Combining evolutionary information and neural networks to predict protein secondary structure

Learning representations by back-propagating errors

1986 • 25,825 citations

Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features

1983 • 14,802 citations

The protein data bank: A computer-based archival file for macromolecular structures

1977 • 8,627 citations

Principles that Govern the Folding of Protein Chains

1973 • 6,771 citations

Comparison of the predicted and observed secondary structure of T4 phage lysozyme

1975 • 4,853 citations

Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins

1978 • 4,566 citations

Prediction of protein conformation

1974 • 3,327 citations

Assessment of protein models with three-dimensional profiles

1992 • 3,317 citations

Prediction of Protein Secondary Structure at Better than 70% Accuracy

1993 • 2,958 citations

Prediction of the Secondary Structure of Proteins from their Amino Acid Sequence

1979 • 2,930 citations

The structure of proteins: Two hydrogen-bonded helical configurations of the polypeptide chain

1951 • 2,750 citations

The relation between the divergence of sequence and structure in proteins.

1986 • 2,373 citations

Conformational parameters for amino acids in helical, β-sheet, and random coil regions calculated from proteins

1974 • 2,173 citations

Solvation energy in protein folding and binding

1986 • 1,853 citations

Database of homology‐derived protein structures and the structural meaning of sequence alignment

1991 • 1,641 citations

Structural patterns in globular proteins

1976 • 1,286 citations

Predicting the secondary structure of globular proteins using neural network models

1988 • 1,243 citations

Calculation of conformational ensembles from potentials of mena force

1990 • 1,091 citations

Quantitative analysis of protein far UV circular dichroism spectra by neural networks

1992 • 1,085 citations

Molecular dynamics simulations in biology

1990 • 1,033 citations

One thousand families for the molecular biologist

1992 • 1,023 citations

Evaluation of secondary structure of proteins from UV circular dichroism spectra using an unsupervised learning neural network

1993 • 998 citations

Protein secondary structure and circular dichroism: A practical guide

1990 • 926 citations

Selection of representative protein data sets

1992 • 823 citations

Configurations of Polypeptide Chains With Favored Orientations Around Single Bonds

1951 • 778 citations

Improvements in protein secondary structure prediction by an enhanced neural network

1990 • 708 citations

Protein structure alignment

1989 • 683 citations

Crystallographic structure and functional implications of the nitrogenase molybdenum–iron protein from Azotobacter vinelandii

1992 • 600 citations

Further developments of protein secondary structure prediction using information theory

1987 • 573 citations

PHD-an automatic mail server for protein secondary structure prediction

1994 • 561 citations

Accurate modeling of protein conformation by automatic segment matching

1992 • 558 citations

The SWISS-PROT protein sequence data bank

1992 • 530 citations

Improved prediction of protein secondary structure by use of sequence profiles and neural networks.

1993 • 525 citations

Protein secondary structure prediction with a neural network.

1989 • 506 citations

Crystal structure of a Src-homology 3 (SH3) domain

1992 • 474 citations

Prediction of protein secondary structure and active sites using the alignment of homologous sequences

1987 • 449 citations

How good are predictions of protein secondary structure?

1983 • 375 citations

Structural principles of the globular organization of protein chains. A stereochemical theory of globular protein secondary structure

1974 • 355 citations

An algorithm for protein secondary structure prediction based on class prediction

1987 • 348 citations

Redefining the goals of protein secondary structure prediction

1994 • 341 citations

Solution Structure of the SH3 Domain of Src and Identification of Its Ligand-Binding Site

1992 • 334 citations

Convex constraint analysis: a natural deconvolution of circular dichroism curves of proteins

1991 • 329 citations

Environment‐specific amino acid substitution tables: Tertiary templates and prediction of protein folds

1992 • 314 citations

Folding of Polypeptide Chains in Proteins: A Proposed Mechanism for Folding

1971 • 309 citations

An algorithm for secondary structure determination in proteins based on sequence similarity

