CPLC Publications
Four-scale description of membrane sculpting by BAR domains , Arkhipov, Anton, Yin, Ying, Schulten, Klaus, Biophysical Journal, 95 (6): 2806-2821 Sep 15 2008
Intrinsic curvature properties of photosynthetic proteins in chromatophores , Chandler, Danielle E., Hsin, Jen, Harrison, Christopher B., Gumbart, James, Schulten, Klaus, Biophysicsl Journal, 95 (6): 2822-2836 Sep 15 2008
A structural mechanism for MscS gating in lipid bilayers , Vasquez, Valeria, Sotomayor, Marcos, Cordero-Morales, Julio, Schulten, Klaus, Perozo, Eduardo, Science, 321 (5893): 1210-1214 Aug 29 2008
Engineering of functional replication protein A homologs based on insights into the evolution of oligonucleotide/oligosaccharide-binding folds , Lin, Yuyen, Lin, Li-Jung, Sriratana, Palita, Coleman, Kelli, Ha, Taekjip, Spies, Maria, Cann, Isaac K. O., Journal of Bacteriology, 190 (17): 5766-5780 Sep 2008
Orientation dependence in fluorescent energy transfer between Cy3 and Cy5 terminally attached to double-stranded nuclelic acids , Iqbal, Asif, Arslan, Sinan, Okumus, Burak, Wilson, Timothy J., Giraud, Gerard, Norman, David G., Ha, Taekjip, Lilley, David M. J., Proceedings of the National Academy of Sciences of the United States of America, 105 (32): 11176-11181 Aug 12 2008
Resonance localized surface plasmon spectroscopy: Sensing substrate and inhibitor binding to cytochrome P450 , Zhao, Jing, Das, Aditi, Schatz, George C., Sligar, Stephen G., Van Duyne, Richard P., Journal of Physics Chemistry C, 112 (34): 13084-13088 Aug 28 2008
Real-time detection of protein-water dynamics upon protein folding by terahertz absorption spectroscopy , Kim, Seting Joong, Born, Benjamin, Havenith, Martina, Gruebele, Martin, Angewandte Chemie-International Edition, 47 (34): 6486-6489 2008
Blood clotting reactions on nanoscale phospholipid bilayers , Morrissey, James H., Pureza, Vincent, Davis-Harrison, Rebecca L., Sligar, Stephen G., Ohkubo, Y. Zenmei, Tajkhorshid, Emad, Thrombosis Research, 122: S23-S26 Suppl. 1 2008
Nanodiscs for immobilization of lipid bilayers and membrane receptors: Kinetic analysis of cholera toxin binding to a glycolipid receptor , Borch, Jonas, Torta, Federico, Sligar, Stephen G., Roepstorff, Peter, Analytical Chemistry, 80 (16): 6245-6252 Aug 15 2008
Molecular mechanism of ligand recognition by NR3 subtype glutamate receptors , Yao, Yongneng, Harrison, Chris B., Freddolino, Peter L., Schulten, Klaus, Mayer, Mark L., EMBO Journal, 27 (15): 2158-2170 Aug 6 2008
The role of microtubule movement in bidirectional organelle transport , Kulic, Igor M., Brown, Andre E. X., Kim, Hwajin, Kural, Comert, Blehm, Benjamin, Selvin, Paul R., Nelson, Philip C., Gelfand, Vladimir I., Proceedings of the National Academy of Sciences of the United States of America, 105 (29): 10011-10016 Jul 22 2008
Downhill dynamics and the molecular rate of protein folding , Liu, Feng, Gruebele, Martin, Chemical Physics Letters, 461 (1-3): 1-8 Aug 8 2008
Extent of voltage sensor movement during gating of Shaker K+ channels , Posson, David J., Selvin, Paul R., Neuron, 59 (1): 98-109 Jul 10 2008
The SNARE complex from yeast is partially unstructured on the membrane , Su, Zengliu, Ishitsuka, Yuji, Ha, Taekjip, Shin, Yeon-Kyun, Structure, 16 (7): 1138-1146 Jul 2008
Simulations of quantum computation with a molecular ion , Weidinger, Daniel, Gruebele, Martin, Chemical Physics, 350 (1-3): 139-144 Jun 23 2008
Complexin and Ca2+ stimulate SNARE-mediated membrane fusion , Yoon, Tae-Young, Lu, Xiaobing, Diao, Jiajie, Lee, Soo-Min, Ha, Taekjip, Shin, Yeon-Kyun, Nature Structural & Molecular Biology, 15 (7): 707-713 Jul 2008
Small-signal performance and modeling of sub-50 nm nMOSFETs with f(T) above 460-GHz, Dirnitrov, V., Heng, J. B., Timp, K., Dimauro, O., Chan, R., Hafez, M., Feng, J., Sorsch, T., Mansfield, W., Miner, J., Kornblit, A., Klemens, F., Bower, J., Cirelli, R., Ferry, E. J., Taylor, A., Feng, M., Timp, G., Solid-State Electronics, 52 (6): 899-908 Jun 2008
X-ray absorption spectroscopic characterization of a cytochrome P450 compound II derivative, Newcomb, Martin, Halgrimson, James A., Horner, John H., Wasinger, Erik C., Chen, Lin X., Sligar, Stephen G., Proceedings of the National Academy of Sciences of the United States of America, 105 (24): 8179-8184 Jun 17 2008
Branch migration enzyme as a Brownian ratchet, Rasnik, Ivan, Jeong, Yong-Joo, McKinney, Sean A., Rajagopal, Vaishnavi, Patel, Smita S., Ha, Taekjip, EMBO Journal, 27 (12): 1727-1735 Jun 18 2008
