-
2
-
-
0022706389
-
The relation between the divergence of sequence and structure in proteins
-
CHOTHIA C, LESK AM: The relation between the divergence of sequence and structure in proteins. EMBO J. (1986) 5:823-826.
-
(1986)
EMBO J.
, vol.5
, pp. 823-826
-
-
Chothia, C.1
Lesk, A.M.2
-
3
-
-
0027373337
-
Knowledge-based model building of proteins: Concepts and examples
-
BAJORATH J, STENKAMP R, ARUFFO A: Knowledge-based model building of proteins: Concepts and examples. Protein Sci. (1993) 2:1798-1810. Very good review on comparative protein modelling.
-
(1993)
Protein Sci.
, vol.2
, pp. 1798-1810
-
-
Bajorath, J.1
Stenkamp, R.2
Aruffo, A.3
-
4
-
-
0017411710
-
The protein data bank: A computer-based archival file for macromolecular structures
-
BERNSTEIN FC, KOETZLE TF, WILLIAMS GJB et al.: The protein data bank: a computer-based archival file for macromolecular structures. J. Mol. Biol. (1977) 112:535-542.
-
(1977)
J. Mol. Biol.
, vol.112
, pp. 535-542
-
-
Bernstein, F.C.1
Koetzle, T.F.2
Williams, G.J.B.3
-
5
-
-
0023989064
-
Improved tools for biological sequence comparison
-
PEARSON WR, LIPMAN DJ: Improved tools for biological sequence comparison. Proc. Natl. Acad. Sci. USA (1988) 85:2444-2448.
-
(1988)
Proc. Natl. Acad. Sci. USA
, vol.85
, pp. 2444-2448
-
-
Pearson, W.R.1
Lipman, D.J.2
-
6
-
-
0025183708
-
Basic local alignment search tool
-
ALTSCHUL SF, GISH W, MILLER W, MYERS EW, LIPMAN DJ: Basic local alignment search tool. J. Mol. Biol. (1990) 215:403-410.
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
7
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
ALTSCHUL SF, MADDEN TL, SCHÄFFER AA et al.: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. (1997) 25:3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
-
8
-
-
44949272730
-
A time-efficient, linear-space local similarity algorithm
-
HUANG X, MILLER M: A time-efficient, linear-space local similarity algorithm. Adv. Appl. Math. (1991) 12:337-357.
-
(1991)
Adv. Appl. Math.
, vol.12
, pp. 337-357
-
-
Huang, X.1
Miller, M.2
-
9
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization and dynamics calculation
-
BROOKS BR, BRUCCOLERI RE, OLAFSON BD, STATES DJ, SWAMINATHAN S, KARPLUS M: CHARMM: a program for macromolecular energy, minimization and dynamics calculation. J. Comp. Chem. (1983) 4:187-217.
-
(1983)
J. Comp. Chem.
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaminathan, S.5
Karplus, M.6
-
11
-
-
0032751746
-
Predicting protein three-dimensional structure
-
MOULT J: Predicting protein three-dimensional structure. Curr. Opin. Biotech. (1999) 10:583-588.
-
(1999)
Curr. Opin. Biotech.
, vol.10
, pp. 583-588
-
-
Moult, J.1
-
12
-
-
0031301954
-
Criteria for evaluating protein structures derived by comparative modelling
-
VENCLOVAS C, ZEMLA A, FIDELIS K, MOULT J: Criteria for evaluating protein structures derived by comparative modelling. Proteins (1997) 51:7-13.
-
(1997)
Proteins
, vol.51
, pp. 7-13
-
-
Venclovas, C.1
Zemla, A.2
Fidelis, K.3
Moult, J.4
-
13
-
-
0028864205
-
A critical assessment of comparative modelling of tertiary structure of proteins
-
MOSIMANN S, MELSHKO R, JAMES MNG: A critical assessment of comparative modelling of tertiary structure of proteins. Proteins (1995) 23:301-317.
-
(1995)
Proteins
, vol.23
, pp. 301-317
-
-
Mosimann, S.1
Melshko, R.2
James, M.N.G.3
-
15
-
-
0032876705
-
CASP3 comparative modelling evaluation
-
JONES TA, KLEYWEGT GJ: CASP3 comparative modelling evaluation. Proteins (1999) 83:30-46.
-
(1999)
Proteins
, vol.83
, pp. 30-46
-
-
Jones, T.A.1
Kleywegt, G.J.2
-
16
-
-
0026606219
-
Effects of temperature on protein structure and dynamics: X-ray crystallographic studies of the protein ribonuclease-A at nine different temperatures from 98 to 320 K
-
TILTON RF, DEWAN JC, PETSKO GA: Effects of temperature on protein structure and dynamics: x-ray crystallographic studies of the protein ribonuclease-A at nine different temperatures from 98 to 320 K. Biochemistry (1992) 31:2469-2481.
