Peer-Reviewed Journal Articles 

46. R. Adhikary, J. Zimmermann, R.L. Stanfield, I.A. Wilson, W.Yu, M. Oda, F.E. Romesberg: Structure and Dynamics of Stacking Interactions in an Antibody Binding Site, Biochemistry 58 (2019), 2987-2995.

45. M. Holcomb, R. Adhikary, J. Zimmermann, F.E. Romesberg: Topological evidence of previously overlooked Ni+1–H···Ni H-bonds and their contribution to protein structure and stability, J. Phys. Chem. A 122 (2018), 446-450.

44. R. Adhikary, Y.X. Tan, J. Liu, J. Zimmermann, M. Holcomb, C. Yvellez, P.E. Dawson, F.E. Romesberg: Conformational heterogeneity and DNA recognition by the morphogen bicoid, Biochemistry 56 (2017), 2787-2793.

43. R. Adhikary, J. Zimmermann, F.E. Romesberg: Transparent window vibrational probes for the characterization of proteins with high structural and temporal resolution, Chem. Rev. (2017), 1927-1969.

42. R. Adhikary, J. Zimmermann, P.E. Dawson, F.E. Romesberg: The temperature dependence of CN and SCN IR absorptions facilitates their interpretation and use as probes of proteins, Anal. Chem. 87 (2016), 11561-11567.

41. R. Adhikary, W. Yu, M. Oda, T. Chen, R. Walker, R. Stanfield, I. Wilson, J. Zimmermann, F.E. Romesberg: Adaptive mutations alter antibody structure and dynamics during affinity maturation, Biochemistry 54 (2015), 2085–2093.

40. R. Adhikary, J. Zimmermann, J. Liu, R.P. Forrest, T.D. Janicki, P.E. Dawson, S.A. Corcelli, F.E. Romesberg: Evidence of an Unusual N-H…N Hydrogen Bond in Proteins, J. Am. Chem. Soc. 136 (2014), 13474-13477.

39. R. Adhikary, J. Zimmermann, P.E. Dawson, F.E. Romesberg: IR Probes of Protein Microenvironemnts: Utility and Potential for Perturbation, ChemPhysChem 5 (2014), 849-853.

38. Z. Li, T. Lavergne, D.A. Malyshev, J. Zimmermann, R. Adhikary, K. Dhami, P. Ordoukhanian, Z. Sun, J. Xiang, F.E. Romesberg: Site-specifically arraying small molecules or proteins on DNA using an expanded genetic alphabet. Chem. Eur. J. 19 (2013), 14205-14209.

37. H. Tao, S.C. Lee, A. Moeller, R.S. Roy, F.Y. Siu, J. Zimmermann, R.C. Stevens, C.S. Potter, B. Carragher, Q. Zhang: Engineered nanostructured β-sheet peptides protect membrane proteins, Nature Methods 10 (2013), 759-761.

36. R. Adhikary, J. Zimmermann, J. Liu, P.E. Dawson, F.E. Romesberg: Experimental Characterization of Electrostatics, Conformational Heterogeneity, and Folding of an SH3 Domain, J. Phys. Chem. B 117 (2013), 13082-13089.

35. R. Adhikary, W. Yu, M. Oda, F.E. Romesberg, J. Zimmermann: Protein Dynamics and the Diversity of an Antibody Response, J. Biol. Chem. 287 (2012), 27139-27147.

34. W. Yu, P.E. Dawson, F.E. Romesberg, J. Zimmermann: Carbon-Deuterium Bonds as Probes of Protein Thermal Unfolding, J. Phys. Chem. B 116 (2012), 6397-6403.

33. J. Zimmermann, M.C. Thielges, W. Yu, P.E. Dawson, F.E. Romesberg: Carbon-Deuterium Bonds as Site-Specific and Nonperturbative Probes for Time-Resolved Studies of Protein Dynamics and Folding, J. Phys. Chem. Lett. 2 (2011), 412-416.

32. J. Zimmermann, M.C. Thielges, Y.J. Seo, P.E. Dawson, F.E. Romesberg: Cyano Groups as Probes of Protein Microenvironments and Dynamics, Angewandte Chem. Int. Ed. 50 (2011), 8333-8337.

31. J. Zimmermann, F.E. Romesberg, C.L. Brooks, I.F. Thorpe: Molecular Description of Flexibility in an Antibody Combining Site, J. Phys. Chem. B 114 (2010), 7359-7370.

30. P. Weinkam, J. Zimmermann, F.E. Romesberg, P.G. Wolynes: The Folding Energy Landscape and Free Energy Excitations of Cytochrome c, Acc. Chem. Res. 43 (2010), 652-660.

