메뉴 건너뛰기




Volumn 35, Issue 3, 1999, Pages 353-359

Averaging interaction energies over homologs improves protein fold recognition in gapless threading

Author keywords

Energy averaging; Homologous sequences; Interaction energies; Protein structure recognition; Threading

Indexed keywords

ARTICLE; CALCULATION; ENERGY; MOLECULAR INTERACTION; MOLECULAR RECOGNITION; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FOLDING; STRUCTURE ANALYSIS;

EID: 0033562809     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-0134(19990515)35:3<353::AID-PROT9>3.0.CO;2-E     Document Type: Article
Times cited : (24)

References (21)
  • 1
    • 0014688034 scopus 로고
    • Detailed molecular model for transfer ribonucleic acid
    • Levitt M. Detailed molecular model for transfer ribonucleic acid. Nature 1969;224:759-763.
    • (1969) Nature , vol.224 , pp. 759-763
    • Levitt, M.1
  • 2
    • 0018796254 scopus 로고
    • Improvements in the prediction of protein backbone topography by reduction of statistical errors
    • Maxfield FR, Scheraga HA. Improvements in the prediction of protein backbone topography by reduction of statistical errors. Biochemistry 1979;18:697-704.
    • (1979) Biochemistry , vol.18 , pp. 697-704
    • Maxfield, F.R.1    Scheraga, H.A.2
  • 5
    • 0025935158 scopus 로고
    • Patterns of divergence in homologous proteins as indicators of secondary and tertiary structure: The catalytic domain of protein kinases
    • Benner SA, Gerloff D. Patterns of divergence in homologous proteins as indicators of secondary and tertiary structure: the catalytic domain of protein kinases. Adv Enzyme Regul 1990;31: 121-181.
    • (1990) Adv Enzyme Regul , vol.31 , pp. 121-181
    • Benner, S.A.1    Gerloff, D.2
  • 6
    • 0029889988 scopus 로고    scopus 로고
    • PHD: Predicting one-dimensional protein structure by profile-based neutral networks
    • Rost B. PHD: predicting one-dimensional protein structure by profile-based neutral networks. Meth Enzymol 1996;226:525-539.
    • (1996) Meth Enzymol , vol.226 , pp. 525-539
    • Rost, B.1
  • 7
    • 0030631103 scopus 로고    scopus 로고
    • Simultaneous and coupled energy optimization of homologous proteins: A new tool for structure prediction
    • Keazar C, Elber R, Skolnick J. Simultaneous and coupled energy optimization of homologous proteins: a new tool for structure prediction. Fold Des 1997;2:247-259.
    • (1997) Fold Des , vol.2 , pp. 247-259
    • Keazar, C.1    Elber, R.2    Skolnick, J.3
  • 8
    • 0030627637 scopus 로고    scopus 로고
    • Meeting review: The second meeting on the critical assessment of techniques for protein structure prediction (CASP2), Asilomar, California, December 13-16, 1996
    • Dunbrack RL Jr, Gerloff DL, Bower M, Chen X, Lichtarge O, Cohen FE. Meeting review: the second meeting on the critical assessment of techniques for protein structure prediction (CASP2), Asilomar, California, December 13-16, 1996. Fold Des 1997;2: R27-42.
    • (1997) Fold Des , vol.2
    • Dunbrack R.L., Jr.1    Gerloff, D.L.2    Bower, M.3    Chen, X.4    Lichtarge, O.5    Cohen, F.E.6
  • 9
    • 0031052179 scopus 로고    scopus 로고
    • Protein structure: What is possible to predict now
    • Finkelstein AV. Protein structure: what is possible to predict now. Curr Opin Struct Biol 1997;7:60-71.
    • (1997) Curr Opin Struct Biol , vol.7 , pp. 60-71
    • Finkelstein, A.V.1
  • 10
    • 0028295169 scopus 로고
    • Correlated mutations and residue contacts in proteins
    • Goebel U, Sander C, Schneider R, Valencia A. Correlated mutations and residue contacts in proteins. Proteins 1994;18:309-317.
    • (1994) Proteins , vol.18 , pp. 309-317
    • Goebel, U.1    Sander, C.2    Schneider, R.3    Valencia, A.4
  • 11
    • 0001516165 scopus 로고    scopus 로고
    • 3D protein folds: Homologs against errors. A simple estimate based on the random energy model
    • Finkelstein AV. 3D Protein Folds: homologs against errors. A simple estimate based on the random energy model. Phys Rev Lett 1998;80:4823-4825.
    • (1998) Phys Rev Lett , vol.80 , pp. 4823-4825
    • Finkelstein, A.V.1
  • 12
    • 0007894360 scopus 로고