1986 • 305 citations

The Genetic Control of Tertiary Protein Structure: Studies With Model Systems

1963 • 301 citations

SH3 — an abundant protein domain in search of a function

1992 • 280 citations

Conformational properties of amino acid residues in globular proteins

1976 • 278 citations

Protein secondary structure prediction using logic-based machine learning

1992 • 246 citations

Theory of protein secondary structure and algorithm of its prediction

1983 • 241 citations

Analysis of insertions/deletions in protein structures

1992 • 241 citations

Detection of native‐like models for amino acid sequences of unknown three‐dimensional structure in a data base of known protein conformations

1992 • 239 citations

Hybrid system for protein secondary structure prediction

1992 • 230 citations

Tertiary structural constraints on protein evolutionary diversity: templates, key residues and structure prediction

1990 • 215 citations

Turn prediction in proteins using a pattern-matching approach

1986 • 212 citations

The HSSP database of protein structure-sequence alignments

1997 • 206 citations

The cytochrome fold and the evolution of bacterial energy metabolism

1976 • 205 citations

Secondary structure prediction: combination of three different methods

1988 • 199 citations

Detection of common three‐dimensional substructures in proteins

1991 • 197 citations

Prediction of protein backbone conformation based on seven structure assignments

1991 • 193 citations

Protein secondary structure and homology by neural networks The α‐helices in rhodopsin

1988 • 176 citations

Patterns of divergence in homologous proteins as indicators of secondary and tertiary structure: A prediction of the structure of the catalytic domain of protein kinases

1991 • 173 citations

Prediction of protein structural class from the amino acid sequence

1986 • 173 citations

Secondary structure‐based profiles: Use of structure‐conserving scoring tables in searching protein sequence databases for structural similarities

1991 • 170 citations

An optimization approach to predicting protein structural class from amino acid composition

1992 • 164 citations

Analysis of the code relating sequence to conformation in proteins: Possible implications for the mechanism of formation of helical regions

1971 • 154 citations

Fast and simple monte carlo algorithm for side chain optimization in proteins: Application to model building by homology

1992 • 154 citations

Amino acid sequence analysis of the annexin super‐gene family of proteins

1991 • 152 citations

Prediction of Protein Structure by Evaluation of Sequence-structure Fitness

1993 • 143 citations

Structure of the Pl3K SH3 domain and analysis of the SH3 family

1993 • 137 citations

A search for the most stable folds of protein chains

1991 • 135 citations

Prediction of secondary structure by evolutionary comparison: Application to the α subunit of tryptophan synthase

1987 • 134 citations

Prediction of structural and functional features of protein and nucleic acid sequences by artificial neural networks

1992 • 129 citations

Secondary structure assignment for .alpha./.beta. proteins by a combinatorial approach

1983 • 122 citations

Improvements in a secondary structure prediction method based on a search for local sequence homologies and its use as a model building tool

1988 • 119 citations

Solution structure of the SH3 domain of phospholipase C-?

1993 • 117 citations

The Nonhelical Structure of Antifreeze Protein Type III

1993 • 115 citations

Deconvolution of the circular dichroism spectra of proteins: The circular dichroism spectra of the antiparallel β‐sheet in proteins

1992 • 113 citations

Extracting information on folding from the amino acid sequence: Accurate predictions for protein regions with preferred conformation in the absence of tertiary interactions

1992 • 110 citations

Polarity as a criterion in protein design

1989 • 110 citations

Assessment of secondary-structure prediction of proteins comparison of computerized chou-fasman method with others

1983 • 109 citations

Conservation analysis and structure prediction of the SH2 family of phosphotyrosine binding domains

1992 • 107 citations

Predicting protein secondary structure content

1992 • 106 citations

Quantification of secondary structure prediction improvement using multiple alignments

1993 • 104 citations

Prediction of protein folding from amino acid sequence over discrete conformation spaces

1991 • 103 citations

Prediction of protein structural class by discriminant analysis

1986 • 100 citations

Comparison of the structures of globins and phycocyanins: Evidence for evolutionary relationship

1990 • 94 citations

Progress in protein structure prediction?

