Study of protein dynamics by X-ray diffraction.

PubWeight™: 1.43‹?› | Rank: Top 5%

🔗 View Article (PMID 3773767)

Published in Methods Enzymol on January 01, 1986

Authors

D Ringe, G A Petsko

Articles citing this

Intrinsic disorder and functional proteomics. Biophys J (2006) 3.84

Thermal motions of surface alpha-helices in the D-galactose chemosensory receptor. Detection by disulfide trapping. J Mol Biol (1992) 2.98

Fluid bilayer structure determination by the combined use of x-ray and neutron diffraction. I. Fluid bilayer models and the limits of resolution. Biophys J (1991) 2.37

Protein flexibility and intrinsic disorder. Protein Sci (2004) 2.33

On the importance of atomic fluctuations, protein flexibility, and solvent in ion permeation. J Gen Physiol (2004) 1.88

Testing geometrical discrimination within an enzyme active site: constrained hydrogen bonding in the ketosteroid isomerase oxyanion hole. J Am Chem Soc (2008) 1.41

Application of elastic network models to proteins in the crystalline state. Biophys J (2009) 1.30

Conformational substates in enzyme mechanism: the 120 K structure of alpha-lytic protease at 1.5 A resolution. Protein Sci (1997) 1.13

Functional dynamics in the voltage-dependent anion channel. Proc Natl Acad Sci U S A (2010) 1.13

Evidence for liquid water during the high-density to low-density amorphous ice transition. Proc Natl Acad Sci U S A (2009) 1.09

Modulation of global low-frequency motions underlies allosteric regulation: demonstration in CRP/FNR family transcription factors. PLoS Biol (2013) 1.05

What can we learn by computing 13Calpha chemical shifts for X-ray protein models? Acta Crystallogr D Biol Crystallogr (2009) 0.98

Rigidification of a flexible protease inhibitor variant upon binding to trypsin. J Mol Biol (2006) 0.93

Antigen structure influences helper T-cell epitope dominance in the human immune response to HIV envelope glycoprotein gp120. Eur J Immunol (2008) 0.90

The counterreceptor binding site of human CD2 exhibits an extended surface patch with multiple conformations fluctuating with millisecond to microsecond motions. Protein Sci (1997) 0.89

A comparative analysis of the equilibrium dynamics of a designed protein inferred from NMR, X-ray, and computations. Proteins (2009) 0.89

Three-dimensional structure determines the pattern of CD4+ T-cell epitope dominance in influenza virus hemagglutinin. J Virol (2007) 0.87

Functional and structural roles of the Cys14-Cys38 disulfide of bovine pancreatic trypsin inhibitor. J Mol Biol (2008) 0.87

You are lost without a map: Navigating the sea of protein structures. Biochim Biophys Acta (2014) 0.82

A structurally dynamic N-terminal helix is a key functional determinant in staphylococcal complement inhibitor (SCIN) proteins. J Biol Chem (2012) 0.81

Molecular mimicry of substrate oxygen atoms by water molecules in the beta-amylase active site. Protein Sci (2001) 0.81

The Role of Protein-Ligand Contacts in Allosteric Regulation of the Escherichia coli Catabolite Activator Protein. J Biol Chem (2015) 0.80

Mechanism of substrate specificity in 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidases. J Struct Biol (2010) 0.80

Multistart simulated annealing refinement of the crystal structure of the 70S ribosome. Proc Natl Acad Sci U S A (2009) 0.80

Protein dynamical transition at 110 K. Proc Natl Acad Sci U S A (2011) 0.80

SPA: Short peptide analyzer of intrinsic disorder status of short peptides. Genes Cells (2010) 0.77

The structure of ferricytochrome c552 from the psychrophilic marine bacterium Colwellia psychrerythraea 34H. Metallomics (2014) 0.77

In silico analysis of drug-resistant mutant of neuraminidase (N294S) against oseltamivir. Protoplasma (2012) 0.77

Exploring the structural and functional impact of the ALK F1174L mutation using bioinformatics approach. J Mol Model (2014) 0.76

Phenotypic effects of Ehlers-Danlos syndrome-associated mutation on the FnIII domain of tenascin-X. Protein Sci (2010) 0.76

How disordered is my protein and what is its disorder for? A guide through the "dark side" of the protein universe. Intrinsically Disord Proteins (2016) 0.75

Sparse estimation for structural variability. Algorithms Mol Biol (2011) 0.75

Improving the thermostability of a fungal GH11 xylanase via site-directed mutagenesis guided by sequence and structural analysis. Biotechnol Biofuels (2017) 0.75

Articles by these authors

Temperature-dependent X-ray diffraction as a probe of protein structural dynamics. Nature (1979) 9.27

Aromatic-aromatic interaction: a mechanism of protein structure stabilization. Science (1985) 6.87