-
(1992)
Biochemistry
, vol.31
, pp. 2469-2481
-
-
Tilton, R.F.1
Dewan, J.C.2
Petsko, G.A.3
-
17
-
-
0029587028
-
Analysis of six protein structures predicted by comparative modeling techniques
-
HARRISON RW, CHATTERJEE D, WEBER IT: Analysis of six protein structures predicted by comparative modeling techniques. Proteins Struct.Func. Genet. (1995) 23:463-471.
-
(1995)
Proteins Struct.Func. Genet.
, vol.23
, pp. 463-471
-
-
Harrison, R.W.1
Chatterjee, D.2
Weber, I.T.3
-
18
-
-
0026610767
-
Assessment of protein models with three-dimensional profiles
-
LÜTHY R, BOWIE JU, EISENBERG D: Assessment of protein models with three-dimensional profiles. Nature (1992) 356:83-85.
-
(1992)
Nature
, vol.356
, pp. 83-85
-
-
Lüthy, R.1
Bowie, J.U.2
Eisenberg, D.3
-
19
-
-
0027490731
-
Recognition of errors in three-dimensional structures of proteins
-
SIPPL MJ: Recognition of errors in three-dimensional structures of proteins. Proteins Struct. Funct. Genet. (1993) 17:355-362.
-
(1993)
Proteins Struct. Funct. Genet.
, vol.17
, pp. 355-362
-
-
Sippl, M.J.1
-
20
-
-
0029124165
-
Characterisation of the non-functional Fas ligand of gld mice
-
HAHNE M, PEITSCH MC, IRMLER M et al.: Characterisation of the non-functional Fas ligand of gld mice. Int. Immunol. (1995) 7:1381-1386.
-
(1995)
Int. Immunol.
, vol.7
, pp. 1381-1386
-
-
Hahne, M.1
Peitsch, M.C.2
Irmler, M.3
-
21
-
-
16944365407
-
Identification of mutations in Cystatin B, the gene responsible for Unverricht-Lundborg type of progressive myoclonus epilepsy (EPM1)
-
LALIOTI MD, MIROTSOU M, BURESI C et al.: Identification of mutations in Cystatin B, the gene responsible for Unverricht-Lundborg type of progressive myoclonus epilepsy (EPM1). Am. J. Hum. Genet. (1997) 60:342-351.
-
(1997)
Am. J. Hum. Genet.
, vol.60
, pp. 342-351
-
-
Lalioti, M.D.1
Mirotsou, M.2
Buresi, C.3
-
22
-
-
0030297003
-
CD40Lbase: A database of CD40L gene mutations causing X-linked hyper-IgM syndrome
-
NOTARANGELO LD, PEITSCH MC et al.: CD40Lbase: a database of CD40L gene mutations causing X-linked hyper-IgM syndrome. Immunol. Today (1996) 17:511-516.
-
(1996)
Immunol. Today
, vol.17
, pp. 511-516
-
-
Notarangelo, L.D.1
Peitsch, M.C.2
-
23
-
-
0029091171
-
Comparative molecular modelling of the Fas-ligand and other members of the TNF family
-
PEITSCH MC, TSCHOPP J: Comparative molecular modelling of the Fas-ligand and other members of the TNF family. Mol. Immunol. (1995) 32:761-772.
-
(1995)
Mol. Immunol.
, vol.32
, pp. 761-772
-
-
Peitsch, M.C.1
Tschopp, J.2
-
24
-
-
0030842494
-
Characterization of the Fas (Apo-1, CD-95) - Fas ligand (Apo-1L, CD95L) interaction
-
SCHNEIDER P, BODMER JL, HOLLER H et al.: Characterization of the Fas (Apo-1, CD-95) - Fas ligand (Apo-1L, CD95L) interaction. J. Biol. Chem. (1997) 272:18827-18833.
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 18827-18833
-
-
Schneider, P.1
Bodmer, J.L.2
Holler, H.3
-
25
-
-
0031895566
-
New insulin-like protein with atypical disulphide bond pattern characterised Caenorbaditis elegans by comparative analysis and homology modelling
-
DURET L, GUEX N, PEITSCH MC, BAIROCH A: New insulin-like protein with atypical disulphide bond pattern characterised Caenorbaditis elegans by comparative analysis and homology modelling. Genome Res. (1998) 8:348-353.
-
(1998)
Genome Res.
