-
1
-
-
33846074754
-
Sisyphus - Structural alignments for proteins with non-trivial relationships
-
A. Andreeva, A. Prlic, T. J. Hubbard, and A. G. Murzin. Sisyphus - structural alignments for proteins with non-trivial relationships. Nucleic Acids Res., 35:D253-9, 2007.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Andreeva, A.1
Prlic, A.2
Hubbard, T.J.3
Murzin, A.G.4
-
4
-
-
0142143332
-
Mass: Multiple structural alignment by secondary structures
-
O. Dror, H. Benyamini, R. Nussinov, and H. Wolfson. Mass: multiple structural alignment by secondary structures. Bioinformatics, 19:i95-104, 2003.
-
(2003)
Bioinformatics
, vol.19
, pp. 95-104
-
-
Dror, O.1
Benyamini, H.2
Nussinov, R.3
Wolfson, H.4
-
5
-
-
33646138726
-
Development and validation of a consistency based multiple structure alignment algorithm
-
J. Ebert and D. Brutlag. Development and validation of a consistency based multiple structure alignment algorithm. Bioinformatics, 22:1080-7, 2006.
-
(2006)
Bioinformatics
, vol.22
, pp. 1080-1087
-
-
Ebert, J.1
Brutlag, D.2
-
6
-
-
0032530836
-
A database of macromolecular motions
-
M. Gerstein and W. Krebs. A database of macromolecular motions. Nucleic Acids Res, 26:4280-90, 1998.
-
(1998)
Nucleic Acids Res
, vol.26
, pp. 4280-4290
-
-
Gerstein, M.1
Krebs, W.2
-
8
-
-
0033824470
-
Dalilite workbench for protein structure comparison
-
L. Holm and J. Park. Dalilite workbench for protein structure comparison. Bionformatics, 16:566-567, 2000.
-
(2000)
Bionformatics
, vol.16
, pp. 566-567
-
-
Holm, L.1
Park, J.2
-
9
-
-
0027440362
-
Protein structure comparison by alignment of distance matrices
-
L. Holm and C. Sander. Protein structure comparison by alignment of distance matrices. J. Mol. Biol., 233:123-138, 1993.
-
(1993)
J. Mol. Biol.
, vol.233
, pp. 123-138
-
-
Holm, L.1
Sander, C.2
-
10
-
-
34948819214
-
A novel representation for Riemannian analysis of elastic curves in Rn
-
S. H. Joshi, E. Klassen, A. Srivastava, and I. H. Jermyn. A novel representation for Riemannian analysis of elastic curves in Rn. In IEEE Conference on Computer Vision and Pattern Recognition (CVPR), pages 1-7, 2007.
-
(2007)
IEEE Conference on Computer Vision and Pattern Recognition (CVPR)
, pp. 1-7
-
-
Joshi, S.H.1
Klassen, E.2
Srivastava, A.3
Jermyn, I.H.4
-
11
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
W. Kabsch and C. Sander. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers, 22(12):2577ÍC637, 1983.
-
(1983)
Biopolymers
, vol.22
, Issue.12
-
-
Kabsch, W.1
Sander, C.2
-
12
-
-
1342345777
-
Analysis of planar shapes using geodesic paths on shape spaces
-
E. Klassen, A. Srivastava, W. Mio, and S. H. Joshi. Analysis of planar shapes using geodesic paths on shape spaces. IEEE Trans. Pattern Analysis and Machine Intelligence, 26(3):372-383, 2004.
-
(2004)
IEEE Trans. Pattern Analysis and Machine Intelligence
, vol.26
, Issue.3
, pp. 372-383
-
-
Klassen, E.1
Srivastava, A.2
Mio, W.3
Joshi, S.H.4
-
13
-
-
33845293247
-
Connectivity independent protein-structure alignment: A hierarchical approach
-
B. Kolbeck, P. May, T. Schmidt-Goenner, T. Steinke, and E. W. Knapp. Connectivity independent protein-structure alignment: a hierarchical approach. BMC Bioinformatics, 7:510, 2006.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 510
-
-
Kolbeck, B.1
May, P.2
Schmidt-Goenner, T.3
Steinke, T.4
Knapp, E.W.5
-
14
-
-
13444279981
-
Comprehensive evaluation of protein structure alignment methods: Scoring by geometric measures
-
R. Kolodny, P. Koehl, and M. Levitt. Comprehensive evaluation of protein structure alignment methods: scoring by geometric measures. J. Mol. Biol., 346:1173-88, 2005.
