Optimal sequence selection in proteins of known structure by simulated evolution.

De novo design of the hydrophobic cores of proteins. Protein Sci (1995) 2.87

Protein design automation. Protein Sci (1996) 2.69

De novo design of the hydrophobic core of ubiquitin. Protein Sci (1997) 1.69

Coupling backbone flexibility and amino acid sequence selection in protein design. Protein Sci (1997) 1.25

Prediction of amino acid sequence from structure. Protein Sci (2000) 1.19

Combining computational and experimental screening for rapid optimization of protein properties. Proc Natl Acad Sci U S A (2002) 1.19

A new approach to the design of uniquely folded thermally stable proteins. Protein Sci (2000) 1.05

Implicit solvation in the self-consistent mean field theory method: sidechain modelling and prediction of folding free energies of protein mutants. J Comput Aided Mol Des (2001) 1.04

Challenges in the computational design of proteins. J R Soc Interface (2009) 1.03

Development of a cytokine analog with enhanced stability using computational ultrahigh throughput screening. Protein Sci (2002) 1.01

Action-at-a-distance interactions enhance protein binding affinity. Protein Sci (2005) 1.00

Association of a model transmembrane peptide containing gly in a heptad sequence motif. Biophys J (2004) 0.98

De novo self-assembling collagen heterotrimers using explicit positive and negative design. Biochemistry (2010) 0.96

Rational design of new binding specificity by simultaneous mutagenesis of calmodulin and a target peptide. Biochemistry (2006) 0.96

Computational design of membrane proteins. Structure (2012) 0.95

Computational design of a collagen A:B:C-type heterotrimer. J Am Chem Soc (2011) 0.91

Computational stabilization of human growth hormone. Protein Sci (2002) 0.87

A maximum likelihood framework for protein design. BMC Bioinformatics (2006) 0.86

Rotamer optimization for protein design through MAP estimation and problem-size reduction. J Comput Chem (2009) 0.86

Testing the Coulomb/Accessible Surface Area solvent model for protein stability, ligand binding, and protein design. BMC Bioinformatics (2008) 0.83

A search for energy minimized sequences of proteins. PLoS One (2009) 0.81

Computational protein design: validation and possible relevance as a tool for homology searching and fold recognition. PLoS One (2010) 0.81

Circular permutation directs orthogonal assembly in complex collagen peptide mixtures. J Biol Chem (2013) 0.80

Expanded explorations into the optimization of an energy function for protein design. IEEE/ACM Trans Comput Biol Bioinform (2014) 0.79

Design of net-charged abc-type collagen heterotrimers. J Struct Biol (2013) 0.79

Design, synthesis, and characterization of a novel hemoprotein. Protein Sci (2001) 0.77

Computational protein design with backbone plasticity. Biochem Soc Trans (2016) 0.75

Optimization techniques in molecular structure and function elucidation. Comput Chem Eng (2009) 0.75

PROTDES: CHARMM toolbox for computational protein design. Syst Synth Biol (2009) 0.75

Genetic algorithms as a tool for helix design--computational and experimental studies on prion protein helix 1. J Comput Aided Mol Des (2006) 0.75

Patenting computer-designed peptides. J Comput Aided Mol Des (1998) 0.75

Optimization by simulated annealing. Science (1983) 71.02

Dominant forces in protein folding. Biochemistry (1990) 15.34

Spin glasses and the statistical mechanics of protein folding. Proc Natl Acad Sci U S A (1987) 11.69

Solvation energy in protein folding and binding. Nature (1986) 10.94

Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes. J Mol Biol (1987) 10.85

Structure of the lambda complex at 2.5 A resolution: details of the repressor-operator interactions. Science (1988) 4.67

Combinatorial cassette mutagenesis as a probe of the informational content of protein sequences. Science (1988) 3.13

At the crossroads of chemistry and immunology: catalytic antibodies. Science (1991) 3.06

Alternative packing arrangements in the hydrophobic core of lambda repressor. Nature (1989) 2.89

The role of internal packing interactions in determining the structure and stability of a protein. J Mol Biol (1991) 2.83

Implications of thermodynamics of protein folding for evolution of primary sequences. Nature (1990) 2.70

Modeling the effects of mutations on the denatured states of proteins. Protein Sci (1992) 2.21

Construction of new ligand binding sites in proteins of known structure. I. Computer-aided modeling of sites with pre-defined geometry. J Mol Biol (1991) 2.05

Accurate prediction of the stability and activity effects of site-directed mutagenesis on a protein core. Nature (1991) 1.65