Refined crystal structure of the triphosphate conformation of H-ras p21 at 1.35 A resolution: implications for the mechanism of GTP hydrolysis. EMBO J (1990) 6.51

The catalytic pathway of cytochrome p450cam at atomic resolution. Science (2000) 5.42

Crystalline ribonuclease A loses function below the dynamical transition at 220 K. Nature (1992) 4.80

X-ray structure and refinement of carbon-monoxy (Fe II)-myoglobin at 1.5 A resolution. J Mol Biol (1986) 3.49

Amino-aromatic interactions in proteins. FEBS Lett (1986) 3.47

Time-resolved X-ray crystallographic study of the conformational change in Ha-Ras p21 protein on GTP hydrolysis. Nature (1990) 3.47

Weakly polar interactions in proteins. Adv Protein Chem (1988) 3.26

Conformational substates in a protein: structure and dynamics of metmyoglobin at 80 K. Proc Natl Acad Sci U S A (1982) 3.25

Structure of chicken muscle triose phosphate isomerase determined crystallographically at 2.5 angstrom resolution using amino acid sequence data. Nature (1975) 3.15

The evolution of alpha/beta barrel enzymes. Trends Biochem Sci (1990) 3.12

Cavities in proteins: structure of a metmyoglobin-xenon complex solved to 1.9 A. Biochemistry (1984) 3.05

Molecular dynamics simulations in biology. Nature (1990) 2.95

Solvent mobility and the protein 'glass' transition. Nat Struct Biol (2000) 2.83

Adjustment of conformational flexibility is a key event in the thermal adaptation of proteins. Proc Natl Acad Sci U S A (1998) 2.77

Effects of temperature on protein structure and dynamics: X-ray crystallographic studies of the protein ribonuclease-A at nine different temperatures from 98 to 320 K. Biochemistry (1992) 2.64

Locating and characterizing binding sites on proteins. Nat Biotechnol (1996) 2.64

Anatomy of a conformational change: hinged "lid" motion of the triosephosphate isomerase loop. Science (1990) 2.60

Iron, DtxR, and the regulation of diphtheria toxin expression. Mol Microbiol (1994) 2.28

Thermal expansion of a protein. Biochemistry (1987) 2.25

Fluctuations in protein structure from X-ray diffraction. Annu Rev Biophys Bioeng (1984) 2.22

THEMATICS: a simple computational predictor of enzyme function from structure. Proc Natl Acad Sci U S A (2001) 2.17

Effect of anisotropy and anharmonicity on protein crystallographic refinement. An evaluation by molecular dynamics. J Mol Biol (1986) 2.16

The enolase superfamily: a general strategy for enzyme-catalyzed abstraction of the alpha-protons of carboxylic acids. Biochemistry (1996) 2.15

Structure of the Mg(2+)-bound form of CheY and mechanism of phosphoryl transfer in bacterial chemotaxis. Biochemistry (1993) 2.15

Structure of the human ADP-ribosylation factor 1 complexed with GDP. Nature (1994) 2.01

Structure of the metal-ion-activated diphtheria toxin repressor/tox operator complex. Nature (1998) 2.00

Crystal structures of HINT demonstrate that histidine triad proteins are GalT-related nucleotide-binding proteins. Nat Struct Biol (1997) 1.96

Crystallographic analysis of the complex between triosephosphate isomerase and 2-phosphoglycolate at 2.5-A resolution: implications for catalysis. Biochemistry (1990) 1.94

Climate change and the integrity of science. Science (2010) 1.80

Structure of yeast triosephosphate isomerase at 1.9-A resolution. Biochemistry (1990) 1.78

Structure of the triosephosphate isomerase-phosphoglycolohydroxamate complex: an analogue of the intermediate on the reaction pathway. Biochemistry (1991) 1.64

On the three-dimensional structure and catalytic mechanism of triose phosphate isomerase. Philos Trans R Soc Lond B Biol Sci (1981) 1.61

Determination of the structure of alanine racemase from Bacillus stearothermophilus at 1.9-A resolution. Biochemistry (1997) 1.59

Mandelate racemase and muconate lactonizing enzyme are mechanistically distinct and structurally homologous. Nature (1990) 1.59

A functionally diverse enzyme superfamily that abstracts the alpha protons of carboxylic acids. Science (1995) 1.57

Enzyme crystal structure in a neat organic solvent. Proc Natl Acad Sci U S A (1993) 1.54

Mapping protein dynamics by X-ray diffraction. Prog Biophys Mol Biol (1985) 1.49

2.8-A-resolution crystal structure of an active-site mutant of aspartate aminotransferase from Escherichia coli. Biochemistry (1989) 1.47

Tyrosine-48 is the proton donor and histidine-110 directs substrate stereochemical selectivity in the reduction reaction of human aldose reductase: enzyme kinetics and crystal structure of the Y48H mutant enzyme. Biochemistry (1994) 1.43

