(Q58043842)

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

1 reference

7 January 2021

The Protein Data Bank

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Protein structure prediction and structural genomics

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Comparative protein structure modeling of genes and genomes

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Ab initio protein structure prediction: progress and prospects.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A surprising simplicity to protein folding.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

MODBASE, a database of annotated comparative protein structure models, and associated resources.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

CAFASP2: the second critical assessment of fully automated structure prediction methods

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

LiveBench-1: continuous benchmarking of protein structure prediction servers

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

EVA: continuous automatic evaluation of protein structure prediction servers.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

100,000 protein structures for the biologist

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Structural genomics: beyond the human genome project

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Completeness in structural genomics.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Basic local alignment search tool

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Rapid and sensitive sequence comparison with FASTP and FASTA

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Alignment of protein sequences by their profiles

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Hidden Markov models that use predicted local structure for fold recognition: alphabets of backbone geometry

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Perspectives in protein-fold recognition

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Comparative protein structure modeling by iterative alignment, model building and model assessment

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A possible three-dimensional structure of bovine α-lactalbumin based on that of hen's egg-white lysozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Comparative model-building of the mammalian serine proteases

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Knowledge-based prediction of protein structures and the design of novel molecules

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Accurate modeling of protein conformation by automatic segment matching

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A new method for building protein conformations from sequence alignments with homologues of known structure

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Comparative protein modelling by satisfaction of spatial restraints

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Generalized comparative modeling (GENECOMP): a combination of sequence comparison, threading, and lattice modeling for protein structure prediction and refinement.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

On the use of sequence homologies to predict protein structure: identical pentapeptides can have completely different conformations

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Chameleon sequences in the PDB

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Modeling of loops in protein structures

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A hierarchical approach to all-atom protein loop prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Canonical structures for the hypervariable regions of immunoglobulins

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

An algorithm for determining the conformation of polypeptide segments in proteins by systematic search

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Prediction of the folding of short polypeptide segments by uniform conformational sampling

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Predicting antibody hypervariable loop conformation. I. Ensembles of random conformations for ringlike structures

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

PDB-based protein loop prediction: parameters for selection and methods for optimization.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

CODA: a combined algorithm for predicting the structurally variable regions of protein models.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Conformation of β-hairpins in protein structures

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Conformations of immunoglobulin hypervariable regions

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Taxonomy and conformational analysis of loops in proteins.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

An automated classification of the structure of protein loops.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Predicting the conformational class of short and medium size loops connecting regular secondary structures: application to comparative modelling.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Comparison of systematic search and database methods for constructing segments of protein structure

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Modelling the polypeptide backbone with 'spare parts' from known protein structures

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Predicting antibody hypervariable loop conformations. II: Minimization and molecular dynamics studies of MCPC603 from many randomly generated loop conformations

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Conformational sampling using high-temperature molecular dynamics

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Structure-based inhibitor design by using protein models for the development of antiparasitic agents

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Development of an extended simulated annealing method: Application to the modeling of complementary determining regions of immunoglobulins

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Modeling of protein loops by simulated annealing

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Biased probability Monte Carlo conformational searches and electrostatic calculations for peptides and proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Determining protein loop conformation using scaling-relaxation techniques

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A self consistent mean field approach to simultaneous gap closure and side-chain positioning in homology modelling

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A graph-theoretic algorithm for comparative modeling of protein structure

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Evaluating conformational free energies: the colony energy and its application to the problem of loop prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Distinguishing native conformations of proteins from decoys with an effective free energy estimator based on the OPLS all-atom force field and the Surface Generalized Born solvent model

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Ab initio construction of polypeptide fragments: Accuracy of loop decoy discrimination by an all-atom statistical potential and the AMBER force field with the Generalized Born solvation model

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Ab initio construction of polypeptide fragments: efficient generation of accurate, representative ensembles.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

The predicted structure of immunoglobulin D1.3 and its comparison with the crystal structure

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Role of hydrophobicity in the binding of coenzymes. Appendix. Translational and rotational contribution to the free energy of dissociation

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Tertiary templates for proteins. Use of packing criteria in the enumeration of allowed sequences for different structural classes

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A new approach to the rapid determination of protein side chain conformations

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Backbone-dependent rotamer library for proteins. Application to side-chain prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Bayesian statistical analysis of protein side-chain rotamer preferences

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Improved modeling of side-chains in proteins with rotamer-based methods: A flexible rotamer model

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Extending the accuracy limits of prediction for side-chain conformations

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Side-chain and backbone flexibility in protein core design

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Predicting local structural changes that result from point mutations

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Homology modelling of annexin I: implicit solvation improves side-chain prediction and combination of evaluation criteria allows recognition of different types of conformational error

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A graph-theory algorithm for rapid protein side-chain prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A method to configure protein side-chains from the main-chain trace in homology modelling