Mutational studies of protein structures and their stabilities. Q Rev Biophys (1992) 1.36

Computer-aided molecular design. Science (1987) 1.33

Design and synthesis of a peptide having chymotrypsin-like esterase activity. Science (1990) 1.33

Prediction of the activity and stability effects of site-directed mutagenesis on a protein core. J Mol Biol (1992) 0.91

The interpretation of protein structures: estimation of static accessibility. J Mol Biol (1971) 40.24

Areas, volumes, packing and protein structure. Annu Rev Biophys Bioeng (1977) 16.38

Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes. J Mol Biol (1987) 10.85

The chemical shift index: a fast and simple method for the assignment of protein secondary structure through NMR spectroscopy. Biochemistry (1992) 9.40

Relationship between nuclear magnetic resonance chemical shift and protein secondary structure. J Mol Biol (1991) 8.38

The interpretation of protein structures: total volume, group volume distributions and packing density. J Mol Biol (1974) 5.39

A voltage-gated ion channel model inferred from the crystal structure of alamethicin at 1.5-A resolution. Nature (1982) 4.92

Structural determinants of peptide-binding orientation and of sequence specificity in SH3 domains. Nature (1994) 4.29

Chemical cross-linking: reagents and problems in studies of membrane structure. Annu Rev Biochem (1977) 4.19

The matching of physical models to three-dimensional electron-density maps: a simple optical device. J Mol Biol (1968) 3.30

Glutaraldehyde as a protein cross-linkage reagent. J Mol Biol (1968) 3.18

Packing of alpha-helices: geometrical constraints and contact areas. J Mol Biol (1978) 2.95

Use of the avidin-biotin complex for specific staining of biological membranes in electron microscopy. Proc Natl Acad Sci U S A (1974) 2.91

Germline mutations in the Von Hippel-Lindau disease (VHL) gene in families from North America, Europe, and Japan. Hum Mutat (1996) 2.80

The three-dimensional structure of ribonuclease-S. Interpretation of an electron density map at a nominal resolution of 2 A. J Biol Chem (1970) 2.77

Somatic mutations of the von Hippel-Lindau disease tumour suppressor gene in non-familial clear cell renal carcinoma. Hum Mol Genet (1994) 2.65

An approach to nearest neighbor analysis of membrane proteins. Application to the human erythrocyte membrane of a method employing cleavable cross-linkages. J Biol Chem (1974) 2.53

Identification of intragenic mutations in the von Hippel-Lindau disease tumour suppressor gene and correlation with disease phenotype. Hum Mol Genet (1994) 2.52

1H-15N heteronuclear NMR studies of Escherichia coli thioredoxin in samples isotopically labeled by residue type. Biochemistry (1985) 2.39

Familial gastric cancer: overview and guidelines for management. J Med Genet (1999) 2.38

The structure of ribonuclease-S at 3.5 A resolution. J Biol Chem (1967) 2.33

The HA2 subunit of influenza hemagglutinin inserts into the target membrane prior to fusion. J Biol Chem (1991) 2.07

Construction of new ligand binding sites in proteins of known structure. I. Computer-aided modeling of sites with pre-defined geometry. J Mol Biol (1991) 2.05

An experimental procedure for increasing the structural resolution of chemical hydrogen-exchange measurements on proteins: application to ribonuclease S peptide. J Mol Biol (1979) 1.99

Crystal structure of hen egg-white lysozyme at a hydrostatic pressure of 1000 atmospheres. J Mol Biol (1987) 1.97

Characterization of colicin Ia and colicin Ib. Purification and some physical properties. J Biol Chem (1970) 1.93

Heat capacity changes for protein-peptide interactions in the ribonuclease S system. Biochemistry (1992) 1.91

NMR sequential assignment of Escherichia coli thioredoxin utilizing random fractional deuteriation. Biochemistry (1988) 1.83

Phenotypic expression in von Hippel-Lindau disease: correlations with germline VHL gene mutations. J Med Genet (1996) 1.76

Protein folding: evaluation of some simple rules for the assembly of helices into tertiary structures with myoglobin as an example. J Mol Biol (1979) 1.72

Calculation of molecular volumes and areas for structures of known geometry. Methods Enzymol (1985) 1.64

Anion binding and pH-dependent electrostatic effects in ribonuclease. Biochemistry (1982) 1.62

Design of a diffractometer and flow cell system for X-ray analysis of crystalline proteins with applications to the crystal chemistry of ribonuclease-S. J Mol Biol (1967) 1.56

