DavidCarletonBakerMD

Orthopaedic Surgery • Hershey, PA

Assistant Professor, Orthopaedics & Rehabilitation, Pennsylvania State University College of Medicine

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Office
500 University Dr
Hershey, PA 17033
Phone+1 800-243-1455

Fax+1 717-243-7092
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Education & Training

Prisma Health-Midlands/University of South Carolina School of Medicine-ColumbiaResidency, Orthopaedic Surgery, 1984 - 1989
Baylor College of MedicineInternship, Transitional Year, 1982 - 1983
Perelman School of Medicine at the University of PennsylvaniaClass of 1982

Certifications & Licensure

PA State Medical License 1989 - 2024
SC State Medical License 1984 - 1992
TX State Medical License 1983 - 1987
American Board of Orthopaedic Surgery Orthopaedic Surgery

Awards, Honors, & Recognition

Fellow (FACS) American College of Surgeons

Publications & Presentations

PubMed

Engineered Biosensors from Dimeric Ligand-Binding Domains.
Jester, B. W.,Tinberg, C. E.,Rich, M. S.,Baker, D.,Fields, S.> ;ACS Synth Biol. 2018 Sep 12
De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy.
Huang, P. S.,Feldmeier, K.,Parmeggiani, F.,Fernandez Velasco, D. A.,Höcker, B.,Baker, D.> ;Nat. Chem. Biol.. 2015 Nov 26
FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants.
Bednar, D.,Beerens, K.,Sebestova, E.,Bendl, J.,Khare, S.,Chaloupkova, R.,Prokop, Z.,Brezovsky, J.,Baker, D.,Damborsky, J.> ;PLoS Comput. Biol.. 2015 Nov 04
Control of repeat-protein curvature by computational protein design.
Park, K.,Shen, B. W.,Parmeggiani, F.,Huang, P. S.,Stoddard, B. L.,Baker, D.> ;Nat. Struct. Mol. Biol.. 2015 Jan 13
Transition states. Trapping a transition state in a computationally designed protein bottle.
Pearson, A. D.,Mills, J. H.,Song, Y.,Nasertorabi, F.,Han, G. W.,Baker, D.,Stevens, R. C.,Schultz, P. G.> ;Science. 2015 Feb 24
De novo protein structure determination from near-atomic-resolution cryo-EM maps.
Wang, R. Y.,Kudryashev, M.,Li, X.,Egelman, E. H.,Basler, M.,Cheng, Y.,Baker, D.,DiMaio, F.> ;Nat. Methods. 2015 Feb 24
Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement.
DiMaio, F.,Song, Y.,Li, X.,Brunner, M. J.,Xu, C.,Conticello, V.,Egelman, E.,Marlovits, T. C.,Cheng, Y.,Baker, D.> ;Nat. Methods. 2015 Feb 24
Intrinsic disorder drives N-terminal ubiquitination by Ube2w.
Vittal, V.,Shi, L.,Wenzel, D. M.,Scaglione, K. M.,Duncan, E. D.,Basrur, V.,Elenitoba-Johnson, K. S.,Baker, D.,Paulson, H. L.,Brzovic, P. S.,Klevit, R. E.> ;Nat. Chem. Biol.. 2014 Dec 02
A General Computational Approach for Repeat Protein Design.
Parmeggiani, F.,Huang, P. S.,Vorobiev, S.,Xiao, R.,Park, K.,Caprari, S.,Su, M.,Seetharaman, J.,Mao, L.,Janjua, H.,Montelione, G. T.,Hunt, J.,Baker, D.> ;J. Mol. Biol.. 2014 Dec 03
A hybrid NMR/SAXS-based approach for discriminating oligomeric protein interfaces using Rosetta.
Rossi, P.,Shi, L.,Liu, G.,Barbieri, C. M.,Lee, H. W.,Grant, T. D.,Luft, J. R.,Xiao, R.,Acton, T. B.,Snell, E. H.,Montelione, G. T.,Baker, D.,Lange, O. F.,Sgourakis, N. G.> ;Proteins. 2014 Nov 13
Bioluminescent sensor proteins for point-of-care therapeutic drug monitoring.