29. M.C. Thielges, J. Zimmermann, F.E. Romesberg, FE: Direct Observation of Ligand Dynamics in Cytochrome c, J. Am. Chem. Soc. 131 (2009), 6054-6055.

28. M.E. Cremeens, J. Zimmermann, W.Yu, P.E. Dawson, F.E. Romesberg: Direct Observation of Structural Heterogeneity in a beta-Sheet, J. Am. Chem. Soc. 131 (2009), 5726-5727.

27. J. Zimmermann, K. Gundogdu, M.E. Cremeens, J.N. Bandaria, G.T. Hwang, M.C. Thielges, C.M. Cheatum, F.E. Romesberg: Efforts toward Developing Probes of Protein Dynamics: Vibrational Dephasing and Relaxation of Carbon-Deuterium Stretching Modes in Deuterated Leucine, J. Phys. Chem. B 113 (2009), 7991-7994.

26. M.T. Thielges, J. Zimmermann, P.E. Dawson, F.E. Romesberg: The Determinants of Stability and Folding in Evolutionarily Diverged Cytochromes c, J. Mol. Biol. 388 (2009), 159-167.

25. S.G.. Naraharisetty, V.M. Kasyanenko, J. Zimmermann, M.C. Thielges, F.E. Romesberg, I.V. Rubtsov: C-D Modes of Deuterated Side Chain of Leucine as Structural Reporters via Dual-Frequency Two-Dimensional Infrared Spectroscopy, J. Phys. Chem. B 113 (2009), 4940-4946.

24. P. Weinkam, J. Zimmermann, L.B. Sagle, S. Matsuda, P.W. Dawson, P.E. Wolynes, F.E Romesberg: Characterization of Alkaline Transitions in Ferricytochrome c Using Carbon-Deuterium Infrared Probes, Biochemistry 47 (2008), 13470-13480.

23. M. Thielges, J. Zimmermann, W. Yu, M. Oda, F.E. Romesberg: Exploring the Energy Landscape of Antibody-Antigen Complexes: Protein Dynamics, Flexibility, and Molecular Recognition. Biochemistry 47 (2008), 7237-7247.

22. L.B. Sagle, J. Zimmermann, P.E. Dawson, F.E. Romesberg: Direct and High Resolution Characterization of Cytochrome c Equilibrium Folding. J. Am. Chem. Soc. 128 (2006), 14232-14233.

21. J. Zimmermann, E.L. Oakman, I.F. Thorpe, X. Shi, P. Abbyad, C.L. Brooks, S.G. Boxer, F.E. Romesberg: Antibody evolution constrains conformational heterogeneity by tailoring protein dynamics. Proc. Natl. Acad. Sci. USA 103 (2006), 13722-13727.

20. L.B. Sagle, J. Zimmermann, S. Matsuda, P.E. Dawson, F.E. Romesberg: Redox coupled folding and dynamics in cytochrome c. J. Am. Chem. Soc. 128 (2006), 7909-7915.

19. M.E. Cremeens, H. Fujisaki, Y. Zhang, J. Zimmermann, L.B. Sagle, S. Matsuda, P.E. Dawson, J.E. Straub, F.E. Romesberg: Efforts toward developing direct probes of protein dynamics. J. Am. Chem. Soc. 128 (2006), 6028-6029.

18. P.A. Linden, J. Zimmermann, T. Brixner, N.E. Holt, H.M. Vaswani, R.G. Hiller, G.R. Fleming: Transient Absorption Study of Peridinin and Peridinin-Chlorophyll a-Protein After Two-Photon Excitation. J. Phys. Chem. B 108 (2004), 10340-10345.

17. L.B. Sagle, J. Zimmermann, P.E. Dawson, F.E. Romesberg: A High Resolution Probe of Protein Folding. J. Am. Chem. Soc. 126 (2004), 3384-3385.

16. Y.-Z. Ma, J. Stenger, J. Zimmermann, S. M. Bachilo, R.E. Smalley, R.B. Weisman, G.R. Fleming: Ultrafast Carrier Dynamics in Single-Walled Carbon Nanotubes Probed by Femtosecond Spectroscopy. J. Chem. Phys. 120 (2004), 3368-3373.

15. J. Zimmermann, A. Zeug, B. Röder: A Generalization of the Jablonski Diagram to Account for Polarization and Anisotropy Effects In Time Resolved Experiments. Phys. Chem. Chem. Phys. 5 (2003), 2964-2969.

14. J. Zimmermann, U. Siggel, J.-H. Fuhrhop, B. Röder: Excitonic Coupling Between B and Q Transitions in a Porphyrin Aggregate. J. Phys. Chem. B 107 (2003), 6019-6021.

