T Andrew Binkowski
Affiliation: Argonne National Laboratory
- Topology independent protein structural alignmentJoe Dundas
Department of Bioengineering, University of Illinois at Chicago, Chicago, IL 60607 7053, USA
BMC Bioinformatics 8:388. 2007..The resulting structural alignment is sequence order independent. Our method is also insensitive to insertions, deletions, and gaps...
- Protein functional surfaces: global shape matching and local spatial alignments of ligand binding sitesT Andrew Binkowski
Midwest Center for Structural Genomics and Structural Biology Center, Biosciences Division, Argonne National Laboratory, Argonne, Illinois 60439, USA
BMC Struct Biol 8:45. 2008..While biochemical activity can be attributed to a few key residues, the broader surrounding environment plays an equally important role...
- Assisted assignment of ligands corresponding to unknown electron densityT Andrew Binkowski
Midwest Center for Structural Genomics MCSG, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL 60439, USA
J Struct Funct Genomics 11:21-30. 2010..The method is validated against highly observed ligands from the Protein Data Bank and results are shown from its use in a high-throughput structural genomics pipeline...
- Predicting HLA class I non-permissive amino acid residues substitutionsT Andrew Binkowski
Biosciences Division, Argonne National Laboratory, Midwest Center for Structural Genomics, Argonne, Illinois, United States of America
PLoS ONE 7:e41710. 2012..The effect on binding activity across a large set of high-affinity peptides is used to investigate amino acid mismatches reported as high-risk factors in hematopoietic stem cell transplantation...