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Martin Gruebele

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Maxim B Prigozhin; Klaus Schulten; Roland Winter; Anna Jean Wirth; Shobhna Kapoor; Yanxin Liu; Martin Gruebele
Misplaced helix slows down ultrafast pressure-jump protein folding.
Yoshitaka Matsumura; Nobuyuki Okishio; Masaji Shinjo; Martin Gruebele; Seung Joong Kim; Hiroshi Kihara
Transient Helical Structure during PI3K and Fyn SH3 Domain Folding.
Konrad Meister; Yao Xu; David M Leitner; Arthur DeVries; John G Duman; Simon Ebbinghaus; Martin Gruebele; Martina Havenith
Long-range protein-water dynamics in hyperactive insect antifreeze proteins.

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All Publications

2013: Maxim B Prigozhin; Klaus Schulten; Roland Winter; Anna Jean Wirth; Shobhna Kapoor; Yanxin Liu; Martin Gruebele
Misplaced helix slows down ultrafast pressure-jump protein folding.
Proceedings of the National Academy of Sciences of the United States of America 2013;110(20):8087-92.
2013: Yoshitaka Matsumura; Nobuyuki Okishio; Masaji Shinjo; Martin Gruebele; Seung Joong Kim; Hiroshi Kihara
Transient Helical Structure during PI3K and Fyn SH3 Domain Folding.
The journal of physical chemistry. B 2013;117(17):4836-43.
2013: Konrad Meister; Yao Xu; David M Leitner; Arthur DeVries; John G Duman; Simon Ebbinghaus; Martin Gruebele; Martina Havenith
Long-range protein-water dynamics in hyperactive insect antifreeze proteins.
Proceedings of the National Academy of Sciences of the United States of America 2013;110(5):1617-22.
2012: Eduardo Berrios; Martin Gruebele; Dmytro Shyshlov; Lei Wang; Dmitri Babikov
High fidelity quantum gates with vibrational qubits.
The journal of physical chemistry. A 2012;116(46):11347-54.
2012: Minghao Guo; Yangfan Xu; Martin Gruebele
Temperature dependence of protein folding kinetics in living cells.
Proceedings of the National Academy of Sciences of the United States of America 2012;109(44):17863-7.
2012: S Ashtekar; J Lyding; D Nguyen; W H Wang; K Zhao; Martin Gruebele
Communication: An obligatory glass surface.
The Journal of chemical physics 2012;137(14):141102.
2012: Simon Ebbinghaus; Arthur L Devries; Joachim Dzubiella; Martina Havenith; Konrad Meister; Maxim B Prigozhin; Martin Gruebele
Functional importance of short-range binding and long-range solvent interactions in helical antifreeze peptides.
Biophysical journal 2012;103(2):L20-2.
2012: Hannah Gelman; Max Platkov; Martin Gruebele
Rapid perturbation of free-energy landscapes: from in vitro to in vivo.
Chemistry (Weinheim an der Bergstrasse, Germany) 2012;18(21):6420-7.
2012: Sharlene Denos; Apratim Dhar; Martin Gruebele
Crowding effects on the small, fast-folding protein lambda6-85.
Faraday discussions 2012;157():451-62; discussion 475-500.
2012: Apratim Dhar; Hannah Gelman; Maxim Prigozhin; Martin Gruebele
Studying IDP stability and dynamics by fast relaxation imaging in living cells.
Methods in molecular biology (Clifton, N.J.) 2012;895():101-11.
2011: Maxim B Prigozhin; Martin Gruebele
The fast and the slow: folding and trapping of λ6-85.
Journal of the American Chemical Society 2011;133(48):19338-41.
2011: Apratim Dhar; Martin Gruebele
Fast Relaxation Imaging in living cells.
Current protocols in protein science / editorial board, John E. Coligan ... [et al.] 2011;Chapter 28():Unit28.1.
2011: A Dhar; S Ebbinghaus; H Gelman; K Girdhar; D Singh; Martin Gruebele
Protein stability and folding kinetics in the nucleus and endoplasmic reticulum of eucaryotic cells.
Biophysical journal 2011;101(2):421-30.
2011: Kiran Girdhar; Yann R Chemla; Gregory Scott; Martin Gruebele
Better biomolecule thermodynamics from kinetics.
The Journal of chemical physics 2011;135(1):015102.
2011: Divina Anunciado; Apratim Dhar; Martin Gruebele; Anne M Baranger
Multistep kinetics of the U1A-SL2 RNA complex dissociation.
Journal of molecular biology 2011;408(5):896-908.