13. H. Fuchs, J. Zimmermann, B. Röder: Photoinduced Fluorescence and Transient Absorption Anisotropy of Tetrapyrroles of Different Molecular Symmetry. Opt. Comm. 220 (2003), 119-127.

12. J. Zimmermann, P.A. Linden, H.M. Vaswami, R.G. Hiller, G.R. Fleming: Two-Photon Excitation Study of Peridinin in Benzene and in the Peridinin Chlorophyll a-Protein (PCP). J. Phys. Chem. B 106 (2002), 9418-9423.

11. A. Zeug, J. Zimmermann, B. Röder, M. G. Lagorio, E. San Roman: Microcrystalline Cellulose as a Carrier for Hydrophobic Photosensitizers in Water. Photochem. Photobiol. Sci. 1 (2002), 198-202.

10. L. Ruhlmann, J. Zimmermann, W. Fudickar, U. Siggel, J.-H. Fuhrhop: Heterodimers and -trimers of meso-tetra-(isophtlicacid)-porphyrin octaanions with meso- and -tetramethylpyridinium-porphyrin tetracations and their Manganese complexes in water. J. Electroanalytical Chem. 503 (2001), 1-14.

9. M. Skupin, G.T. Li, W. Fudickar, J. Zimmermann, B. Röder, J.-H. Fuhrhop: Methylammonium groups at the solid walls of nanometer-sized, water-filled monolayer gaps as binding sites for a tetraanionic porphyrin. J. Am. Chem. Soc. 123 (2001), 3454-3461.

8. M.G. Lagorio, E. San Román, A. Zeug, J. Zimmermann, B Röder: Photophysics on Surfaces: Absorption and Luminescence Properties of Pheophorbide-a on cellulose. Phys. Chem. Chem. Phys. 3 (2001), 1524-1529.

7. C. Messerschmidt, A. Schulz, J. Zimmermann, J.-H. Fuhrhop: Monolayer fibers on solid surfaces made of a quinone sulfonate. Langmuir 16 (2000), 5790-5796.

6. J.-H. Fuhrhop, Ch. Böttcher, Ch. Draeger, W. Fudickar, A. Schulz, C. Messerschmidt, J.Zimmermann: Dimerization of metallated pigments as primary step in the construction of membrane gaps on gold, polymeric wires and isolable micelles. Makromol. Symp. 156 (2000), 11-19.

5. W. Fudickar, J. Zimmermann, L. Ruhlmann, J. Schneider, B. Röder, U. Siggel, J.-H. Fuhrhop: Fluorescence quenching and size-selective heterodimerization of a porphyrin adsorbed to gold and embedded in rigid membrane gaps. J. Am. Chem. Soc. 121 (1999), 9539-9545.

4. J.-H. Fuhrhop, S. Svenson, C. Böttcher, O. Träger, C. Demoulin, P. Schnieder, C. Messerschmidt, L. Ruhlmannn, J. Zimmermann: Non-covalent chiral fibers in aqueous gels and their functionalization. Bull. Mater. Sci. 22 (1999), 307-312.

3. L. Ruhlmann, J. Zimmermann, C. Messerschmidt, W. Fudickar, J.-H. Fuhrhop :Rigid Ångström clefts in lipid membranes on solid surfaces. NATO ASI Series, Series C 527 (1999), 225-232.

2. J.-H. Fuhrhop, L. Ruhlmann, C. Messerschmidt, W. Fudickar, J. Zimmermann, B. Röder: Rigidity in synkinetic molecular monolayers of functional lipids containing Ångström gaps. Pure & Appl. Chem. 70 (1998), 2385-2391.

1. J. Zimmermann, J. von Gersdorff, H. Kurreck, B. Röder: Determination of the electron transfer parameters of a covalently linked porphyrin-quinone with mesogenic substituents - optical spectroscopic studies in solution. J. Photochem. Photobiol. B 40 (1997), 209-217.

Book Chapters

2. J. Zimmermann, F.E. Romesberg: Carbon-Deuterium Bonds as Non-perturbative Infrared Probes of Protein Dynamics, Electrostatics, Heterogeneity, and Folding. In D. Livesay (ed.): Methods Mol. Biol.: Protein Dynamics, vol. 1084, pp. 101-119.

1. J. Zimmermann, M.C. Thielges, W. Yu, F.E. Romesberg: Protein Dynamics and the Evolution of Novel Protein Function. In S. Lutz, U. Bornscheuer (Ed.): Protein Engineering Handbook , vol. 1, p. 147-185.