Molecular modeling is a tool encompasses computational techniques used to mimic Deoxyribonucleic Acid(DNA) and protein. Docking is a study in the field of Molecular modeling which predicts the preferred orientation of Protein DNA Binding. In this book Molecular modeling of Nucleoside Diphosphate Kinase (NDP kinase-cancer metastatic suppressor protein) and its interaction with pBR322 DNA and matrix metalloproteases (MMP-2) enhancer responsible element (RE-1) is discussed. This book also includes NDP kinase Topoisomersae interaction and Topoisomerase interaction with pBR322 DNA. The readers of the present book will be benefited to understand the basics of Molecular Modeling, Protein-DNA and Protein-Protein interactions.
High Quality Content by WIKIPEDIA articles! 5'-guanosyl-methylene-triphosphate (GDPCP) and 5'-adenosyl-methylene-triphosphate (ADPCP) are analogues of guanosine 5'-triphosphate (GTP) and adenosine 5'-triphosphate (ATP), which store chemical energy from metabolism in the cell. Hydrolysis of nucleoside triphosphates (NTPs) such as ATP and GTP yields energy, inorganic phosphate (Pi or PPi), and either NDP or NMP. GDPCP and ADPCP are not subject to hydrolysis under the same conditions as NTPs, it is this property which makes them useful in experiments in biochemistry and molecular biology. NTPs can be hydrolyzed at the phosphodiester bonds between phosphates, releasing energy and one or more of the three phosphate groups. Additionally, NTPs are inextricable components of some proteins, where their role may be structural and need not involve hydrolysis.