| Rank |
Title |
Journal |
Year |
PubWeight™‹?› |
|
1
|
Novel computer program for fast exact calculation of accessible and molecular surface areas and average surface curvature.
|
J Comput Chem
|
2002
|
3.00
|
|
2
|
Mechanism of bacterial transcription initiation: RNA polymerase - promoter binding, isomerization to initiation-competent open complexes, and initiation of RNA synthesis.
|
J Mol Biol
|
2011
|
2.50
|
|
3
|
Crowding and confinement effects on protein diffusion in vivo.
|
J Bacteriol
|
2006
|
1.84
|
|
4
|
Kinetic studies and structural models of the association of E. coli sigma(70) RNA polymerase with the lambdaP(R) promoter: large scale conformational changes in forming the kinetically significant intermediates.
|
J Mol Biol
|
2002
|
1.83
|
|
5
|
Hofmeister salt effects on surface tension arise from partitioning of anions and cations between bulk water and the air-water interface.
|
J Phys Chem B
|
2007
|
1.77
|
|
6
|
The exclusion of glycine betaine from anionic biopolymer surface: why glycine betaine is an effective osmoprotectant but also a compatible solute.
|
Biochemistry
|
2004
|
1.52
|
|
7
|
Thermodynamic origin of hofmeister ion effects.
|
J Phys Chem B
|
2008
|
1.50
|
|
8
|
Roles of cytoplasmic osmolytes, water, and crowding in the response of Escherichia coli to osmotic stress: biophysical basis of osmoprotection by glycine betaine.
|
Biochemistry
|
2003
|
1.48
|
|
9
|
Real-time footprinting of DNA in the first kinetically significant intermediate in open complex formation by Escherichia coli RNA polymerase.
|
Proc Natl Acad Sci U S A
|
2007
|
1.44
|
|
10
|
Protein surface salt bridges and paths for DNA wrapping.
|
Curr Opin Struct Biol
|
2002
|
1.37
|
|
11
|
Cytoplasmic protein mobility in osmotically stressed Escherichia coli.
|
J Bacteriol
|
2008
|
1.34
|
|
12
|
Preferential interactions of glycine betaine and of urea with DNA: implications for DNA hydration and for effects of these solutes on DNA stability.
|
Biochemistry
|
2004
|
1.31
|
|
13
|
Use of urea and glycine betaine to quantify coupled folding and probe the burial of DNA phosphates in lac repressor-lac operator binding.
|
Biochemistry
|
2005
|
1.31
|
|
14
|
Protein diffusion in the periplasm of E. coli under osmotic stress.
|
Biophys J
|
2011
|
1.30
|
|
15
|
Why Hofmeister effects of many salts favor protein folding but not DNA helix formation.
|
Proc Natl Acad Sci U S A
|
2010
|
1.30
|
|
16
|
Interactions of the osmolyte glycine betaine with molecular surfaces in water: thermodynamics, structural interpretation, and prediction of m-values.
|
Biochemistry
|
2009
|
1.29
|
|
17
|
Quantifying why urea is a protein denaturant, whereas glycine betaine is a protein stabilizer.
|
Proc Natl Acad Sci U S A
|
2011
|
1.27
|
|
18
|
Separation of preferential interaction and excluded volume effects on DNA duplex and hairpin stability.
|
Proc Natl Acad Sci U S A
|
2011
|
1.26
|
|
19
|
Partitioning of atmospherically relevant ions between bulk water and the water/vapor interface.
|
Proc Natl Acad Sci U S A
|
2006
|
1.23
|
|
20
|
The effects of upstream DNA on open complex formation by Escherichia coli RNA polymerase.
|
Proc Natl Acad Sci U S A
|
2004
|
1.22
|
|
21
|
Solute probes of conformational changes in open complex (RPo) formation by Escherichia coli RNA polymerase at the lambdaPR promoter: evidence for unmasking of the active site in the isomerization step and for large-scale coupled folding in the subsequent conversion to RPo.
|
Biochemistry
|
2006
|
1.22
|
|
22
|
Late steps in the formation of E. coli RNA polymerase-lambda P R promoter open complexes: characterization of conformational changes by rapid [perturbant] upshift experiments.
|
J Mol Biol
|
2007
|
1.18
|
|
23
|
Evidence for a tyrosine-adenine stacking interaction and for a short-lived open intermediate subsequent to initial binding of Escherichia coli RNA polymerase to promoter DNA.
|
J Mol Biol
|
2008
|
1.17
|
|
24
|
Urea-amide preferential interactions in water: quantitative comparison of model compound data with biopolymer results using water accessible surface areas.
|
J Phys Chem B
|
2007
|
1.16
|
|
25
|
Large changes in cytoplasmic biopolymer concentration with osmolality indicate that macromolecular crowding may regulate protein-DNA interactions and growth rate in osmotically stressed Escherichia coli K-12.
|
J Mol Recognit
|
2004
|
1.16
|
|
26
|
Thermal and urea-induced unfolding of the marginally stable lac repressor DNA-binding domain: a model system for analysis of solute effects on protein processes.
