Skip to Main Content Area

Primary Publication

This publication represents a primary interest of the Baker lab

Feature space resampling for protein conformational search

Blum, B., Jordan M. I., & Baker D. (2010). Feature space resampling for protein conformational search. Proteins. 78(6), 1583-93.

Primary Publication

RosettaHoles2: a volumetric packing measure for protein structure refinement and validation

Sheffler, W., & Baker D. (2010). RosettaHoles2: a volumetric packing measure for protein structure refinement and validation. Protein science. 19(10), 1991-5.

Primary Publication

Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping

Tyka, M. D., Keedy D. A., André I., DiMaio F., Song Y., Richardson D. C., et al. (2010). Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping. Journal of molecular biology.

Primary Publication

Accurate automated protein NMR structure determination using unassigned NOESY data

Raman, S., Huang Y. J., Mao B., Rossi P., Aramini J. M., Liu G., et al. (2010). Accurate automated protein NMR structure determination using unassigned NOESY data. Journal of the American Chemical Society. 132(1), 202-7.

Primary Publication

Prediction of structures of zinc-binding proteins through explicit modeling of metal coordination geometry

Wang, C., Vernon R., Lange O., Tyka M., & Baker D. (2010). Prediction of structures of zinc-binding proteins through explicit modeling of metal coordination geometry. Protein science. 19(3), 494-506.

Primary Publication

Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs

Ashworth, J., Taylor G. K., Havranek J. J., Quadri A. S., Stoddard B. L., & Baker D. (2010). Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs. Nucleic acids research. 38(16), 5601-8.

Primary Publication

Evaluation of structural and evolutionary contributions to deleterious mutation prediction

Saunders, C. T., & Baker D. (2002). Evaluation of structural and evolutionary contributions to deleterious mutation prediction. Journal of molecular biology. 322(4), 891-901.

Primary Publication

Kemp elimination catalysts by computational enzyme design

Röthlisberger, D., Khersonsky O., Wollacott A. M., Jiang L., DeChancie J., Betker J., et al. (2008). Kemp elimination catalysts by computational enzyme design. Nature. 453(7192), 190-5.

Primary Publication

An exciting but challenging road ahead for computational enzyme design

Baker, D. (2010). An exciting but challenging road ahead for computational enzyme design. Protein science.

Primary Publication

Macromolecular modeling with rosetta

Das, R., & Baker D. (2008). Macromolecular modeling with rosetta. Annual review of biochemistry. 77, 363-82.

Primary Publication

Warning: Table './bakerDrupal/watchdog' is marked as crashed and should be repaired query: INSERT INTO watchdog (uid, type, message, variables, severity, link, location, referer, hostname, timestamp) VALUES (0, 'php', '%message in %file on line %line.', 'a:4:{s:6:\"%error\";s:7:\"warning\";s:8:\"%message\";s:397:\"date() [<a href=\'function.date\'>function.date</a>]: It is not safe to rely on the system\'s timezone settings. You are *required* to use the date.timezone setting or the date_default_timezone_set() function. In case you used any of those methods and you are still getting this warning, you most likely misspelled the timezone identifier. We selected \'America/Los_Angeles\' for \'PDT/-7.0/DST\' instead\";s:5:\"%file\";s:77:\"/nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/sites/all/modules/boost/boost.module\";s:5:\"%line\";i:2219;}', 3, '' in /nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/includes/database.mysqli.inc on line 128

Warning: Table './bakerDrupal/watchdog' is marked as crashed and should be repaired query: INSERT INTO watchdog (uid, type, message, variables, severity, link, location, referer, hostname, timestamp) VALUES (0, 'php', '%message in %file on line %line.', 'a:4:{s:6:\"%error\";s:7:\"warning\";s:8:\"%message\";s:397:\"date() [<a href=\'function.date\'>function.date</a>]: It is not safe to rely on the system\'s timezone settings. You are *required* to use the date.timezone setting or the date_default_timezone_set() function. In case you used any of those methods and you are still getting this warning, you most likely misspelled the timezone identifier. We selected \'America/Los_Angeles\' for \'PDT/-7.0/DST\' instead\";s:5:\"%file\";s:77:\"/nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/sites/all/modules/boost/boost.module\";s:5:\"%line\";i:2228;}', 3, '' in /nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/includes/database.mysqli.inc on line 128