Application of PROSPECT in CASP4: Characterizing protein structures with new folds

Proteins: Structure, Function and Genetics

Volumn 45, Issue SUPPL. 5, 2001, Pages 140-148

  Xu, Dong ^a   Crawford, Oakley H ^a   Locascio, Philip F ^a   Xu, Ying ^a  

^a OAK RIDGE NATIONAL LABORATORY   (United States)

Author keywords

CASP; Fold recognition; New fold; Protein structure prediction; Threading

Indexed keywords

PROTEIN;

AB INITIO CALCULATION; AMINO ACID SEQUENCE; ANALYTIC METHOD; ARTICLE; COMPUTER PROGRAM; ENERGY; MOLECULAR MODEL; MOLECULAR RECOGNITION; PRIORITY JOURNAL; PROTEIN FOLDING; PROTEIN STRUCTURE; SEQUENCE ALIGNMENT; STRUCTURE ANALYSIS; CHEMICAL STRUCTURE; COMPUTER SIMULATION; PROTEIN CONFORMATION; PROTEIN SECONDARY STRUCTURE; PROTEIN TERTIARY STRUCTURE; SEQUENCE ANALYSIS;

COMPUTER SIMULATION; MODELS, MOLECULAR; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; SEQUENCE ANALYSIS, PROTEIN; SOFTWARE;

EID: 0035703315     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.10022     Document Type: Article

References (29)

1. Protein structure prediction issue
2. Protein structure prediction issue
3. Protein structure prediction issue
4. Protein threading using PROSPECT: Design and evaluation
5. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
6. Protein structure prediction issue
7. The protein data bank: A computer based archival file for macromolecular structures
8. Protein threading by PROSPECT: A prediction experiment in CASP3
9. An efficient computational method for globally optimal threading
10. A computational method for NMR-constrained protein threading
11. GenTHREADER: An efficient and reliable protein fold recognition method for genomic sequences
12. A practical method for interpretation of threading scores: An application of neural network
13. Mapping the protein universe
14. Pfam 3.1: 1313 multiple alignments match the majority of proteins
15. The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999
16. Prediction of protein secondary structure at better than 70% accuracy
17. Recent improvements of the ProDom database of protein domain families
18. Comparative protein modelling by satisfaction of spatial restraints
19. WHAT IF: A molecular modelling and drug design program
20. PROCHECK: A program to check the stereochemical quality of protein structures
21. SARFing the PDB
22. RASMOL: Biomolecular graphics for all
23. VMD - Visual molecular dynamics
24. Assessment of the CASP4 fold recognition category
25. RMS/coverage graphs: A qualitative method for comparing three-dimensional protein structure predictions
26. Protein structure comparison by alignment of distance matrices
27. Assembly of protein tertiary structures from fragments with similar local sequences using simulated anealing and bayesian scoring functions