-
(2005)
J. Mol. Biol.
, vol.346
, pp. 1173-88
-
-
Kolodny, R.1
Koehl, P.2
Levitt, M.3
-
15
-
-
33746218852
-
Mustang: A multiple structural alignment algorithm
-
A. S. Konagurthu, J. C. Whisstock, P. J. Stuckey, and A. M. Lesk. Mustang: a multiple structural alignment algorithm. Proteins, 64:e10, 2006.
-
(2006)
Proteins
, vol.64
, pp. 10
-
-
Konagurthu, A.S.1
Whisstock, J.C.2
Stuckey, P.J.3
Lesk, A.M.4
-
16
-
-
1842781469
-
Protein structure comparison in 3d based on secondary structure matching (ssm) followed by c-alpha alignment, scored by a new structural similarity function
-
E. Krissinel and K. Henrick. Protein structure comparison in 3d based on secondary structure matching (ssm) followed by c-alpha alignment, scored by a new structural similarity function. In In Proceedings of the Fifth international Conference on Molecular Structural Biology, 2003.
-
(2003)
Proceedings of the Fifth International Conference on Molecular Structural Biology
-
-
Krissinel, E.1
Henrick, K.2
-
17
-
-
70349671316
-
Joint shape and texture analysis of objects boundaries in images using a riemannian approach
-
W. Liu, A. Srivastava, and E. Klassen. Joint shape and texture analysis of objects boundaries in images using a riemannian approach. In Asilomar Conferences on Signals, Systems, and Computers, 2008.
-
(2008)
Asilomar Conferences on Signals, Systems, and Computers
-
-
Liu, W.1
Srivastava, A.2
Klassen, E.3
-
18
-
-
34548304928
-
Comparative analysis of protein structure alignments
-
G. Mayr, F. S. Domingues, and P. Lackner. Comparative analysis of protein structure alignments. BMC Struct Biol., 26:7:50, 2007.
-
(2007)
BMC Struct Biol.
, vol.26
, Issue.7
, pp. 50
-
-
Mayr, G.1
Domingues, F.S.2
Lackner, P.3
-
19
-
-
51849139041
-
Alignment of protein structures in the presence of domain motions
-
R. Mosca, B. Brannetti, and T. R. Schneider. Alignment of protein structures in the presence of domain motions. BMC Bioinformatics, 9:352, 2008.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 352
-
-
Mosca, R.1
Brannetti, B.2
Schneider, T.R.3
-
20
-
-
48449084095
-
Rapido: A web server for the alignment of protein structures in the presence of conformational changes
-
R. Mosca and T. R. Schneider. Rapido: a web server for the alignment of protein structures in the presence of conformational changes. Nucleic Acids Res, 36:W42-6, 2008.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Mosca, R.1
Schneider, T.R.2
-
21
-
-
0028961335
-
Scop: A structural classification of proteins database for the investigation of sequences and structures
-
A. G. Murzin, S. E. Brenner, T. Hubbard, and C. Chothia. Scop: a structural classification of proteins database for the investigation of sequences and structures. J.Mol.Biol, pages 536-540, 1995.
-
(1995)
J.Mol.Biol
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
22
-
-
1842584503
-
Progressive combinatorial algorithm for multiple structural alignments: Application to distantly related proteins
-
M. E. Ochagavia and S. Wodak. Progressive combinatorial algorithm for multiple structural alignments: application to distantly related proteins. Proteins, 55:436-54, 2004.