2011: Maxim B Prigozhin; Krishnarjun Sarkar; Dennis Law; William C Swope; Martin Gruebele; Jed Pitera
Reducing lambda repressor to the core.
The journal of physical chemistry. B 2011;115(9):2090-6.
2011: Martin Gruebele
A triple threat to single molecules.
Nature methods 2011;8(3):213-5.
2011: Elizabeth K Culyba; Joshua L Price; Sarah R Hanson; Apratim Dhar; Chi-Huey Wong; Martin Gruebele; Evan T Powers; Jeffery W Kelly
Protein native-state stabilization by placing aromatic side chains in N-glycosylated reverse turns.
Science (New York, N.Y.) 2011;331(6017):571-5.
2011: Martin Gruebele
Two- and higher point correlation functions in proteins.
Journal of biomolecular structure & dynamics 2011;28(4):615-6; discussion 669-674.
2011: Stefano Piana; Krishnarjun Sarkar; Kresten Lindorff-Larsen; Minghao Guo; Martin Gruebele; David E Shaw
Computational design and experimental testing of the fastest-folding β-sheet protein.
Journal of molecular biology 2011;405(1):43-8.
2010: Ke Chen; John Eargle; Krishnarjun Sarkar; Martin Gruebele; Zaida Luthey-Schulten
Functional role of ribosomal signatures.
Biophysical journal 2010;99(12):3930-40.
2010: Martin Gruebele
Analytical biochemistry: Weighing up protein folding.
Nature 2010;468(7324):640-1.
2010: Praveen D Chowdary; Zhi Jiang; Eric J Chaney; Wladimir A Benalcazar; Daniel L Marks; Martin Gruebele; Allen Stephen Boppart
Molecular histopathology by spectrally reconstructed nonlinear interferometric vibrational imaging.
Cancer research 2010;70(23):9562-9.
2010: Krishnarjun Sarkar; Duc A Nguyen; Martin Gruebele
Loop and stem dynamics during RNA hairpin folding and unfolding.
RNA (New York, N.Y.) 2010;16(12):2427-34.
2010: Apratim Dhar; Simon Ebbinghaus; Zhen Shen; Tripta Mishra; Martin Gruebele
The diffusion coefficient for PGK folding in eukaryotic cells.
Biophysical journal 2010;99(9):L69-71.
2010: Joshua L Price; Dalit Shental-Bechor; Apratim Dhar; Maurice J Turner; Evan T Powers; Martin Gruebele; Yaakov Levy; Jeffery W Kelly
Context-dependent effects of asparagine glycosylation on Pin WW folding kinetics and thermodynamics.
Journal of the American Chemical Society 2010;132(43):15359-67.
2010: Apratim Dhar; Antonios Samiotakis; Simon Ebbinghaus; Lea Nienhaus; Dirar Homouz; Martin Gruebele; Margaret S Cheung
Structure, function, and folding of phosphoglycerate kinase are strongly perturbed by macromolecular crowding.
Proceedings of the National Academy of Sciences of the United States of America 2010;107(41):17586-91.
2010: Gregory Scott; Martin Gruebele
Solving the low dimensional Smoluchowski equation with a singular value basis set.
Journal of computational chemistry 2010;31(13):2428-33.
2010: Simon Ebbinghaus; Konrad Meister; Benjamin Born; Arthur L DeVries; Martin Gruebele; Martina Havenith
Antifreeze glycoprotein activity correlates with long-range protein-water dynamics.
Journal of the American Chemical Society 2010;132(35):12210-1.
2010: Martin Gruebele
Protein folding.
Methods (San Diego, Calif.) 2010;52(1):1-2.
2010: Edgar Larios; Martin Gruebele
Protein stability at negative pressure.
Methods (San Diego, Calif.) 2010;52(1):51-6.
2010: Praveen D Chowdary; Wladimir A Benalcazar; Zhi Jiang; Daniel M Marks; Allen Stephen Boppart; Martin Gruebele
High speed nonlinear interferometric vibrational analysis of lipids by spectral decomposition.
Analytical chemistry 2010;82(9):3812-8.
2010: Sharlene Denos; Eric Gotkowski; Martin Gruebele
A learning algorithm to discover soluble vesicle-binding helical peptides.
The journal of physical chemistry. B 2010;114(14):4909-14.
2010: Feng Liu; Caroline Maynard; Gregory Scott; Artem Melnykov; Kathleen B Hall; Martin Gruebele
A natural missing link between activated and downhill protein folding scenarios.
Physical chemistry chemical physics : PCCP 2010;12(14):3542-9.
