-
1
-
-
37249081804
-
Model Complexes for Zinc-Containing Enzymes
-
Burzlaff, N. Model Complexes for Zinc-Containing Enzymes. Concepts Models Bioinorg. Chem. 2006, 17, 397-429.
-
(2006)
Concepts Models Bioinorg. Chem
, vol.17
, pp. 397-429
-
-
Burzlaff, N.1
-
2
-
-
33644545381
-
Tumor Microenvironment-Opinion: Validating Matrix Metalloproteinases as Drug Targets and Anti-Targets for Cancer Therapy
-
Overall, C. M.; Kleifeld, O. Tumor Microenvironment-Opinion: Validating Matrix Metalloproteinases as Drug Targets and Anti-Targets for Cancer Therapy. Nat. Rev. Cancer 2006, 6, 227-239.
-
(2006)
Nat. Rev. Cancer
, vol.6
, pp. 227-239
-
-
Overall, C.M.1
Kleifeld, O.2
-
3
-
-
34247269624
-
Identification of Potential Small Molecule Peptidomimetics Similar to Motifs in Proteins
-
Baran, I.; Varekova, R. S.; Parthasarathi, L.; Suchomel, S.; Casey, F.; Shields, D. C. Identification of Potential Small Molecule Peptidomimetics Similar to Motifs in Proteins. J. Chem. Inf. Model. 2007, 47, 464-474.
-
(2007)
J. Chem. Inf. Model
, vol.47
, pp. 464-474
-
-
Baran, I.1
Varekova, R.S.2
Parthasarathi, L.3
Suchomel, S.4
Casey, F.5
Shields, D.C.6
-
4
-
-
0036716282
-
Strategies for MMP Inhibition in Cancer: Innovations for the Post-Trial Era
-
Overall, C. M.; Lopez-Otin, C. Strategies for MMP Inhibition in Cancer: Innovations for the Post-Trial Era. Nat. Rev. Cancer 2002, 2, 657-672.
-
(2002)
Nat. Rev. Cancer
, vol.2
, pp. 657-672
-
-
Overall, C.M.1
Lopez-Otin, C.2
-
5
-
-
1242307294
-
Bioinformatic Comparison of Structures and Homology-Models of Matrix Metalloproteinases
-
Andreini, C.; Band, L.; Bertini, I.; Luchinat, C.; Rosato, A. Bioinformatic Comparison of Structures and Homology-Models of Matrix Metalloproteinases. J. Proteome Res. 2004, 3, 21-31.
-
(2004)
J. Proteome Res
, vol.3
, pp. 21-31
-
-
Andreini, C.1
Band, L.2
Bertini, I.3
Luchinat, C.4
Rosato, A.5
-
6
-
-
0031656460
-
-
Massova, I.; Kotra, L. P.; Fridman, R.; Mobashery, S. Matrix Metalloproteinsases: Structure, Evolution and Diversification. FASEB J. 1998, 12, 1075-1095.
-
Massova, I.; Kotra, L. P.; Fridman, R.; Mobashery, S. Matrix Metalloproteinsases: Structure, Evolution and Diversification. FASEB J. 1998, 12, 1075-1095.
-
-
-
-
7
-
-
0037142342
-
Structural Differences of Matrix Metalloproteinases with Potential Implication for Selectivity Examined by the GRID/CPCA Approach
-
Terp, G. E.; Cruciani, G.; Christensen, I. T.; Jorgensen, F. S. Structural Differences of Matrix Metalloproteinases with Potential Implication for Selectivity Examined by the GRID/CPCA Approach. J. Med. Chem. 2002, 45, 675-2684.
-
(2002)
J. Med. Chem
, vol.45
, pp. 675-2684
-
-
Terp, G.E.1
Cruciani, G.2
Christensen, I.T.3
Jorgensen, F.S.4
-
8
-
-
1842740222
-
Similarity of Binding Sites of Human Matrix Metalloproteinases
-
Lukacova, V.; Zhang, Y.; Mackov, M.; Baricic, P.; Raha, S.; Calva, J. A.; Balaz, S. Similarity of Binding Sites of Human Matrix Metalloproteinases. J. Biol. Chem. 2004, 279, 14194-14200.
