메뉴 건너뛰기




Volumn 64, Issue 4, 2001, Pages 517-590

Protein structure: Geometry, topology and classification

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN;

EID: 0035029073     PISSN: 00344885     EISSN: None     Source Type: Journal    
DOI: 10.1088/0034-4885/64/4/203     Document Type: Article
Times cited : (54)

References (231)
  • 4
    • 0030017889 scopus 로고    scopus 로고
    • Analysis of topological and non-topological structural similarities in the PDB: New examples with old structures
    • (1996) Proteins , vol.25 , pp. 354-365
    • Alexandrov, N.N.1    Fischer, D.2
  • 5
    • 0028292461 scopus 로고
    • Biological meaning, statistical significance, and classification of local spatial similarities in non-homologous proteins
    • (1994) Protein Sci , vol.3 , pp. 866-875
    • Alexandrov, N.N.1    Go, N.2
  • 28
    • 0027122748 scopus 로고
    • Proteins-1000 families for the molecular biologist
    • (1992) Nature , vol.357 , pp. 543-544
    • Chothia, C.1
  • 33
  • 38
    • 0019324685 scopus 로고
    • On the use of chemically derived distance constraints in the prediction of protein structure with myoglobin as an example
    • (1980) J. Mol. Biol , vol.137 , pp. 9-22
    • Cohen, F.1    Sternberg, M.2
  • 49
    • 0004998852 scopus 로고
    • Pseudo-homology of protein standard structures formed by two consecutive β-strands
    • (1987) FEBS Lett , vol.224 , pp. 372-376
    • Efimov, A.V.1
  • 51
    • 0025803604 scopus 로고
    • Structure of coiled β-β-hairpins and β-β-corners
    • (1991) FEBS Lett , vol.284 , pp. 288-292
    • Efimov, A.V.1
  • 53
    • 0030910802 scopus 로고    scopus 로고
    • Structural trees for protein super-families
    • (1997) Proteins , vol.28 , pp. 241-260
    • Efimov, A.V.1
  • 54
    • 0000461280 scopus 로고
    • Confidence-limits on phylogenies-An approach using the bootstrap
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 59
    • 0028230909 scopus 로고
    • 3-dimensional, sequence order-independent structural comparison of a serine-protease against the crystallographic database reveals active-site similarities-potential implications to evolution and to protein-folding
    • (1994) Protein Sci , vol.3 , pp. 769-778
    • Fischer, D.1    Wolfson, H.2    Lin, S.L.3    Nussinov, R.4
  • 65
    • 0029982530 scopus 로고    scopus 로고
    • The structural alignment between two proteins: Is there a unique answer?
    • (1996) Protein Sci , vol.5 , pp. 1325-1338
    • Godzik, A.1
  • 68
  • 91
    • 12944249776 scopus 로고
    • A discussion of the solution for the best rotatation to relate two sets of vectors
    • (1978) Acta Crystallogr. A , vol.34 , pp. 827-828
    • Kabsch, W.1
  • 92
    • 0020997912 scopus 로고
    • Dictionary of protein secondary structure: Pattern recognition of hydrogen bonded and geometrical features
    • (1983) Biopolymers , vol.22 , pp. 2577-2637
    • Kabsch, W.1    Sander, C.2
  • 93
    • 0026581777 scopus 로고
    • Left-handed topology of super-secondary structure formed by aligned α-helix and β-hairpin
    • (1992) FEBS Lett , vol.302 , pp. 8-10
    • Kajva, A.V.1
  • 96
    • 0001880535 scopus 로고
    • Relative probabilities of isomers in cystine-containing randomly coiled polypeptides
    • ed R e a Benesch (New York: Academic)
    • (1959) Sulfur in Proteins , pp. 93-108
    • Kauzmann, W.1
  • 99
    • 0026244229 scopus 로고
    • MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
    • (1991) J. Appl. Cryst , vol.24 , pp. 946-950
    • Kraulis, P.J.1
  • 103
    • 0018455122 scopus 로고
    • Detection of three-dimensional patterns of atoms in chemical structure
    • (1979) Commun. ACM , vol.22 , pp. 219-224
    • Lesk, A.M.1
  • 104
    • 0019332167 scopus 로고
    • How different amino acid sequences determine similar protein structures: The structure and evolutionary dynamics of the globins
    • (1980) J. Mol. Biol , vol.136 , pp. 225-270
    • Lesk, A.M.1    Chothia, C.2
  • 118
    • 0000078577 scopus 로고
    • Molecular topology of multiple-disulphide polypeptide chains
    • (1989) J. Am. Chem. Soc , vol.111 , pp. 6132-6136
    • Mao, B.1
  • 123
    • 0030448595 scopus 로고    scopus 로고
    • Pairwise iterative superposition of distantly related proteins and assessment of the significance of 3-d structural similarity