2010: Feng Liu; Yi-Gui Gao; Martin Gruebele
A survey of lambda repressor fragments from two-state to downhill folding.
Journal of molecular biology 2010;397(3):789-98.
2010: Simon Ebbinghaus; Apratim Dhar; J Douglas McDonald; Martin Gruebele
Protein folding stability and dynamics imaged in a living cell.
Nature methods 2010;7(4):319-23.
2009: Praveen D Chowdary; Martin Gruebele
Molecules: what kind of a bag of atoms?
The journal of physical chemistry. A 2009;113(47):13139-43.
2009: Feng Liu; Marcelo Nakaema; Martin Gruebele
The transition state transit time of WW domain folding is controlled by energy landscape roughness.
The Journal of chemical physics 2009;131(19):195101.
2009: Martin Gruebele
How to mark off paths on the protein energy landscape.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(45):18879-80.
2009: Krishnarjun Sarkar; Konrad Meister; Anurag Sethi; Martin Gruebele
Fast folding of an RNA tetraloop on a rugged energy landscape detected by a stacking-sensitive probe.
Biophysical journal 2009;97(5):1418-27.
2009: Seung Joong Kim; Yoshitaka Matsumura; Charles Dumont; Hiroshi Kihara; Martin Gruebele
Slowing down downhill folding: a three-probe study.
Biophysical journal 2009;97(1):295-302.
2009: Amelia A Fuller; Deguo Du; Feng Liu; Jennifer E Davoren; Gira Bhabha; Gerard Kroon; David A Case; H Jane Dyson; Evan T Powers; Peter Wipf; Martin Gruebele; Jeffery W Kelly
Evaluating beta-turn mimics as beta-sheet folding nucleators.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(27):11067-72.
2009: Charles Dumont; Tryggvi Emilsson; Martin Gruebele
Reaching the protein folding speed limit with large, sub-microsecond pressure jumps.
Nature methods 2009;6(7):515-9.
2009: Praveen D Chowdary; Martin Gruebele
An effective Hamiltonian survey of the anharmonic vibrational state space of SCCl2 up to the dissociation energy.
The Journal of chemical physics 2009;130(13):134310.
2009: Martin Gruebele
Protein dynamics: from molecules, to interactions, to biology.
International journal of molecular sciences 2009;10(3):1360-8.
2009: Feng Liu; Charles Dumont; Yongjin Zhu; William F DeGrado; Feng Gai; Martin Gruebele
A one-dimensional free energy surface does not account for two-probe folding kinetics of protein alpha(3)D.
The Journal of chemical physics 2009;130(6):061101.
2009: Praveen D Chowdary; Martin Gruebele
Regular vibrational state progressions at the dissociation limit of SCCl2.
The Journal of chemical physics 2009;130(2):024305.
2009: Benjamin Born; Seung Joong Kim; Simon Ebbinghaus; Martin Gruebele; Martina Havenith
The terahertz dance of water with the proteins: the effect of protein flexibility on the dynamical hydration shell of ubiquitin.
Faraday discussions 2009;141():161-73; discussion 175-207.
2008: David M Leitner; Martin Gruebele; Martina Havenith
Solvation dynamics of biomolecules: modeling and terahertz experiments.
HFSP journal 2008;2(6):314-23.
2008: Seung Joong Kim; Charles Dumont; Martin Gruebele
Simulation-based fitting of protein-protein interaction potentials to SAXS experiments.
Biophysical journal 2008;94(12):4924-31.
2008: Peter L Freddolino; Feng Liu; Martin Gruebele; Klaus Schulten
Ten-microsecond molecular dynamics simulation of a fast-folding WW domain.
Biophysical journal 2008;94(10):L75-7.
2008: Simon Ebbinghaus; Seung Joong Kim; Matthias Heyden; Xin Yu; Martin Gruebele; David M Leitner; Martina Havenith
Protein sequence- and pH-dependent hydration probed by terahertz spectroscopy.
Journal of the American Chemical Society 2008;130(8):2374-5.
2008: Feng Liu; Deguo Du; Amelia A Fuller; Jennifer E Davoren; Peter Wipf; Jeffery W Kelly; Martin Gruebele
An experimental survey of the transition between two-state and downhill protein folding scenarios.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(7):2369-74.
2008: Martin Gruebele
Comment on Probe-dependent and nonexponential relaxation kinetics: unreliable signatures of downhill protein folding.
Proteins 2008;70(3):1099-102.