    • Predictive power of mean force pair potentials
    • Bohr H, Brunak S, editors. Amsterdam: IOS Press
    • Sippl MJ, Jaritz M. Predictive power of mean force pair potentials. In: Bohr H, Brunak S, editors. Protein structure by distance analysis. Amsterdam: IOS Press; 1994. p 113-134.
    • (1994) Protein Structure by Distance Analysis , pp. 113-134
    • Sippl, M.J.1    Jaritz, M.2
  • 13
    • 0031454514 scopus 로고    scopus 로고
    • Recognition of protein structure on coarse lattices with residue-residue energy functions
    • Reva BA, Finkelstein AV, Sanner MF, Olson AJ, Skolnick J. Recognition of protein structure on coarse lattices with residue-residue energy functions. Protein Eng 1997;10:1123-1130.
    • (1997) Protein Eng , vol.10 , pp. 1123-1130
    • Reva, B.A.1    Finkelstein, A.V.2    Sanner, M.F.3    Olson, A.J.4    Skolnick, J.5
  • 14
    • 0028857906 scopus 로고
    • Perfect temperature for protein structure prediction and folding
    • Finkelstein AV, Gutin AM, Badretdinov AY. Perfect temperature for protein structure prediction and folding. Proteins 1995;23:151-162.
    • (1995) Proteins , vol.23 , pp. 151-162
    • Finkelstein, A.V.1    Gutin, A.M.2    Badretdinov, A.Y.3
  • 15
    • 0030781040 scopus 로고    scopus 로고
    • Residue-residue mean force potentials for protein structure recognition
    • Reva BA, Finkelstein AV, Sanner MF, Olson AJ. Residue-residue mean force potentials for protein structure recognition. Protein Eng 1997;10:865-876.
    • (1997) Protein Eng , vol.10 , pp. 865-876
    • Reva, B.A.1    Finkelstein, A.V.2    Sanner, M.F.3    Olson, A.J.4
  • 16
    • 0345246597 scopus 로고    scopus 로고
    • Derivation and testing residue-residue mean-force potentials for use in protein structure recognition
    • Totowa, NJ: Humana Press, Inc.; In press
    • Reva BA, Finkelstein AV, Skolnick J. Derivation and testing residue-residue mean-force potentials for use in protein structure recognition. In: Protein structure prediction methods and protocols. Totowa, NJ: Humana Press, Inc.; 1999. In press.
    • (1999) Protein Structure Prediction Methods and Protocols
    • Reva, B.A.1    Finkelstein, A.V.2    Skolnick, J.3
  • 17
    • 0025008445 scopus 로고
    • Identification of native folds amongst a large number of incorrect models
    • Hendich M, Lackner P, Weitckus S et al. Identification of native folds amongst a large number of incorrect models. J Mol Biol 1990;216:167-180.
    • (1990) J Mol Biol , vol.216 , pp. 167-180
    • Hendich, M.1    Lackner, P.2    Weitckus, S.3
  • 18
    • 0026030641 scopus 로고
    • Database of homology-derived structures and the structural meaning of sequence alignment
    • Sander C, Schneider R. Database of homology-derived structures and the structural meaning of sequence alignment. Proteins 1991;9:56-68.
    • (1991) Proteins , vol.9 , pp. 56-68
    • Sander, C.1    Schneider, R.2
  • 19
    • 0000939821 scopus 로고    scopus 로고
    • What is the probability of a chance prediction of a protein structure with an rmsd of 6Å?
    • Reva BA, Finkelstein AV, Skolnick J. What is the probability of a chance prediction of a protein structure with an rmsd of 6Å? Fold Des 1998;3:141-147.
    • (1998) Fold Des , vol.3 , pp. 141-147
    • Reva, B.A.1    Finkelstein, A.V.2    Skolnick, J.3
  • 20
    • 0017751668 scopus 로고
    • The protein bank. A computer-based archival file for macromolecular structures
    • Bernstein FC, Koetzle TF, Williams GJB et al. The protein bank. A computer-based archival file for macromolecular structures. Eur J Biochem 1977;80:319-324.
    • (1977) Eur J Biochem , vol.80 , pp. 319-324
    • Bernstein, F.C.1    Koetzle, T.F.2    Williams, G.J.B.3
  • 21
    • 0027092678 scopus 로고
    • Selection of a representative set of structures from the Brookhaven protein data bank
    • Hobohm U, Scharf M, Schneider R, Sander C. Selection of a representative set of structures from the Brookhaven Protein Data Bank. Protein Sci. 1992; 1: 409-417.
    • (1992) Protein Sci. , vol.1 , pp. 409-417
    • Hobohm, U.1    Scharf, M.2    Schneider, R.3    Sander, C.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.