    • (1996) Protein Eng , vol.9 , pp. 1093-1101
    • May, A.C.W.1
  • 125
    • 0033214429 scopus 로고    scopus 로고
    • Towards a more meaningful hierarchical classification of protein three-dimensional structures
    • (1999) Protein , vol.37 , pp. 20-29
    • May, A.C.W.1
  • 126
    • 0028173886 scopus 로고
    • Protein structure comparisons using a combination of a genetic algorithm, dynamic programming and least-squares minimization
    • (1994) Protein Eng , vol.7 , pp. 475-485
    • May, A.C.W.1    Johnson, M.S.2
  • 127
  • 142
    • 0017615801 scopus 로고
    • Logical analysis of the mechanism of protein folding: IV. super-secondary structures
    • (1977) J. Mol. Biol , vol.109 , pp. 235-250
    • Nagano, K.1
  • 146
    • 0023256855 scopus 로고
    • Molecular evolution of the calmodulin gene
    • (1987) FEBS Lett , vol.217 , pp. 187-190
    • Nojima, H.1
  • 175
  • 179
    • 0018782641 scopus 로고
    • Hierarchic organization of domains in globular proteins
    • (1979) J. Mol. Biol , vol.234 , pp. 447-470
    • Rose, G.D.1
  • 183
    • 0032568859 scopus 로고    scopus 로고
    • Detection of protein 3D side-chain patterns: New examples of convergent evolution
    • (1998) J. Mol. Biol , vol.279 , pp. 1211-1227
    • Russell, R.B.1
  • 185
    • 0025317502 scopus 로고
    • Definition of general topological equivalence in protein structures: A procedure involving comparison of properties and relationship through simulated annealing and dynamic programming
    • (1990) J. Mol. Biol , vol.212 , pp. 403-428
    • Šali, A.1    Blundell, T.L.2
  • 192
    • 0028943588 scopus 로고
    • continuous and discontinuous domains - An algorithm for the automatic generation of reliable protein domain definitions
    • (1995) Protein Sci , vol.4 , pp. 872-884
    • Siddiqui, A.S.1    Barton, G.J.2
  • 193
    • 0020475392 scopus 로고
    • On the problem of comparing protein structures: Development and applications of a new method for the assessment of structural similarities of polypeptide conformations
    • (1982) J. Mol. Biol , vol.156 , pp. 359-388
    • Sippl, M.J.1
  • 194
    • 0025341310 scopus 로고
    • Calculation of conformational ensembles from potentials of mean force. An approach to the knowledge-based prediction of local structures in globular proteins
    • (1990) J. Mol. Biol , vol.213 , pp. 859-883
    • Sippl, M.J.1
  • 196
    • 0026527758 scopus 로고
    • Pattern-induced multi-sequence alignment (PIMA) algorithm employing secondary structure-dependent gap penalties for use in comparative protein modelling
    • (1992) Protein Eng , vol.5 , pp. 35-42
    • Smith, R.F.1    Smith, T.F.2
  • 198
    • 0028914725 scopus 로고
    • An automatic method involving cluster analysis of secondary structures for the identification of domains in proteins
    • (1995) Protein Sci , vol.4 , pp. 506-520
    • Sowdhamini, R.1    Blundell, T.2
  • 208
    • 0022550940 scopus 로고
    • Identification of protein sequence homology by consensus template alignment
    • (1986) J. Mol. Biol , vol.188 , pp. 233-258
    • Taylor, W.R.1
  • 209
    • 0024245156 scopus 로고
    • A flexible method to align large numbers of biological sequences
    • (1988) J. Mol. Evol , vol.28 , pp. 161-169
    • Taylor, W.R.1
  • 210
    • 0005089903 scopus 로고
    • Sequence analysis: Spinning in hyperspace
    • (News and Views)
    • (1991) Nature , vol.353 , pp. 388-389
    • Taylor, W.R.1
  • 212
    • 0031588007 scopus 로고    scopus 로고
    • Multiple sequence threading: An analysis of alignment quality and stability
    • (1997) J. Mol. Biol , vol.269 , pp. 902-943
    • Taylor, W.R.1
  • 213
    • 0031019081 scopus 로고    scopus 로고
    • Random models for double dynamic score normalisation
    • (special issue in memory of Kimura)
    • (1997) J. Mol. Evol , vol.44
    • Taylor, W.R.1
  • 214
    • 0032540981 scopus 로고    scopus 로고
    • Dynamic databank searching with templates and multiple alignment
    • (1998) J. Mol. Biol , vol.280 , pp. 375-406
    • Taylor, W.R.1
  • 216
    • 0033011876 scopus 로고    scopus 로고
    • Protein structure alignment using iterated double dynamic programming
    • (1999) Protein Sci , vol.8 , pp. 654-665
    • Taylor, W.R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.