2008: Marcus Jager; Songpon Deechongkit; Edward K Koepf; Houbi Nguyen; Jianmin Gao; Evan T Powers; Martin Gruebele; Jeffery W Kelly
Understanding the mechanism of beta-sheet folding from a chemical and biological perspective.
Biopolymers 2008;90(6):751-8.
2008: Seung Joong Kim; Benjamin Born; Martina Havenith; Martin Gruebele
Real-time detection of protein-water dynamics upon protein folding by terahertz absorption spectroscopy.
Angewandte Chemie (International ed. in English) 2008;47(34):6486-9.
2007: Simon Ebbinghaus; Seung Joong Kim; Matthias Heyden; Xin Yu; Udo Heugen; Martin Gruebele; David M Leitner; Martina Havenith
An extended dynamical hydration shell around proteins.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(52):20749-52.
2007: Feng Liu; Martin Gruebele
Tuning lambda6-85 towards downhill folding at its melting temperature.
Journal of molecular biology 2007;370(3):574-84.
2007: Marcus Jäger; Houbi Nguyen; Maria A Dendle; Martin Gruebele; Jeffery W Kelly
Influence of hPin1 WW N-terminal domain boundaries on function, protein stability, and folding.
Protein science : a publication of the Protein Society 2007;16(7):1495-501.
2006: Charles Dumont; Yoshitaka Matsumura; Seung Joong Kim; Jinsong Li; Elena Kondrashkina; Hiroshi Kihara; Martin Gruebele
Solvent-tuning the collapse and helix formation time scales of lambda(6-85)*.
Protein science : a publication of the Protein Society 2006;15(11):2596-604.
2006: Marcus Jäger; Yan Zhang; Jan Bieschke; Houbi Nguyen; Maria A Dendle; Marianne E Bowman; Joseph P Noel; Martin Gruebele; Jeffery W Kelly
Structure-function-folding relationship in a WW domain.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(28):10648-53.
2006: Wei Yuan Yang; Martin Gruebele
Binary and ternary aggregation within tethered protein constructs.
Biophysical journal 2006;90(8):2930-7.
2006: Hairong Ma; David Proctor; Elzbieta Kierzek; Ryszard Kierzek; Philip C Bevilacqua; Martin Gruebele
Exploring the energy landscape of a small RNA hairpin.
Journal of the American Chemical Society 2006;128(5):1523-30.
2006: Songpon Deechongkit; Houbi Nguyen; Marcus Jager; Evan T Powers; Martin Gruebele; Jeffery W Kelly
Beta-sheet folding mechanisms from perturbation energetics.
Current opinion in structural biology 2006;16(1):94-101.
2006: Hairong Ma; Martin Gruebele
Low barrier kinetics: dependence on observables and free energy surface.
Journal of computational chemistry 2006;27(2):125-34.
2006: Edwin L Sibert; Martin Gruebele
Molecular vibrational energy flow and dilution factors in an anharmonic state space.
The Journal of chemical physics 2006;124(2):024317.
2006: Joshua B Ballard; Erin S Carmichael; Dongxia Shi; Joseph W Lyding; Martin Gruebele
Laser absorption scanning tunneling microscopy of carbon nanotubes.
Nano letters 2006;6(1):45-9.
2005: Houbi Nguyen; Marcus Jäger; Jeffery W Kelly; Martin Gruebele
Engineering a beta-sheet protein toward the folding speed limit.
The journal of physical chemistry. B 2005;109(32):15182-6.
2005: Martin Gruebele
Downhill protein folding: evolution meets physics.
Comptes rendus biologies 2005;328(8):701-12.
2005: Hairong Ma; Martin Gruebele
Kinetics are probe-dependent during downhill folding of an engineered lambda6-85 protein.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(7):2283-7.
2005: Wei Y Yang; Martin Gruebele
Kinetic equivalence of the heat and cold structural transitions of lambda6-85.
Philosophical transactions. Series A, Mathematical, physical, and engineering sciences 2005;363(1827):565-73.
2004: David Proctor; Hairong Ma; Elzbieta Kierzek; Ryszard Kierzek; Martin Gruebele; Philip C Bevilacqua
Folding thermodynamics and kinetics of YNMG RNA hairpins: specific incorporation of 8-bromoguanosine leads to stabilization by enhancement of the folding rate.
Biochemistry 2004;43(44):14004-14.
2004: Wei Yuan Yang; Martin Gruebele
Rate-temperature relationships in lambda-repressor fragment lambda 6-85 folding.
Biochemistry 2004;43(41):13018-25.
2004: Wei Yuan Yang; Martin Gruebele
Folding lambda-repressor at its speed limit.
Biophysical journal 2004;87(1):596-608.