-
(2004)
J. Biol. Chem
, vol.279
, pp. 14194-14200
-
-
Lukacova, V.1
Zhang, Y.2
Mackov, M.3
Baricic, P.4
Raha, S.5
Calva, J.A.6
Balaz, S.7
-
9
-
-
30444435765
-
Matrix Metalloproteinase Target Family Landscape: A Chemometrical Approach to Ligand Selectivity Based on Protein Binding Site Analysis
-
Pirard, B.; Matter, H. Matrix Metalloproteinase Target Family Landscape: a Chemometrical Approach to Ligand Selectivity Based on Protein Binding Site Analysis. J. Med. Chem. 2006, 49, 51-69.
-
(2006)
J. Med. Chem
, vol.49
, pp. 51-69
-
-
Pirard, B.1
Matter, H.2
-
10
-
-
0033524009
-
Affinity and Selectivity of Matrix Metalloproteinase Inhibitors: A Chemometrical Study from the Perspective of Ligands and Proteins
-
Matter, H.; Schwab, W. Affinity and Selectivity of Matrix Metalloproteinase Inhibitors: a Chemometrical Study from the Perspective of Ligands and Proteins. J. Med. Chem. 1999, 42, 4506-4523.
-
(1999)
J. Med. Chem
, vol.42
, pp. 4506-4523
-
-
Matter, H.1
Schwab, W.2
-
11
-
-
33750323818
-
-
Amin, E. A.; Welsh, W. J. A Preliminary in Silico Lead Series of 2-Phthalimidinoglutaric Acid Analogues Designed as MMP-3 Inhibitors. J. Chem Inf. Model. 2006, 46, 2104-2109.
-
Amin, E. A.; Welsh, W. J. A Preliminary in Silico Lead Series of 2-Phthalimidinoglutaric Acid Analogues Designed as MMP-3 Inhibitors. J. Chem Inf. Model. 2006, 46, 2104-2109.
-
-
-
-
12
-
-
33846906016
-
Matrix Metalloproteinases (MMPs): ChemicalBiological Functions and (Q)SARs
-
Verma, R.; Hansch, C. Matrix Metalloproteinases (MMPs): ChemicalBiological Functions and (Q)SARs. Bioorg. Med. Chem. 2007, 15, 2223-2268.
-
(2007)
Bioorg. Med. Chem
, vol.15
, pp. 2223-2268
-
-
Verma, R.1
Hansch, C.2
-
13
-
-
0037038314
-
-
Nicolotti, O.; Gillet, V. J.; Fleming, P.; Green, D. A Novel Approach to Deriving Accurate and Chemically Intuitive QSAR Models. J. Med. Chem. 2002, 45, 5069-5080.
-
Nicolotti, O.; Gillet, V. J.; Fleming, P.; Green, D. A Novel Approach to Deriving Accurate and Chemically Intuitive QSAR Models. J. Med. Chem. 2002, 45, 5069-5080.
-
-
-
-
14
-
-
0033954256
-
The Protein Data Bank
-
Berman, H. M.; Westbrook, J.; Feng, Z.; Gilliland, G.; Bhat, T. N.; Weissig, H.; Shindyalov, I. N.; Bourne, P.E. The Protein Data Bank. Nucleic Acids Res. 2000, 28, 235-242.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
15
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A New Generation of Protein Database Search Programs
-
Altschul, S. F.; Madden, T. L.; Schaffer, A. A.; Zhang, J.; Zhang, Z.; Miller, W.; Lipman, D. J. 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
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
16
-
-
33846653633
-
Using an Alignment of Fragment Strings for Comparing Protein Structures
-
Friedberg, I.; Harder, T.; Kolodny, R.; Sitbon, E.; Li, Z.; Godzik, A. Using an Alignment of Fragment Strings for Comparing Protein Structures. Bioinformatics 2006, 23, 219-224.