Somatic inactivation of the VHL gene in Von Hippel-Lindau disease tumors. Am J Hum Genet (1997) 1.54

The crystal structure of a mutant protein with altered but improved hydrophobic core packing. Proc Natl Acad Sci U S A (1994) 1.48

Thermodynamics of the binding of S-peptide to S-protein to form ribonuclease S.. Biochemistry (1971) 1.45

Protein structure, ribonuclease-S and nucleotide interactions. Cold Spring Harb Symp Quant Biol (1972) 1.44

Construction of new ligand binding sites in proteins of known structure. II. Grafting of a buried transition metal binding site into Escherichia coli thioredoxin. J Mol Biol (1991) 1.44

Molecular genetic investigations of the mechanism of tumourigenesis in von Hippel-Lindau disease: analysis of allele loss in VHL tumours. Hum Genet (1994) 1.41

Epigenetic inactivation of the RASSF1A 3p21.3 tumor suppressor gene in both clear cell and papillary renal cell carcinoma. Cancer Res (2001) 1.35

Critical residues in an SH3 domain from Sem-5 suggest a mechanism for proline-rich peptide recognition. Nat Struct Biol (1994) 1.33

Replacement of proline-76 with alanine eliminates the slowest kinetic phase in thioredoxin folding. Biochemistry (1987) 1.32

Protein packing: dependence on protein size, secondary structure and amino acid composition. J Mol Biol (2000) 1.28

Calcium-induced increase in the radius of gyration and maximum dimension of calmodulin measured by small-angle X-ray scattering. Biochemistry (1985) 1.28

Refinement of the crystal structure of ribonuclease S. Comparison with and between the various ribonuclease A structures. Biochemistry (1992) 1.26

A preliminary study of the use of the Denver development screening test in a health department. Dev Med Child Neurol (1973) 1.25

Photochemical labeling of the surface proteins of human erythrocytes. Biochemistry (1974) 1.25

Thermodynamics of protein-peptide interactions in the ribonuclease S system studied by titration calorimetry. Biochemistry (1990) 1.24

Crystallographic structures of ribonuclease S variants with nonpolar substitution at position 13: packing and cavities. Biochemistry (1992) 1.21

Increase in apparent compressibility of cytochrome c upon oxidation. Proc Natl Acad Sci U S A (1982) 1.20

3-Trifluoromethyl-3-phenyldiazirine. A new carbene generating group for photolabeling reagents. J Biol Chem (1980) 1.19

The structure of ribonuclease-S at 6 A resolution. J Biol Chem (1967) 1.18

Preparative-scale isolation of isotopically labeled amino acids. Anal Biochem (1982) 1.15

The hydrophobic core of Escherichia coli thioredoxin shows a high tolerance to nonconservative single amino acid substitutions. Biochemistry (1992) 1.14

Analysis of membranes photolabeled with lipid analogues. Reaction of phospholipids containing a disulfide group and a nitrene or carbene precursor with lipids and with gramicidin A. J Biol Chem (1980) 1.14

Hydrogen exchange from identified regions of the S-protein component of ribonuclease as a function of temperature, pH, and the binding of S-peptide. J Mol Biol (1981) 1.13

Genetic linkage between von Hippel-Lindau disease and three microsatellite polymorphisms refines the localisation of the VHL locus. Hum Mol Genet (1993) 1.10

Reactivity and structural role of protein amino groups in tobacco mosaic virus. J Mol Biol (1968) 1.08

An analysis of phenotypic variation in the familial cancer syndrome von Hippel-Lindau disease: evidence for modifier effects. Am J Hum Genet (1998) 1.07

Electrostatic field of the large fragment of Escherichia coli DNA polymerase I. J Mol Biol (1985) 1.07

SEQSEE: a comprehensive program suite for protein sequence analysis. Comput Appl Biosci (1994) 1.07

Simple techniques for the quantification of protein secondary structure by 1H NMR spectroscopy. FEBS Lett (1991) 1.07

Unnatural amino acid packing mutants of Escherichia coli thioredoxin produced by combined mutagenesis/chemical modification techniques. Protein Sci (1993) 1.06

Insertion of apocytochrome c into lipid vesicles. J Biol Chem (1984) 1.06

Molecular genetic investigation of sporadic renal cell carcinoma: analysis of allele loss on chromosomes 3p, 5q, 11p, 17 and 22. Br J Cancer (1994) 1.04

Electrostatic orientation during electron transfer between flavodoxin and cytochrome c. Nature (1983) 1.04