, vol.8
, pp. 348-353
-
-
Duret, L.1
Guex, N.2
Peitsch, M.C.3
Bairoch, A.4
-
26
-
-
0027473885
-
A 3-dimensional model for the CD40 ligand predicts that it is a compact trimer similar to the tumor necrosis factors
-
PEITSCH MC, JONGENEEL V: A 3-dimensional model for the CD40 ligand predicts that it is a compact trimer similar to the tumor necrosis factors. Int. Immunol. (1993) 5:233-238.
-
(1993)
Int. Immunol.
, vol.5
, pp. 233-238
-
-
Peitsch, M.C.1
Jongeneel, V.2
-
28
-
-
0025298322
-
Is apolipoprotein D a mammalian bilin-binding protein?
-
PEITSCH MC, BOGUSKI MS: Is apolipoprotein D a mammalian bilin-binding protein? New. Biol. (1990) 2:197-206.
-
(1990)
New. Biol.
, vol.2
, pp. 197-206
-
-
Peitsch, M.C.1
Boguski, M.S.2
-
29
-
-
0029004590
-
Protein modelling by e-mail
-
PEITSCH, MC: Protein modelling by e-mail. Biotechnology (1995) 13:658-660.
-
(1995)
Biotechnology
, vol.13
, pp. 658-660
-
-
Peitsch, M.C.1
-
30
-
-
0030053370
-
ProMod and Swiss-Model: Internet-based tools for automated comparative protein modelling
-
PEITSCH MC: ProMod and Swiss-Model: internet-based tools for automated comparative protein modelling. Biochem. Soc. Trans. (1996) 24:274-279.
-
(1996)
Biochem. Soc. Trans.
, vol.24
, pp. 274-279
-
-
Peitsch, M.C.1
-
31
-
-
0031473847
-
SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modelling
-
GUEX N, PEITSCH MC: SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modelling. Electrophoresis (1997) 18:2714-2723.
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
32
-
-
0033190529
-
Protein modelling for all
-
GUEX N, DIEMAND A, PEITSCH MC: Protein modelling for all. Trends Biochem. Sci. (1999) 24:364-367. Description of a complete protein modelling environment using a Web-based server (SWISS-MODEL) and its graphical helper application (Swiss-PdbViewer).
-
(1999)
Trends Biochem. Sci.
, vol.24
, pp. 364-367
-
-
Guex, N.1
Diemand, A.2
Peitsch, M.C.3
-
33
-
-
0031406438
-
Protein distance constraints predicted by neural networks and probability density functions
-
LUND O, FRIMAND K, GORODKIN J et al.: Protein distance constraints predicted by neural networks and probability density functions. Protein Engineering (1997) 10:1241-1248.
-
(1997)
Protein Engineering
, vol.10
, pp. 1241-1248
-
-
Lund, O.1
Frimand, K.2
Gorodkin, J.3
-
35
-
-
0031003429
-
Large scale protein modelling and integration with the SWISS-PROT and SWISS-2DPAGE databases: The example of Escherichia coli
-
PEITSCH MC, WILKINS MR, TONELLA L, SANCHEZ J-C, APPEL RD, HOCHSTRASSER DF: Large scale protein modelling and integration with the SWISS-PROT and SWISS-2DPAGE databases: the example of Escherichia coli. Electrophoresis (1997) 18:498-501.
-
(1997)
Electrophoresis
, vol.18
, pp. 498-501
-
-
Peitsch, M.C.1
Wilkins, M.R.2
Tonella, L.3
Sanchez, J.-C.4
Appel, R.D.5
Hochstrasser, D.F.6
-
36
-
-
0032506030
-
Large-scale protein structure modeling of the Saccharomyces cerevisiae genome
-
SANCHEZ R, SALI A: Large-scale protein structure modeling of the Saccharomyces cerevisiae genome. Proc. Natl. Acad. Sci. USA (1998) 95:13597-13602.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 13597-13602
-
-
Sanchez, R.1
Sali, A.2
-
37
-
-
0033150685
-
Progress in protein structure prediction of CASP3
-
STERNBERG MJE, BATES PA, KELLY LA, MACCALLUM, RM: Progress in protein structure prediction of CASP3. Curr. Opin. Struct. Biol. (1999) 9:368-373.
-
(1999)
Curr. Opin. Struct. Biol.
, vol.9
, pp. 368-373
-
-
Sternberg, M.J.E.1
Bates, P.A.2
Kelly, L.A.3
Maccallum, R.M.4
-
38
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
SALI A, BLUNDELL TL: Comparative protein modelling by satisfaction of spatial restraints. J. Mol. Biol. (1993) 234:779-815.