Structure of oxidized flavodoxin from Anacystis nidulans. J Mol Biol (1983) 1.40

Atomic coordinates for triose phosphate isomerase from chicken muscle. Biochem Biophys Res Commun (1976) 1.38

The crystal structure of a post-synaptic neurotoxin from sea snake at A resolution. FEBS Lett (1976) 1.35

Identification of the primary metal ion-activation sites of the diphtheria tox repressor by X-ray crystallography and site-directed mutational analysis. Nat Struct Biol (1996) 1.35

Protein crystallography at sub-zero temperatures: cryo-protective mother liquors for protein crystals. J Mol Biol (1975) 1.34

On the origin of enzymatic species. Trends Biochem Sci (1993) 1.31

The refined crystal structure of subtilisin Carlsberg at 2.5 A resolution. Protein Eng (1988) 1.28

Electrophilic catalysis in triosephosphate isomerase: the role of histidine-95. Biochemistry (1991) 1.28

Structures of the apo- and the metal ion-activated forms of the diphtheria tox repressor from Corynebacterium diphtheriae. Proc Natl Acad Sci U S A (1995) 1.28

Proteins in organic solvents. Curr Opin Struct Biol (2001) 1.27

A comparison between molecular dynamics and X-ray results for dissociated CO in myoglobin. Nat Struct Biol (1997) 1.26

Crystallographic studies of the mechanism of xylose isomerase. Biochemistry (1989) 1.26

Computer simulation and analysis of the reaction pathway of triosephosphate isomerase. Biochemistry (1991) 1.24

X-ray crystallographic structures of D-xylose isomerase-substrate complexes position the substrate and provide evidence for metal movement during catalysis. Biochemistry (1994) 1.23

Crystal structures of Escherichia coli and Salmonella typhimurium 3-isopropylmalate dehydrogenase and comparison with their thermophilic counterpart from Thermus thermophilus. J Mol Biol (1997) 1.22

Analogous inhibitors of elastase do not always bind analogously. Nat Struct Biol (1994) 1.22

Evolution of an enzyme active site: the structure of a new crystal form of muconate lactonizing enzyme compared with mandelate racemase and enolase. Proc Natl Acad Sci U S A (1998) 1.22

26-10 Fab-digoxin complex: affinity and specificity due to surface complementarity. Proc Natl Acad Sci U S A (1993) 1.22

The crystal structure of benzoylformate decarboxylase at 1.6 A resolution: diversity of catalytic residues in thiamin diphosphate-dependent enzymes. Biochemistry (1998) 1.22

Crystal structure of recombinant chicken triosephosphate isomerase-phosphoglycolohydroxamate complex at 1.8-A resolution. Biochemistry (1994) 1.21

Structures of yeast ARF2 and ARL1: distinct roles for the N terminus in the structure and function of ARF family GTPases. J Biol Chem (2001) 1.21

Methyl groups of thymine bases are important for nucleic acid recognition by DtxR. Biochemistry (2000) 1.20

Analysis of two-residue turns in proteins. J Mol Biol (1994) 1.20

Protein crystallography at sub-zero temperatures: lysozyme-substrate complexes in cooled mixed solvents. J Mol Biol (1975) 1.18

Structural dynamics of liganded myoglobin. Biophys J (1980) 1.18

Direct structural observation of an acyl-enzyme intermediate in the hydrolysis of an ester substrate by elastase. Biochemistry (1994) 1.18

Three-dimensional structure of neurotoxin a from venom of the Philippines sea snake. Proc Natl Acad Sci U S A (1977) 1.17

An anion binding site in human aldose reductase: mechanistic implications for the binding of citrate, cacodylate, and glucose 6-phosphate. Biochemistry (1994) 1.16

Reaction of alanine racemase with 1-aminoethylphosphonic acid forms a stable external aldimine. Biochemistry (1998) 1.16

X-ray crystal structure of cross-linked subtilisin Carlsberg in water vs. acetonitrile. Biochem Biophys Res Commun (1994) 1.16

Triosephosphate isomerase: removal of a putatively electrophilic histidine residue results in a subtle change in catalytic mechanism. Biochemistry (1988) 1.16

Reaction of myoglobin with phenylhydrazine: a molecular doorstop. Biochemistry (1984) 1.15

Protein misfolding and temperature up-shift cause G1 arrest via a common mechanism dependent on heat shock factor in Saccharomycescerevisiae. Proc Natl Acad Sci U S A (2001) 1.14

Three-dimensional structure of murine anti-p-azophenylarsonate Fab 36-71. 1. X-ray crystallography, site-directed mutagenesis, and modeling of the complex with hapten. Biochemistry (1991) 1.14

Structure of a Michaelis complex analogue: propionate binds in the substrate carboxylate site of alanine racemase. Biochemistry (1999) 1.12