Reaction of dimethyl-3,3'-dithiobispropionimidate with intact human erythrocytes. Cross-linking of membrane proteins and hemoglobin. J Biol Chem (1975) 1.04

Cyclosporine, FK506, and rapamycin. Some effects on early activation events in serum-free, mitogen-stimulated mouse spleen cells. Transplantation (1990) 1.03

Effect of hydrostatic pressure on the solvent in crystals of hen egg-white lysozyme. J Mol Biol (1988) 1.03

The pH-dependent conformational change of diphtheria toxin. J Biol Chem (1988) 1.01

Proteolytic and chemical modification of colicin E3 activity. Biochemistry (1976) 1.00

Unrecognized adult phenylketonuria. Implications for obstetrics and psychiatry. N Engl J Med (1973) 0.99

Solvents, interfaces and protein structure. Ciba Found Symp (1977) 0.98

The pH dependence of hydrogen exchange in proteins. J Biol Chem (1983) 0.97

Molecular genetic analysis of FIH-1, FH, and SDHB candidate tumour suppressor genes in renal cell carcinoma. J Clin Pathol (2004) 0.97

Effects of binding of S-peptide and 2'-cytidine monophosphate on hydrogen exchange from the S-protein component of ribonuclease S. The amide protons of serine 123 and valine 124. J Mol Biol (1982) 0.95

Mixed disulfide intermediates during the reduction of disulfides by Escherichia coli thioredoxin. Biochemistry (1995) 0.95

Behavior of colicins E1, E2, and E3 attached to sephadex beads. Biochemistry (1976) 0.95

Participation of cysteinyl residues in the structure and function of muscle aldolase. Characterization of mixed disulfide derivatives. Biochemistry (1970) 0.94

Photochemical labeling of the cytoplasmic surface of the membranes of intact human erythrocytes. J Biol Chem (1975) 0.92

Stability of transmembrane regions in bacteriorhodopsin studied by progressive proteolysis. J Membr Biol (1985) 0.92

Thermodynamic and structural consequences of changing a sulfur atom to a methylene group in the M13Nle mutation in ribonuclease-S. Biochemistry (1994) 0.92

A PCR generated AccI RFLP in the 3' untranslated region of the von Hippel-Lindau disease (VHL) tumour suppressor gene. Hum Mol Genet (1994) 0.91

Identification of novel VHL targets that are associated with the development of renal cell carcinoma. Oncogene (2006) 0.90

Human erythrocytes and resealed ghosts. A comparison of membrane topology. J Biol Chem (1974) 0.90

Presymptomatic diagnosis of von Hippel-Lindau disease with flanking DNA markers. J Med Genet (1992) 0.90

Interactions in nonnative and truncated forms of staphylococcal nuclease as indicated by mutational free energy changes. Protein Sci (1995) 0.89

Stability and peptide binding affinity of an SH3 domain from the Caenorhabditis elegans signaling protein Sem-5. Protein Sci (1994) 0.88

Mobile unnatural amino acid side chains in the core of staphylococcal nuclease. Protein Sci (1996) 0.88

The influence of lipid state on the planar distribution of membrane proteins in Acholeplasma laidlawii. J Mol Biol (1976) 0.88

Paclitaxel and CYC3, an aurora kinase A inhibitor, synergise in pancreatic cancer cells but not bone marrow precursor cells. Br J Cancer (2012) 0.87

Identification of regions of potential flexibility in protein structures: folding units and correlations with intron positions. Biopolymers (1988) 0.86

Isoelectric point of a protein in the crosslinked crystalline state: beta-lactoglobulin. J Mol Biol (1968) 0.86

Internal packing and protein structural classes. Cold Spring Harb Symp Quant Biol (1987) 0.85

Cross-linking of elongation factor EF-G to the 50S ribosomal subunit of Escherichia coli. Biochemistry (1973) 0.85

MET mutation and familial gastric cancer. J Med Genet (2001) 0.85

Comparison of straight chain and cyclic unnatural amino acids embedded in the core of staphylococcal nuclease. Protein Sci (1997) 0.84

Reaction of a lipid-soluble, unsymmetrical, cleavable, cross-linking reagent with muscle aldolase and erythrocyte membrane proteins. J Biol Chem (1977) 0.83

Dimerization by colicin E3 in the absence of immunity protein. J Biol Chem (1983) 0.83

Differences in hydrogen exchange behavior between the oxidized and reduced forms of Escherichia coli thioredoxin. Protein Sci (1992) 0.83