-
(2006)
Bioinformatics
, vol.23
, pp. 219-224
-
-
Friedberg, I.1
Harder, T.2
Kolodny, R.3
Sitbon, E.4
Li, Z.5
Godzik, A.6
-
17
-
-
0025950944
-
Searching Protein Sequence Libraries: Comparison of the Sensitivity and Selectivity of the Smith-Waterman and FASTA Algorithms
-
Pearson, W. R. Searching Protein Sequence Libraries: Comparison of the Sensitivity and Selectivity of the Smith-Waterman and FASTA Algorithms. Genomics 1991, 11, 635-650.
-
(1991)
Genomics
, vol.11
, pp. 635-650
-
-
Pearson, W.R.1
-
18
-
-
0029889221
-
Local Alignment Statistics
-
Altschul, S. F.; Gish, W. Local Alignment Statistics. Methods Enzymol. 1996, 266, 460-480.
-
(1996)
Methods Enzymol
, vol.266
, pp. 460-480
-
-
Altschul, S.F.1
Gish, W.2
-
19
-
-
0034201441
-
The European Molecular Biology Open Software Suite
-
Rice, P.; Longden, I.; Bleasby, A. EMBOSS: The European Molecular Biology Open Software Suite. Trends Genet. 2000, 16, 276-277.
-
(2000)
Trends Genet
, vol.16
, pp. 276-277
-
-
Rice, P.1
Longden, I.2
Bleasby3
EMBOSS, A.4
-
20
-
-
33846680494
-
Family Relationships: Should Consensus Reign? Consensus-Clustering for Protein Families
-
Nikolski, M.; Sherman, D. J. Family Relationships: Should Consensus Reign? Consensus-Clustering for Protein Families. Bioinformatics 2007, 23, 71-76.
-
(2007)
Bioinformatics
, vol.23
, pp. 71-76
-
-
Nikolski, M.1
Sherman, D.J.2
-
21
-
-
0035339920
-
Molecular Phylogenetics: Stateof-the-Art Methods for Looking into the Past
-
Whelan, S.; Lio, P.; Goldman, N.; Molecular Phylogenetics: Stateof-the-Art Methods for Looking into the Past. Trends Genet. 2001, 17, 262-272.
-
(2001)
Trends Genet
, vol.17
, pp. 262-272
-
-
Whelan, S.1
Lio, P.2
Goldman, N.3
-
22
-
-
0032493657
-
The Involvement of the Fibronectin Type II-Like Modules of Human Gelatinase A in Cell Surface Localization and Activation
-
Steffensen, B.; Bigg, H. F.; Overall, C. M. The Involvement of the Fibronectin Type II-Like Modules of Human Gelatinase A in Cell Surface Localization and Activation. J. Biol. Chem 1998, 273, 20622-20628.
-
(1998)
J. Biol. Chem
, vol.273
, pp. 20622-20628
-
-
Steffensen, B.1
Bigg, H.F.2
Overall, C.M.3
-
23
-
-
0027968068
-
-
Thompson, J. D.; Higgins, D. G.; Gibbson, T. J. ClustalW: Improving the Sensitivity of Progressive Multiple Sequence Alignment through Sequence Weighting, Position-Specific Gap Penalties and Weight Matrix Choice. Nucleic Acids Res. 1994, 22, 4673-4680.
-
Thompson, J. D.; Higgins, D. G.; Gibbson, T. J. ClustalW: Improving the Sensitivity of Progressive Multiple Sequence Alignment through Sequence Weighting, Position-Specific Gap Penalties and Weight Matrix Choice. Nucleic Acids Res. 1994, 22, 4673-4680.