-
(2004)
Proteins
, vol.55
, pp. 436-54
-
-
Ochagavia, M.E.1
Wodak, S.2
-
23
-
-
0036839162
-
Mammoth (matching molecular models obtained from theory): An automated method for model comparison
-
A. R. Ortiz, C. E. Strauss, and O. Olmea. Mammoth (matching molecular models obtained from theory): an automated method for model comparison. Protein Sci., 11:2606-21, 2002.
-
(2002)
Protein Sci.
, vol.11
, pp. 2606-2621
-
-
Ortiz, A.R.1
Strauss, C.E.2
Olmea, O.3
-
25
-
-
67649221642
-
Flexible structural protein alignment by a sequence of local transformations
-
J. Rocha, J. Segural, R. C. Wilson, and S. Dasgupta. Flexible structural protein alignment by a sequence of local transformations. Bioinformatics, 25(13):1625-1631, 2009.
-
(2009)
Bioinformatics
, vol.25
, Issue.13
, pp. 1625-1631
-
-
Rocha, J.1
Segural, J.2
Wilson, R.C.3
Dasgupta, S.4
-
26
-
-
1842450688
-
Flexprot: Alignment of flexible protein structures without a predefinition of hinge regions
-
M. Shatsky, R. Nussinov, and H. J. Wolfson. Flexprot: alignment of flexible protein structures without a predefinition of hinge regions. J Comput Biol, 11:83-106, 2004.
-
(2004)
J Comput Biol
, vol.11
, pp. 83-106
-
-
Shatsky, M.1
Nussinov, R.2
Wolfson, H.J.3
-
27
-
-
2442456104
-
A method for simultaneous alignment of multiple protein structures
-
M. Shatsky, R. Nussinov, and H. J. Wolfson. A method for simultaneous alignment of multiple protein structures. Proteins, 56:143-56, 2004.
-
(2004)
Proteins
, vol.56
, pp. 143-56
-
-
Shatsky, M.1
Nussinov, R.2
Wolfson, H.J.3
-
28
-
-
0031715982
-
Protein structure alignment by incremental combinatorial extension (ce) of the optimal path
-
I. N. Shindyalov and P. E. Bourne. Protein structure alignment by incremental combinatorial extension (ce) of the optimal path. Protein Eng., 1:739-747, 1998.
-
(1998)
Protein Eng.
, vol.1
, pp. 739-747
-
-
Shindyalov, I.N.1
Bourne, P.E.2
-
30
-
-
39849110127
-
Sabertooth: Protein structural alignment based on a vectorial structure representation
-
F. Teichert, U. Bastolla, and M. Porto. Sabertooth: protein structural alignment based on a vectorial structure representation. BMC Bioinformatics, 8:425, 2007.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 425
-
-
Teichert, F.1
Bastolla, U.2
Porto, M.3
-
31
-
-
19544388989
-
Multiple flexible structure alignment using partial order graphs
-
Y. Ye and A. Godzik. Multiple flexible structure alignment using partial order graphs. Bioinformatics, 21:2362-9, 2005.
-
(2005)
Bioinformatics
, vol.21
, pp. 2362-2369
-
-
Ye, Y.1
Godzik, A.2
-
32
-
-
0042622381
-
Lga: A method for finding 3d similarities in protein structures
-
A. Zemla. Lga: A method for finding 3d similarities in protein structures. Nucleic Acids Res, 31:3370-4, 2003.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3370-334
-
-
Zemla, A.1
-
33
-
-
17644392830
-
Tm-align: A protein structure alignment algorithm based on the tm-score
-
Y. Zhang and J. Skolnick. Tm-align: a protein structure alignment algorithm based on the tm-score. Nucleic Acids Res, 33:2302-9, 2005.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 2302-2309
-
-
Zhang, Y.1
Skolnick, J.2
-
34
-
-
12944271968
-
Fast: A novel protein structure alignment algorithm
-
J. Zhu and Z. Weng. Fast: a novel protein structure alignment algorithm. Proteins, 58:618-27, 2005.
-
(2005)
Proteins
, vol.58
, pp. 618-627
-
-
Zhu, J.1
Weng, Z.2
|