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Application of population balance model to the loss of hybridoma antibody productivity.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Fast and simple Monte Carlo algorithm for side chain optimization in proteins: application to model building by homology

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

The fuzzy-end elimination theorem: correctly implementing the side chain placement algorithm based on the dead-end elimination theorem

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Generalized dead-end elimination algorithms make large-scale protein side-chain structure prediction tractable: implications for protein design and structural genomics.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Side-chain prediction by neural networks and simulated annealing optimization.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Application of a self-consistent mean field theory to predict protein side-chains conformation and estimate their conformational entropy

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Protein sidechain conformer prediction: a test of the energy function

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Force Field Validation Using Protein Side Chain Prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Side-chain modeling with an optimized scoring function

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

All-atom empirical potential for molecular modeling and dynamics studies of proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Derivation of rules for comparative protein modeling from a database of protein structure alignments

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Prediction of loop geometries using a generalized born model of solvation effects

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Evolution and physics in comparative protein structure modeling.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

On the Role of the Crystal Environment in Determining Protein Side-chain Conformations

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Generation of accurate protein loop conformations through low-barrier molecular dynamics

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

The current state of the art in protein structure prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A brighter future for protein structure prediction

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Identifying native-like protein structures using physics-based potentials

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Homology modeling using simulated annealing of restrained molecular dynamics and conformational search calculations with CONGEN: application in predicting the three-dimensional structure of murine homeodomain Msx-1.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Completion and refinement of 3-D homology models with restricted molecular dynamics: application to targets 47, 58, and 111 in the CASP modeling competition and posterior analysis

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

The SGB/NP hydration free energy model based on the surface generalized born solvent reaction field and novel nonpolar hydration free energy estimators.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Large-scale protein structure modeling of the Saccharomyces cerevisiae genome

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Reliability of assessment of protein structure prediction methods.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Protein modelling for all

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Tools for comparative protein structure modeling and analysis

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

DBAli: a database of protein structure alignments.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

ModLoop: automated modeling of loops in protein structures

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Structure-based assessment of missense mutations in human BRCA1: implications for breast and ovarian cancer predisposition.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Anti-HIV-1 activity of 3-deaza-adenosine analogs. Inhibition of S-adenosylhomocysteine hydrolase and nucleotide congeners

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

mRNA cap-1 methyltransferase in the SARS genome.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Docking ligands onto binding site representations derived from proteins built by homology modelling.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Ligand-supported Homology Modelling of Protein Binding-sites using Knowledge-based Potentials

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Ligand-supported homology modeling of g-protein-coupled receptor sites: models sufficient for successful virtual screening

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Information decay in molecular docking screens against holo, apo, and modeled conformations of enzymes

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Structure-based design of parasitic protease inhibitors

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Leishmania major: molecular modeling of cysteine proteases and prediction of new nonpeptide inhibitors

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Cysteine proteinases from distinct cellular compartments are recruited to phagocytic vesicles by Entamoeba histolytica

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Structure-based approach for the discovery of bis-benzamidines as novel inhibitors of matriptase

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Discovery of small-molecule inhibitors of Bcl-2 through structure-based computer screening

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

In silico discovery of novel retinoic acid receptor agonist structures

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Novel inhibitors of Trypanosoma cruzi dihydrofolate reductase.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

WHAT IF: a molecular modeling and drug design program

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Kinases, Homology Models, and High Throughput Docking

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

High throughput docking for library design and library prioritization

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Performance of 3D-database molecular docking studies into homology models

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Progress toward virtual screening for drug side effects.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Protein-based virtual screening of chemical databases. II. Are homology models of G-Protein Coupled Receptors suitable targets?

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Structure-based identification of binding sites, native ligands and potential inhibitors for G-protein coupled receptors.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Prediction of structure and function of G protein-coupled receptors

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Modeling the 3D structure of GPCRs from sequence

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Probing the structure of falcipain-3, a cysteine protease from Plasmodium falciparum: comparative protein modeling and docking studies

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Design of novel N-(2,4-dioxo-1,2,3,4-tetrahydro-thieno[3,2-d]pyrimidin-7-yl)-guanidines as thymidine phosphorylase inhibitors, and flexible docking to a homology model

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Homology modelling and docking studies on Varicella Zoster Virus Thymidine kinase

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Homology modeling using multiple molecular dynamics simulations and docking studies of the human androgen receptor ligand binding domain bound to testosterone and nonsteroidal ligands.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Design of selective and soluble inhibitors of tumor necrosis factor-alpha converting enzyme (TACE).

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Molecular modeling of wild-type and antifolate resistant mutant Plasmodium falciparum DHFR.

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

Discovery of a potent and selective protein kinase CK2 inhibitor by high-throughput docking

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021

A novel approach for the development of selective Cdk4 inhibitors: library design based on locations of Cdk4 specific amino acid residues

1 reference

https://api.crossref.org/works/10.1016%2FS0065-7743%2804%2939020-2

7 January 2021