|
Biochemistry
|
2003
|
1.15
|
|
27
|
Application of the local-bulk partitioning and competitive binding models to interpret preferential interactions of glycine betaine and urea with protein surface.
|
Biochemistry
|
2004
|
1.11
|
|
28
|
Effect of the number of nucleic acid oligomer charges on the salt dependence of stability (DeltaG 37degrees) and melting temperature (Tm): NLPB analysis of experimental data.
|
Biochemistry
|
2004
|
1.10
|
|
29
|
Generalized derivation of an exact relationship linking different coefficients that characterize thermodynamic effects of preferential interactions.
|
Biophys Chem
|
2002
|
1.08
|
|
30
|
Probing DNA binding, DNA opening, and assembly of a downstream clamp/jaw in Escherichia coli RNA polymerase-lambdaP(R) promoter complexes using salt and the physiological anion glutamate.
|
Biochemistry
|
2010
|
1.07
|
|
31
|
One-step DNA melting in the RNA polymerase cleft opens the initiation bubble to form an unstable open complex.
|
Proc Natl Acad Sci U S A
|
2010
|
1.05
|
|
32
|
Formation of a wrapped DNA-protein interface: experimental characterization and analysis of the large contributions of ions and water to the thermodynamics of binding IHF to H' DNA.
|
J Mol Biol
|
2007
|
1.04
|
|
33
|
Methods of changing biopolymer volume fraction and cytoplasmic solute concentrations for in vivo biophysical studies.
|
Methods Enzymol
|
2007
|
1.00
|
|
34
|
Probing the protein-folding mechanism using denaturant and temperature effects on rate constants.
|
Proc Natl Acad Sci U S A
|
2013
|
0.98
|
|
35
|
Interactions of the KWK6 cationic peptide with short nucleic acid oligomers: demonstration of large Coulombic end effects on binding at 0.1-0.2 M salt.
|
Nucleic Acids Res
|
2004
|
0.96
|
|
36
|
DNA binding mode transitions of Escherichia coli HU(alphabeta): evidence for formation of a bent DNA--protein complex on intact, linear duplex DNA.
|
J Mol Biol
|
2008
|
0.95
|
|
37
|
Thermodynamics and folding pathway of tetraloop receptor-mediated RNA helical packing.
|
J Mol Biol
|
2008
|
0.91
|
|
38
|
Key roles of the downstream mobile jaw of Escherichia coli RNA polymerase in transcription initiation.
|
Biochemistry
|
2012
|
0.90
|
|
39
|
Preferential interactions in aqueous solutions of urea and KCl.
|
Biophys Chem
|
2003
|
0.90
|
|
40
|
Gibbs-Duhem-based relationships among derivatives expressing the concentration dependences of selected chemical potentials for a multicomponent system.
|
Biophys Chem
|
2004
|
0.89
|
|
41
|
Quantifying functional group interactions that determine urea effects on nucleic acid helix formation.
|
J Am Chem Soc
|
2013
|
0.89
|
|
42
|
Quantifying additive interactions of the osmolyte proline with individual functional groups of proteins: comparisons with urea and glycine betaine, interpretation of m-values.
|
Biochemistry
|
2013
|
0.87
|
|
43
|
Interactions of cationic ligands and proteins with small nucleic acids: analytic treatment of the large coulombic end effect on binding free energy as a function of salt concentration.
|
Biochemistry
|
2006
|
0.86
|
|
44
|
Using surface tension data to predict differences in surface and bulk concentrations of nonelectrolytes in water.
|
J Phys Chem C Nanomater Interfaces
|
2009
|
0.84
|
|
45
|
Nonspecific DNA binding and bending by HUαβ: interfaces of the three binding modes characterized by salt-dependent thermodynamics.
|
J Mol Biol
|
2011
|
0.83
|
|
46
|
Quantifying the roles of water and solutes (denaturants, osmolytes, and Hofmeister salts) in protein and model processes using the solute partitioning model.
|
Methods Mol Biol
|
2009
|
0.83
|
|
47
|
Asymptotic solution of the cylindrical nonlinear Poisson-Boltzmann equation at low salt concentration: analytic expressions for surface potential and preferential interaction coefficient.
|
Proc Natl Acad Sci U S A
|
2002
|
0.82
|
|
48
|
Positioning the Intracellular Salt Potassium Glutamate in the Hofmeister Series by Chemical Unfolding Studies of NTL9.
|
Biochemistry
|
2016
|
0.80
|
|
49
|
Correction to "quantifying functional group interactions that determine urea effects on nucleic Acid helix formation".
|
J Am Chem Soc
|
2013
|
0.78
|
|
50
|
Using solutes and kinetics to probe large conformational changes in the steps of transcription initiation.
|
Methods Mol Biol
|
2015
|
0.78
|
|
51
|
Rapid quench mixing to quantify kinetics of steps in association of Escherichia coli RNA polymerase with promoter DNA.
|
Methods Enzymol
|
2003
|
0.77
|
|
52
|
Contributions of the histidine side chain and the N-terminal alpha-amino group to the binding thermodynamics of oligopeptides to nucleic acids as a function of pH.
|
Biochemistry
|
2010
|
0.76
|