Primary Citation PubMed: 15809432
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Towards third generation matrix metalloproteinase inhibitors for cancer therapy.
(2006) Br J Cancer 94
PubMed: 16538215 | PubMedCentral: PMC2361222 | DOI: 10.1038/sj.bjc.6603043
The catalytic domains of MMP3 (PDB:1CIZ), MMP8 (PDB: 1KBC), MMP9 (PDB:1GKD) and MMP12 (PDB: 1Y93) were structurally aligned and superimposed.
Publication Year: 2006
Analysis of X-ray structures of matrix metalloproteinases via chaotic map clustering.
(2010) BMC Bioinformatics 11
PubMed: 20932281 | PubMedCentral: PMC3098083 | DOI: 10.1186/1471-2105-11-500
sub-families classes PDB codes archetypal MMPs MMP-1 1CGE, 966C, 1HFC, 2TCL, 1CGL, 1CGF, 2J0T Collagenasi MMP-8 1MNC, 1ZS0, 1ZP5, 1MMB, 1JAO, 1JAP, 1JAQ, 1JJ9, 1I76, 1I73, 1ZVX, 1BZS, 1KBC, 1JAN, 1A86... 1A85, 1JH1, 3DNG, 3DPE, 3DPF, 2OY2, 2OY4 MMP-13 1XUC, 1XUR, 1XUD, 1YOU, 830C, 456C, 1ZTQ, 2D1N, 1CXV, 2PJT, 2OW9, 2E2D, 2OZR metallo-elastase MMP-12 1Y93, 1RMZ, 1OS9, 1OS2, 1UTZ, 1UTT, 1JIZ, 1ROS, 1JK3, 3F15, 3F16, 3F17, 3F18, 3F19, 3F1A, 2W0D, 2HU6, 2OXU, 2OXW, 2OXZ Stromelysin MMP-3 1B8Y, 1CIZ, 1CAQ, 1G4K, 2USN, 1USN, 1SLM, 1UEA, 1HFS, 1QIC, 1C3I, 1CQR, 1BQO, 1BIW, 1SLN, 1HY7, 1G05, 1G49, 1D5J, 1D8F, 1D7X, 1D8M, 2D1O, 1B3D, 1QIA, 1C8T MMP-10 1Q3A matrilysin Matrilysin MMP-7 1MMP, 1MMQ, 1MMR gelatinases Gelatinase MMP-9 1GKC, 1GKD, 2OVX, 2OVZ, 2OW0, 2OW1, 2OW2 MMP-2 1QIB convertase-activatable MMPs MT-MMPs MMP-14 1BUV, 1BQQ MMP-16 1RM8 stromelysin-3 MMP-11 1HV5 After removing water molecules and co-crystallised inhibitors, MMPs were aligned onto Cartesian coordinates of C-alpha atoms and the three catalytic histidine side chains of 1ZS0, selected as template.
Publication Year: 2010
Structure-based design, synthesis, molecular docking, and biological activities of 2-(3-benzoylphenyl) propanoic acid derivatives as dual mechanism drugs.
(2012) J Pharm Bioallied Sci 4
PubMed: 22368397 | PubMedCentral: PMC3283955 | DOI: 10.4103/0975-7406.92728
Docking of the synthesized compounds into MMPs Results of the molecular docking study revealed that the compounds (2) and (3) docked into the active sites of MMP-1, -2, -3, -7, -8, -9, -12, and -13 (P... B entry: 3AYK, 1HOV, 2JT5, 1MMQ, 3DPE, 1GKC, 1Y93, and 2D1N, respectively) exhibited their binding interactions in a similar fashion to the native cocrystallized ligands of the respective enzymes [ Figure 3 ].
Publication Year: 2012
Strategic targeting of multiple water-mediated interactions: a concise and rational structure-based design approach to potent and selective MMP-13 inhibitors.
(2013) ChemMedChem 8
PubMed: 23894097 | PubMedCentral: PMC4281860 | DOI: 10.1002/cmdc.201300278
image WILEY-VCH Furthermore, molecular modeling of 4 within the S1′ binding sites of MMP‐2 (PDB 3AYU), 12 MMP‐12 (PDB 1Y93), 13 and MMP‐14 (PDB 3MA2) 14 indicated that ... does not fit into the MMP‐2, MMP‐12 and MMP‐14 binding sites due to a clash in the selectivity loop deep within the S1′ pocket.
Publication Year: 2013
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