2004: Songpon Deechongkit; Houbi Nguyen; Evan T Powers; Philip E Dawson; Martin Gruebele; Jeffery W Kelly
Context-dependent contributions of backbone hydrogen bonding to beta-sheet folding energetics.
Nature 2004;430(6995):101-5.
2004: Wei Yuan Yang; Martin Gruebele
Detection-dependent kinetics as a probe of folding landscape microstructure.
Journal of the American Chemical Society 2004;126(25):7758-9.
2004: Edgar Larios; J S Li; Klaus Schulten; H Kihara; Martin Gruebele
Multiple probes reveal a native-like intermediate during low-temperature refolding of ubiquitin.
Journal of molecular biology 2004;340(1):115-25.
2004: Wei Yuan Yang; Jed W Pitera; William C Swope; Martin Gruebele
Heterogeneous folding of the trpzip hairpin: full atom simulation and experiment.
Journal of molecular biology 2004;336(1):241-51.
2003: Wei Yuan Yang; Edgar Larios; Martin Gruebele
On the extended beta-conformation propensity of polypeptides at high temperature.
Journal of the American Chemical Society 2003;125(52):16220-7.
2003: Szabolcs Osváth; Jobiah J Sabelko; Martin Gruebele
Tuning the heterogeneous early folding dynamics of phosphoglycerate kinase.
Journal of molecular biology 2003;333(1):187-99.
2003: Szabolcs Osváth; Martin Gruebele
Proline can have opposite effects on fast and slow protein folding phases.
Biophysical journal 2003;85(2):1215-22.
2003: Wei Yuan Yang; Martin Gruebele
Folding at the speed limit.
Nature 2003;423(6936):193-7.
2003: Houbi Nguyen; Marcus Jager; Alessandro Moretto; Martin Gruebele; Jeffery W Kelly
Tuning the free-energy landscape of a WW domain by temperature, mutation, and truncation.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(7):3948-53.
2002: Anjali Pandit; Hairong Ma; Ivo H M van Stokkum; Martin Gruebele; Rienk van Grondelle
Time-resolved dissociation of the light-harvesting 1 complex of Rhodospirillum rubrum, studied by infrared laser temperature jump.
Biochemistry 2002;41(51):15115-20.
2002: Christopher D Snow; Houbi Nguyen; Vijay S Pande; Martin Gruebele
Absolute comparison of simulated and experimental protein-folding dynamics.
Nature 2002;420(6911):102-6.
2002: John Ervin; Edgar Larios; Szabolcs Osváth; Klaus Schulten; Martin Gruebele
What causes hyperfluorescence: folding intermediates or conformationally flexible native states?
Biophysical journal 2002;83(1):473-83.
2002: John Ervin; Martin Gruebele
Quantifying protein folding transition States with φ(t).
Journal of biological physics 2002;28(2):115-28.
2002: Martin Gruebele
Protein folding: the free energy surface.
Current opinion in structural biology 2002;12(2):161-8.
2002: Martin Gruebele
An intermediate seeks instant gratification.
Nature structural biology 2002;9(3):154-5.
2001: M Jäger; H Nguyen; J C Crane; Jeffery W Kelly; Martin Gruebele
The folding mechanism of a beta-sheet: the WW domain.
Journal of molecular biology 2001;311(2):373-93.
2000: J C Crane; E K Koepf; J W Kelly; Martin Gruebele
Mapping the transition state of the WW domain beta-sheet.
Journal of molecular biology 2000;298(2):283-92.
2000: John Ervin; Jobiah J Sabelko; Martin Gruebele
Submicrosecond real-time fluorescence sampling: application to protein folding.
Journal of photochemistry and photobiology. B, Biology 2000;54(1):1-15.
1999: Jobiah J Sabelko; John Ervin; Martin Gruebele
Observation of strange kinetics in protein folding.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(11):6031-6.
1999: Martin Gruebele
The fast protein folding problem.
Annual review of physical chemistry 1999;50():485-516.
1998: Charles L Brooks; Martin Gruebele; José N Onuchic; P G Wolynes
Chemical physics of protein folding.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(19):11037-8.
1998: Martin Gruebele; Peter G Wolynes
Satisfying turns in folding transitions.
Nature structural biology 1998;5(8):662-5.
1998: Martin Gruebele
Intramolecular vibrational dephasing obeys a power law at intermediate times.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(11):5965-70.
1998: R Bigwood; Martin Gruebele; David M Leitner; Peter G Wolynes
The vibrational energy flow transition in organic molecules: theory meets experiment.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(11):5960-4.