Griss, R.,Schena, A.,Reymond, L.,Patiny, L.,Werner, D.,Tinberg, C. E.,Baker, D.,Johnsson, K.> ;Nat. Chem. Biol.. 2014 Jun 09
High-resolution modeling of transmembrane helical protein structures from distant homologues.
Chen, K. Y.,Sun, J.,Salvo, J. S.,Baker, D.,Barth, P.> ;PLoS Comput. Biol.. 2014 May 24
Design of activated serine-containing catalytic triads with atomic-level accuracy.
Rajagopalan, S.,Wang, C.,Yu, K.,Kuzin, A. P.,Richter, F.,Lew, S.,Miklos, A. E.,Matthews, M. L.,Seetharaman, J.,Su, M.,Hunt, J. F.,Cravatt, B. F.,Baker, D.> ;Nat. Chem. Biol.. 2014 Apr 08
megaTALs: a rare-cleaving nuclease architecture for therapeutic genome engineering.
Boissel, S.,Jarjour, J.,Astrakhan, A.,Adey, A.,Gouble, A.,Duchateau, P.,Shendure, J.,Stoddard, B. L.,Certo, M. T.,Baker, D.,Scharenberg, A. M.> ;Nucleic Acids Res.. 2013 Nov 29
Relaxation of backbone bond geometry improves protein energy landscape modeling.
Conway, P.,Tyka, M. D.,Dimaio, F.,Konerding, D. E.,Baker, D.> ;Protein Sci.. 2013 Nov 23
Exploration of Alternate Catalytic Mechanisms and Optimization Strategies for Retroaldolase Design.
Bjelic, S.,Kipnis, Y.,Wang, L.,Pianowski, Z.,Vorobiev, S.,Su, M.,Seetharaman, J.,Xiao, R.,Kornhaber, G.,Hunt, J. F.,Tong, L.,Hilvert, D.,Baker, D.> ;J. Mol. Biol.. 2013 Oct 29
Improved low-resolution crystallographic refinement with Phenix and Rosetta.
Dimaio, F.,Echols, N.,Headd, J. J.,Terwilliger, T. C.,Adams, P. D.,Baker, D.> ;Nat. Methods. 2013 Sep 29
High-Resolution Comparative Modeling with RosettaCM.
Song, Y.,Dimaio, F.,Wang, R. Y.,Kim, D.,Miles, C.,Brunette, T.,Thompson, J.,Baker, D.> ;Structure. 2013 Oct 8
Computational design of ligand-binding proteins with high affinity and selectivity.
Tinberg, C. E.,Khare, S. D.,Dou, J.,Doyle, L.,Nelson, J. W.,Schena, A.,Jankowski, W.,Kalodimos, C. G.,Johnsson, K.,Stoddard, B. L.,Baker, D.> ;Nature. 2013 Sep 12
Computational design of an unnatural amino Acid dependent metalloprotein with atomic level accuracy.
Mills, J. H.,Khare, S. D.,Bolduc, J. M.,Forouhar, F.,Mulligan, V. K.,Lew, S.,Seetharaman, J.,Tong, L.,Stoddard, B. L.,Baker, D.> ;J. Am. Chem. Soc.. 2013 Sep 11
One contact for every twelve residues allows robust and accurate topology-level protein structure modeling.
Kim, D. E.,Dimaio, F.,Wang, R. Y.,Song, Y.,Baker, D.> ;Proteins. 2013 Jul 31
Cryo-EM model validation using independent map reconstructions.
Dimaio, F.,Zhang, J.,Chiu, W.,Baker, D.> ;Protein Sci.. 2013 Jun
Advances, Interactions, and Future Developments in the CNS, Phenix, and Rosetta Structural Biology Software Systems.
Adams, P. D.,Baker, D.,Brunger, A. T.,Das, R.,Dimaio, F.,Read, R. J.,Richardson, D. C.,Richardson, J. S.,Terwilliger, T. C.> ;Annu Rev Biophys. 2013
Expanding the product profile of a microbial alkane biosynthetic pathway.
Harger, M.,Zheng, L.,Moon, A.,Ager, C.,An, J. H.,Choe, C.,Lai, Y. L.,Mo, B.,Zong, D.,Smith, M. D.,Egbert, R. G.,Mills, J. H.,Baker, D.,Pultz, I. S.,Siegel, J. B.> ;ACS Synth Biol. 2013 Jan 18
Medicare Part D policy update and implications for 2010.
DePue, R.J., Stubbings, J., Baker, D.C.> ;Am J Manag Care. 2010 May
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Grant Support