-
-
-
-
24
-
-
1342288004
-
The Jalview Java Alignment Editor
-
Clamp, M.; Cuff, J.; Searle, S. M.; Barton, G. J. The Jalview Java Alignment Editor. Bionformatics 2004, 20, 426-427.
-
(2004)
Bionformatics
, vol.20
, pp. 426-427
-
-
Clamp, M.1
Cuff, J.2
Searle, S.M.3
Barton, G.J.4
-
25
-
-
13444307044
-
Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions
-
Krissinel, E.; Henrick, K.; Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions. Acta Crystallogr. 2004, 60, 2256-2268.
-
(2004)
Acta Crystallogr
, vol.60
, pp. 2256-2268
-
-
Krissinel, E.1
Henrick, K.2
-
26
-
-
33645738383
-
Towards Third Generation Matrix Metalloproteinase Inhibitors for Cancer Therapy
-
Overall, C. M.; Kleifeld, O. Towards Third Generation Matrix Metalloproteinase Inhibitors for Cancer Therapy. Br. J. Cancer 2006, 94, 941-946.
-
(2006)
Br. J. Cancer
, vol.94
, pp. 941-946
-
-
Overall, C.M.1
Kleifeld, O.2
-
27
-
-
33846674048
-
Analysis of Binding Site Similarity, SmallMolecule Similarity and Experimental Binding Profiles in the Human Cytosolic Sulfotransferase Family
-
Najmanovich, J. R.; Allali-Hassani, A.; Morris, J. R.; Dombrovsky, L.; Pan, P. W.; Vedadi, M.; Plotnikov, A. N.; Edwards, A.; Arrowsmith, C.; Thomthon, J. M. Analysis of Binding Site Similarity, SmallMolecule Similarity and Experimental Binding Profiles in the Human Cytosolic Sulfotransferase Family. Bioinformatics 2007, 23, 104-109.
-
(2007)
Bioinformatics
, vol.23
, pp. 104-109
-
-
Najmanovich, J.R.1
Allali-Hassani, A.2
Morris, J.R.3
Dombrovsky, L.4
Pan, P.W.5
Vedadi, M.6
Plotnikov, A.N.7
Edwards, A.8
Arrowsmith, C.9
Thomthon, J.M.10
-
28
-
-
33746893424
-
Highly Predictive CoMFA and CoMSIA Models for Two Series of Stromelysin-1 (MMP-3) Inhibitors Elucidate S1′ and S1-S2′ Binding Modes
-
Amin, E. A.; Welsh, W. J. Highly Predictive CoMFA and CoMSIA Models for Two Series of Stromelysin-1 (MMP-3) Inhibitors Elucidate S1′ and S1-S2′ Binding Modes. J. Chem. Inf. Model. 2006, 46, 1775-1783.
-
(2006)
J. Chem. Inf. Model
, vol.46
, pp. 1775-1783
-
-
Amin, E.A.1
Welsh, W.J.2
-
29
-
-
37249019820
-
-
MATLAB The Language Of Technical Computing, version 7.3; The Mathworks: Natick, MA, 2006
-
MATLAB The Language Of Technical Computing, version 7.3; The Mathworks: Natick, MA, 2006.
-
-
-
-
30
-
-
33244462855
-
QSAR and QSPR Studies of a Highly Structured Physico-Chemical Domain
-
Nicolotti, O.; Carotti, A. QSAR and QSPR Studies of a Highly Structured Physico-Chemical Domain. J. Chem. Inf. Model. 2006, 46, 264-276.
-
(2006)
J. Chem. Inf. Model
, vol.46
, pp. 264-276
-
-
Nicolotti, O.1
Carotti, A.2
-
31
-
-
0014757386
-
A General Method Applicable to the Search for Similarities in the Amino Acid Sequence of Two Proteins
-
Needleman, S. B.; Wunsch, C. D. A General Method Applicable to the Search for Similarities in the Amino Acid Sequence of Two Proteins. J. Mol. Biol. 1970, 48, 443-453.