-
(1993)
J. Mol. Biol.
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
39
-
-
0343920731
-
MODBASE, a database of annotated comparative protein structure models
-
SÁNCHEZ R, PIEPER U, MIRKOVI N, DE BAKKER PIW, WITTENSTEIN E, SALI A: MODBASE, a database of annotated comparative protein structure models. Nucleic Acids Res. (2000) 28:250-253.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 250-253
-
-
Sánchez, R.1
Pieper, U.2
Mirkovi, N.3
De Bakker, P.I.W.4
Wittenstein, E.5
Sali, A.6
-
40
-
-
0027497369
-
Modelling α-helical transmembrane domains: The calculation and use of substitution Tables for lipid facing residues
-
DONNELLY D, OVERINGTON JP, RUFFLE SV, NUGENT JHA, BLUNDELL TL: Modelling α-helical transmembrane domains: the calculation and use of substitution Tables for lipid facing residues. Protein Sci. (1993) 2:55-70.
-
(1993)
Protein Sci.
, vol.2
, pp. 55-70
-
-
Donnelly, D.1
Overington, J.P.2
Ruffle, S.V.3
Nugent, J.H.A.4
Blundell, T.L.5
-
41
-
-
6144245359
-
α-helix bundles and ion channels
-
Findlay JBC (Ed.), BIOS Scientific Publishers Ltd., Oxford, UK
-
SANKARARAMAKRISHNAN R, SANSOM MSP: α-helix bundles and ion channels. In: Membrane Protein Models. Findlay JBC (Ed.), BIOS Scientific Publishers Ltd., Oxford, UK (1996):55-72.
-
(1996)
Membrane Protein Models
, pp. 55-72
-
-
Sankararamakrishnan, R.1
Sansom, M.S.P.2
-
42
-
-
0005120622
-
Making and breaking models of G protein-coupled receptors
-
Findlay JBC (Ed.), BIOS Scientific Publishers Ltd., Oxford, UK
-
THOMAS P: Making and breaking models of G protein-coupled receptors. In: Membrane Protein Models. Findlay JBC (Ed.), BIOS Scientific Publishers Ltd., Oxford, UK (1996):73-89. A good overview of G-protein coupled receptor modelling methods.
-
(1996)
Membrane Protein Models
, pp. 73-89
-
-
Thomas, P.1
-
43
-
-
0031910468
-
Using experimental information to produce a model of the transmembrane domain of the ion channel phospholamban
-
HERZYK P, HUBBARD RE: Using experimental information to produce a model of the transmembrane domain of the ion channel phospholamban. Biophys. J. (1998) 74:1203-1214. Computational approach to membrane protein modelling using knowledge derived from experimental approaches.
-
(1998)
Biophys. J.
, vol.74
, pp. 1203-1214
-
-
Herzyk, P.1
Hubbard, R.E.2
-
44
-
-
6144259178
-
Prediction of transmembrane segments in proteins using multiple sequence alignments
-
Findlay JBC (Ed.), BIOS Scientific Publishers Ltd., Oxford, UK
-
PERSSON B, MILPETZ F, ARGOS P: Prediction of transmembrane segments in proteins using multiple sequence alignments. In: Membrane Protein Models. Findlay JBC (Ed.), BIOS Scientific Publishers Ltd., Oxford, UK (1996):1-25.
-
(1996)
Membrane Protein Models
, pp. 1-25
-
-
Persson, B.1
Milpetz, F.2
Argos, P.3
-
45
-
-
0026716643
-
Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule
-
VON HEIJNE G: Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule. J. Mol. Biol. (1992) 225:487-494.
-
(1992)
J. Mol. Biol.
, vol.225
, pp. 487-494
-
-
Von Heijne, G.1
-
46
-
-
0028829235
-
Automated method for modeling seven-helix transmembrane receptors from experimental data
-
HERZYK P, HUBBARD RE: Automated method for modeling seven-helix transmembrane receptors from experimental data. Biophys. J. (1995) 69:2419-2442.
-
(1995)
Biophys. J.
, vol.69
, pp. 2419-2442
-
-
Herzyk, P.1
Hubbard, R.E.2
-
47
-
-
0030451549
-
Automated modelling of the transmembrane region of G-protein coupled receptor by Swiss-Model
-
PEITSCH MC, HERZYK P, WELLS TNC, HUBBARD RE: Automated modelling of the transmembrane region of G-protein coupled receptor by Swiss-Model. Receptors Channels (1996) 4:161-164.
-
(1996)
Receptors Channels
, vol.4
, pp. 161-164
-
-
Peitsch, M.C.1
Herzyk, P.2
Wells, T.N.C.3
Hubbard, R.E.4
-
49
-
-
85037469208
-
-
http://www.expasy.ch/swissmod/
-
-
-
-
50
-
-
85037477568
-
-
http://www.cbs.dtu.dk/services/CPHmodels/
-
-
-
-
51
-
-
85037452596
-
-
http://guitar.rockefeller.edu/modbase
-
-
-
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