad Sci U S A 2011 0.92
16 The energy profiles of atomic conformational transition intermediates of adenylate kinase. Proteins 2009 0.87
17 Consensus Data Mining (CDM) Protein Secondary Structure Prediction Server: combining GOR V and Fragment Database Mining (FDM). Bioinformatics 2007 0.87
18 Effects of protein subunits removal on the computed motions of partial 30S structures of the ribosome. J Chem Theory Comput 2008 0.86
19 Potentials 'R' Us web-server for protein energy estimations with coarse-grained knowledge-based potentials. BMC Bioinformatics 2010 0.85
20 The importance of slow motions for protein functional loops. Phys Biol 2012 0.83
21 Predicting the order in which contacts are broken during single molecule protein stretching experiments. Proteins 2008 0.83
22 Statistical measures on residue-level protein structural properties. J Struct Funct Genomics 2011 0.82
23 Protein promiscuity: drug resistance and native functions--HIV-1 case. J Biomol Struct Dyn 2005 0.82
24 Combining statistical potentials with dynamics-based entropies improves selection from protein decoys and docking poses. J Phys Chem B 2012 0.82
25 A DNA-centric look at protein-DNA complexes. Structure 2006 0.81
26 Generation and enumeration of compact conformations on the two-dimensional triangular and three-dimensional fcc lattices. J Chem Phys 2007 0.81
27 Free energies for coarse-grained proteins by integrating multibody statistical contact potentials with entropies from elastic network models. J Struct Funct Genomics 2011 0.81
28 Accurate single-sequence prediction of solvent accessible surface area using local and global features. Proteins 2014 0.80
29 Exploration of the relationship between topology and designability of conformations. J Chem Phys 2011 0.80
30 Elastic network normal modes provide a basis for protein structure refinement. J Chem Phys 2012 0.80
31 Molecular modeling of phosphorylation sites in proteins using a database of local structure segments. J Mol Model 2005 0.79
32 Shape-dependent designability studies of lattice proteins. J Phys Condens Matter 2007 0.79
33 Chain dimensions and fluctuations in elastomeric networks in which the junctions alternate regularly in their functionality. J Chem Phys 2009 0.78
34 Use of machine learning algorithms to classify binary protein sequences as highly-designable or poorly-designable. BMC Bioinformatics 2008 0.78
35 Support-vector-machine classification of linear functional motifs in proteins. J Mol Model 2005 0.78
36 Conditional entropy in variation-adjusted windows detects selection signatures associated with expression quantitative trait loci (eQTLs). BMC Genomics 2015 0.78
37 Predicting the complex structure and functional motions of the outer membrane transporter and signal transducer FecA. Biophys J 2008 0.78
38 Structural interpretation of protein-protein interaction network. BMC Struct Biol 2010 0.77
39 P.R.E.S.S.--an R-package for exploring residual-level protein structural statistics. J Bioinform Comput Biol 2012 0.77
40 Models to Approximate the Motions of Protein Loops. J Chem Theory Comput 2010 0.77
41 A global machine learning based scoring function for protein structure prediction. Proteins 2013 0.77
42 BioShell-Threading: versatile Monte Carlo package for protein 3D threading. BMC Bioinformatics 2014 0.77
43 GENN: a GEneral Neural Network for learning tabulated data with examples from protein structure prediction. Methods Mol Biol 2015 0.77
44 Volumes and surface areas: geometries and scaling relationships between coarse- grained and atomic structures. Curr Pharm Des 2014 0.77
45 How noise in force fields can affect the structural refinement of protein models? Proteins 2011 0.76
46 Short paths in protein structure space originate in graph structure. Proc Natl Acad Sci U S A 2009 0.75
47 Orientational distributions of contact clusters in proteins closely resemble those of an icosahedron. Proteins 2008 0.75
48 Prediction of side chain orientations in proteins by statistical machine learning methods. J Biomol Struct Dyn 2007 0.75