-
(1970)
J. Mol. Biol
, vol.48
, pp. 443-453
-
-
Needleman, S.B.1
Wunsch, C.D.2
-
32
-
-
0019887799
-
Identification of Common Molecular Subsequences
-
Smith, T. F.; Waterman, M. S. Identification of Common Molecular Subsequences. J. Mol. Biol. 1981, 147, 195-197.
-
(1981)
J. Mol. Biol
, vol.147
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
33
-
-
34250854078
-
Stochastic pairwise alignment and scoring methods for comparative protein structure modelling
-
Marko, A. C.; Stafford, K.; Wymore, T. Stochastic pairwise alignment and scoring methods for comparative protein structure modelling. J. Chem. Inf. Model. 2007, 47, 1263-1270.
-
(2007)
J. Chem. Inf. Model
, vol.47
, pp. 1263-1270
-
-
Marko, A.C.1
Stafford, K.2
Wymore, T.3
-
34
-
-
26944485524
-
An automated system for the analysis of G protein-coupled receptor transmembrane binding pockets: Alignment, receptor-based pharmacophores, and their application
-
Kratochwil, N. A.; Malherbe, P.; Lindermann, L.; Ebeling, M.; Hoener, M. C.; Mühlemann, A.; Porter, R. H. P.; Stahl, M.; Gerber, P. R. An automated system for the analysis of G protein-coupled receptor transmembrane binding pockets: alignment, receptor-based pharmacophores, and their application J. Chem. Inf. Model. 2005, 45, 1324-1336.
-
(2005)
J. Chem. Inf. Model
, vol.45
, pp. 1324-1336
-
-
Kratochwil, N.A.1
Malherbe, P.2
Lindermann, L.3
Ebeling, M.4
Hoener, M.C.5
Mühlemann, A.6
Porter, R.H.P.7
Stahl, M.8
Gerber, P.R.9
-
35
-
-
0025878149
-
Amino Acid Substitution Matrices from an Information Theoretic Perspective
-
Altschul, S. F. Amino Acid Substitution Matrices from an Information Theoretic Perspective. J. Mol. Biol. 1991, 219, 555-565.
-
(1991)
J. Mol. Biol
, vol.219
, pp. 555-565
-
-
Altschul, S.F.1
-
36
-
-
37249000103
-
-
Minitab Inc., 13.20; Making Data Analysis Easier, 2004.
-
Minitab Inc., 13.20; Making Data Analysis Easier, 2004.
-
-
-
-
37
-
-
34547603497
-
-
Tripos Inc, South Hanley Road, St. Louis, MO 63144
-
SYBYL 7.1; Tripos Inc.: 1699 South Hanley Road, St. Louis, MO 63144, 2007.
-
(1699)
SYBYL 7.1
-
-
-
38
-
-
37249084280
-
-
Delano Scientific LLC: South San Francisco, CA
-
Pymol 0.99; Delano Scientific LLC: South San Francisco, CA, 2006.
-
(2006)
Pymol 0.99
-
-
-
39
-
-
33746933809
-
Modulation of Monoamine Oxidase-A and -B Inhibitory Activities of Coumarins by Systematic Substituents Variation at Position 7
-
Catto, M.; Nicolotti, O.; Leonetti, F.; Carotti, A.; Favia, A.; SotoOtero, R.; Mendez-Alvarez, E.; Carotti, A. Modulation of Monoamine Oxidase-A and -B Inhibitory Activities of Coumarins by Systematic Substituents Variation at Position 7. J. Med. Chem. 2006, 16, 4912-4925.
-
(2006)
J. Med. Chem
, vol.16
, pp. 4912-4925
-
-
Catto, M.1
Nicolotti, O.2
Leonetti, F.3
Carotti, A.4
Favia, A.5
SotoOtero, R.6
Mendez-Alvarez, E.7
Carotti, A.8
|