Virtual screening with AutoDock: theory and practice

S Cosconati, S Forli, AL Perryman… - Expert opinion on …, 2010 - Taylor & Francis
Importance of the field: Virtual screening is a computer-based technique for identifying
promising compounds to bind to a target molecule of known structure. Given the rapidly …

Virtual screening in drug discovery-a computational perspective

AS Reddy, SP Pati, PP Kumar… - Current Protein and …, 2007 - ingentaconnect.com
Virtual screening emerged as an important tool in our quest to access novel drug like
compounds. There are a wide range of comparable and contrasting methodological …

Molecular docking algorithms

R Dias, J de Azevedo, F Walter - Current drug targets, 2008 - ingentaconnect.com
By means of virtual screening of small molecules databases it is possible to identify new
potential inhibitors against a target of interest. Molecular docking is a computer simulation …

Huanglongbing pandemic: current challenges and emerging management strategies

D Ghosh, S Kokane, BK Savita, P Kumar, AK Sharma… - Plants, 2022 - mdpi.com
Huanglongbing (HLB, aka citrus greening), one of the most devastating diseases of citrus,
has wreaked havoc on the global citrus industry in recent decades. The culprit behind such …

An improved relaxed complex scheme for receptor flexibility in computer-aided drug design

RE Amaro, R Baron, JA McCammon - Journal of computer-aided molecular …, 2008 - Springer
The interactions among associating (macro) molecules are dynamic, which adds to the
complexity of molecular recognition. While ligand flexibility is well accounted for in …

Structure-based virtual screening of chemical libraries for drug discovery

S Ghosh, A Nie, J An, Z Huang - Current opinion in chemical biology, 2006 - Elsevier
One of the main goals in drug discovery is to identify new chemical entities that have a high
likelihood of binding to the target protein to elicit the desired biological response. To this …

AutoDock and AutoDockTools for protein-ligand docking: beta-site amyloid precursor protein cleaving enzyme 1 (BACE1) as a case study

N El-Hachem, B Haibe-Kains, A Khalil… - … : Methods and Protocols, 2017 - Springer
Computational docking and scoring techniques have revolutionized structural bioinformatics
by providing unprecedented insights on key aspects of ligand-receptor interaction. Docking …

Therapeutic targeting of Myc

EV Prochownik, PK Vogt - Genes & cancer, 2010 - journals.sagepub.com
Protein–protein interactions between members of the Myc transcription factor network are
potential targets of small molecule inhibitors and stabilizers. Diverse screening strategies …

Critical assessment of the automated AutoDock as a new docking tool for virtual screening

H Park, J Lee, S Lee - Proteins: Structure, Function, and …, 2006 - Wiley Online Library
A major problem in virtual screening concerns the accuracy of the binding free energy
between a target protein and a putative ligand. Here we report an example supporting the …

Docking screens: right for the right reasons?

P Kolb, JJ Irwin - Current topics in medicinal chemistry, 2009 - ingentaconnect.com
Whereas docking screens have emerged as the most practical way to use protein structure
for ligand discovery, an inconsistent track record raises questions about how well docking …