High Resolution Structure Modeling With RosettaNational Institute Of General Medical Sciences2010–2012
Rosetta Based Modeling Of Cryo-Em MAPNational Center For Research Resources2011
Determination Of The Structures Of Symmetric Protein Oligomers From NMR ChemicalNational Center For Research Resources2011
Computational Design Of Proteins Targeting The Stem Region Of InfluenzaNational Center For Research Resources2011
A DE Novo Protein Binding Pair By Computational Design And Directed EvolutionNational Center For Research Resources2011
Consortia For High-Throughput-Enabled Structural Biology Partnerships (U01)National Institute Of General Medical Sciences2010–2011
Computational Design Of An Laglidadgs With Novel Recognition Specificities (CompoNational Institute Of General Medical Sciences2007–2011
Structure Prediction With Limited Experimental ConstraintsNational Center For Research Resources2010
Prediction Of Membrane Protein Structures With Complex Topologies Using LimitedNational Center For Research Resources2009–2010
DE Novo Design Of PROTEIN-PROTEIN InteractionsNational Center For Research Resources2009–2010
AB Initio Modeling Based On Cryoem MAPNational Center For Research Resources2006–2010
Modeling The Structure Of A Receptor With Two Associating Transmembrane DomainsNational Center For Research Resources2009
Clinical Trial: A Study To Assess The Prophylactic Efficacy/Safety Of Gd-Alum/MpNational Center For Research Resources2008–2009
PROTEIN-PROTEIN InteractionsNational Institute Of General Medical Sciences2005–2009
DE Novo Protein Interface DesignNational Center For Research Resources2007–2008
Predicting RMSD Of Predicted Protein StructuresNational Center For Research Resources2006–2008
The Vaginal/Oral ConnectionNational Center For Research Resources2007
TEV Protease EnhancementNational Center For Research Resources2007
Predicting Molecular Function For Proteins Using GO And Structure InformationNational Center For Research Resources2005–2007
A Study To Assess The Prophylactic Efficacy/Safety Of Gd-Alum/Mpl VaccineNational Center For Research Resources2005–2007
Low-Resolution Structural Genomics Of NucleasesFogarty International Center2005–2007
Toward High-Resolution DE Novo Structure Prediction For Small ProteinsNational Center For Research Resources2006
Seminars On Progress In High Resolution Modeling Of Macromolecular Structures ANational Center For Research Resources2006
Secondary Structure Motif Matching In RosettaNational Center For Research Resources2006
Protein Structure Prediction Of Yeast GenomeNational Center For Research Resources2004–2006
Seminars And Reviews On Protein Structure PredictionNational Center For Research Resources2005
Gene Ontology Term Prediction Using Rosetta/Ginzu DataNational Center For Research Resources2005
Development Of The AB Initio Structure Prediction AlgorithmsNational Center For Research Resources2005
Large Scale Structure Prediction FacilityNational Center For Research Resources2004–2005
Structural Domain Identification From SequenceNational Center For Research Resources2004
Seminars On Protein Structure PredictionNational Center For Research Resources2004
Protein Structure Prediction Web-Based Analysis ToolNational Center For Research Resources2004
Gene Ontology Term PredictionNational Center For Research Resources2004
Folding And Design Of Alpha Beta Sandwich ProteinsNational Institute Of General Medical Sciences2000–2003
Mechanism Of Folding Of The SH3 DomainNational Institute Of General Medical Sciences1999–2002
Sequence Dependence Of Protein Folding KineticsNational Institute Of General Medical Sciences1995–1999
Synthesis Of Congeners And ProdrugsDivision Of Cancer Treatment1994–1995