1993 • 88 citations

Physical reasons for secondary structure stability: α‐Helices in short peptides

1991 • 87 citations

Analysis of the code relating sequence to conformation in globular proteins. Theory and application of expected information

1974 • 85 citations

Statistical analysis of the correlation among amino acid residues in helical, β-stractural and non-regular regions of globular proteins

1971 • 83 citations

Correlation of the Amino Acid Composition of a Protein to Its Structural and Biological Characters1

1982 • 81 citations

Cross‐validation of protein structural class prediction using statistical clustering and neural networks

1993 • 81 citations

Classification of Proteins into Groups Based on Amino Acid Composition and Other Characters. I. Angular Distribution

1983 • 80 citations

Predicting protein secondary structure with a nearest-neighbor algorithm

1992 • 80 citations

Analysis of the Code Relating Sequence to Secondary Structure in Proteins

1970 • 78 citations

A simple method for predicting the secondary structure of globular proteins: implications and accuracy

1988 • 75 citations

Prediction of protein folding class from amino acid composition

1993 • 73 citations

Improvements in the prediction of protein backbone topography by reduction of statistical errors

1979 • 73 citations

The HSSP data base of protein structure — sequence alignments

1993 • 61 citations

Secondary structure prediction of all-helical proteins in two states

1993 • 61 citations

Modeling of globular proteins

1990 • 56 citations

Molecular dynamics studies of proteins

1993 • 54 citations

Extracting information on folding from the amino acid sequence: Consensus regions with preferred conformation in homologous proteins

1992 • 53 citations

On the nature of the protein folding code.

1993 • 45 citations

Amino acid composition and hydrophobicity patterns of protein domains correlate with their structures

1985 • 43 citations

Predicted Secondary Structure for the Src Homology 3 Domain

1993 • 42 citations

Computer analysis of DNA and protein sequences

1991 • 36 citations

Predicting de novo the folded structure of proteins

1992 • 36 citations

The nitrogenase MoFe protein

1993 • 35 citations

Search for the stable state of a short chain in a molecular field

1992 • 35 citations

Predicting secondary structures of membrane proteins with neural networks

1993 • 34 citations

Improving the prediction of secondary structure of ‘TIM-barrel’ enzymes

1991 • 32 citations

Crystal structure of a flavoprotein related to the subunits of bacterial luciferase.

1993 • 29 citations

Predicting de novo the folded structure of proteins

1992 • 28 citations

The Protein Data Bank

1984 • 27 citations

Predicting the conformation of proteins man versus machine

1993 • 26 citations

The protein structure code: what is its present status?

1991 • 26 citations

Limits on α‐helix prediction with neural network models

1992 • 24 citations

Use of Class Prediction to Improve Protein Secondary Structure Prediction

1989 • 21 citations

Prediction of protein secondary structures by a neural network

1993 • 20 citations

Proposed structure for the DNA-binding domain of the Helix—Loop—Helix family of eukaryotic gene regulatory proteins

1993 • 19 citations

New joint prediction algorithm (Q7-JASEP) improves the prediction of protein secondary structure

1991 • 19 citations

Prediction of protein function by discriminant analysis

1986 • 16 citations

New paths from dead ends

1992 • 14 citations

PRONET: a microcomputer program for predicting the secondary structure of proteins with a neural network

1989 • 12 citations

Protein architecture: A practical approach

1992 • 12 citations

The local information content of the protein structural database

1993 • 7 citations

EXERCISING MULTI-LAYERED NETWORKS ON PROTEIN SECONDARY STRUCTURE

1992 • 5 citations

Incorporating knowledge in multi-layer networks: the example of protein secondary structure prediction

1990 • 5 citations

Deleted Work

1955 • 0 citations