Crystal structures of substrate-free and retinoic acid-bound cyanobacterial cytochrome P450CYP120A, Kuehnel, Karin, Ke, Na, Cryle, Max J., Sligar, Stephen G., Schuler, Mary A., Schlichting, Ilme, Biochemistry, 47 (25): 6552-6559 Jun 24 2008
The ferrous-oxy complex of human aromatase, Grinkova, Yelena V., Denisov, Ilia G., Waterman, Michael R., Arase, Miharu, Kagawa, Norio, Sligar, Stephen G., Biochemical and Biophysical Research Communications, 372 (2): 379-382 Jul 25 2008
Transcription initiation in a single-subunit RNA polymerase proceeds through DNA scrunching and rotation of the N-terminal subdornains, Tang, Guo-Qing, Roy, Rahul, Ha, Taekjip, Patel, Smita S., Molecular Cell, 30 (5): 567-577 Jun 6 2008
Spontaneous intersubunit rotation in single ribosomes, Cornish, Peter V., Ermolenko, Drnitri N., Noller, Harry F., Ha, Taekjip, Molecular Cell, 30 (5): 578-588 Jun 6 2008
The role of dipolar interactions for the determination of intrinsic switching field distributions, Liu, Yang, Dahmen, Karin A., Berger, A., Applied Physics Letters, 92 (22): Art. No. 222503 Jun 2 2008
Molecular models need to be tested: The case of a solar flares discoidal HDL model, Shih, Amy Y., Sligar, Stephen G., Schulten, Klaus, Biophysical Journal, 94 (12): L87-L89 Jun 15 2008
The allosteric role of the Ca2+ switch in adhesion and elasticity of C-cadherin, Sotornayor, Marcos, Schulten, Klaus, Biophysical Journal, 94 (12): 4621-4633 Jun 15 2008
Simulation-based fitting of protein-protein interaction potentials to SAXS experiments, Kim, Seung Joong, Dumont, Charles, Gruebele, Martin, Biophysical Journal, 94 (12): 4924-4931 Jun 15 2008
On the physical basis of the amino acid polar requirement, Mathew, Damien C., Luthey-Schulten, Zaida, Journal of Molecular Evolution, 66 (5): 519-528 May 2008
Quantum model of restricted vibrational energy flow on the way to the transition state in unimolecular reactions, Leitner, David M., Gruebele, Martin, Molecular Physics, 106 (2-4): 433-442 2008
New 9-or 10-dentate luminescent lanthanide chelates, Ge, Pinghua, Selvin, Paul R., Bioconjugate Chemistry, 19 (5): 1105-1111 May 2008
Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics, Trabuco, Leonardo G., Villa, Elizabeth, Mitra, Kakoli, Frank, Joachim, Schulten, Klaus, Structure, 16 (5): 673-683 May 2008
Exact solutions for kinetic models of macromolecular dynamics, Chemla, Yann R., Moffitt, Jeffrey R., Bustamante, Carlos, Journal of Physical Chemistry B, 112 (19): 6025-6044 May 15 2008
Length-dependent optical effects in single walled carbon nanotubes, Rajan, Aruna, Strano, Michael S., Heller, Daniel A., Hertel, Tobias, Schulten, Klaus, Journal of Physical Chemistry B, 112 (19): 6211-6213 May 15 2008
The mitotic kinesin CENP-E is a processive transport motor, Yardimci, Hasan, Van Duffelen, Marilyn, Mao, Yinghui, Rosenfeld, Steven S., Selvin, Paul R., Proceedings of the National Academy of Sciences of the United States of America, 105 (16): 6016-6021 Apr 22 2008
Three-dimensional architecture of membrane-embedded MscS in the closed conformation, Vasquez, Valeria, Sotomayor, Marcos, Cortes, D. Marien, Roux, Benoit, Schulten, Klaus, Perozo, Eduardo, Journal of Molecular Biology, 378 (1): 55-70 Apr 18 2008
Ten-microsecond molecular dynamics simulation of a fast-folding WW domain, Freddolino, Peter L., Liu, Feng, Gruebele, Martin, Schulten, Klaus, Biophysical Journal, 94 (10): L75-L77 May 15 2008
Low-frequency dynamics of Caldariomyces fumago chloroperoxidase probed by femtosecond coherence Spectroscopy, Gruia, Flavin, Ionascu, Dan, Kubo, Minoru, Ye, Xiong, Dawson, John, Osborne, Robert L., Sligar, S. G., Denisov, Ilia, Das, Aditi, Poulos, T. L., Terner, James, Champion, Paul M., Biochemistry, 47 (18): 5156-5167 May 6 2008
Watching rocks grow, Veysey, John, II, Goldenfeld, Nigel, Nature Physics, 4 (4): 310-313 Apr 2008
A comparative study of the Delta H(M,Delta M) method reliability for square and triangular lattices, Liu, Yang, Dahmen, Karin A., Berger, A., Journal of Applied Physics, 103 (7): Art. No. 07F504 Apr 1 2008
Dynamics of recognition between tRNA and elongation factor Tu, Eargle, John, Black, Alexis A., Sethi, Anurag, Trabuco, Leonardo G., Luthey-Schulten, Zaida, Journal of Molecular Biology, 377 (5): 1382-1405 Apr 11 2008
Stretching and unzipping nucleic acid hairpins using a synthetic nanopore, Zhao, Q., Comer, J., Dimitrov, V., Yemenicioglu, S., Aksimentiev, A., Timp, G., Nucleic Acids Research, 36 (5): 1532-1541 Mar 2008
Molecular basis of fibrin clot elasticity, Lim, Bernard B. C., Lee, Eric H., Sotomayor, Marcos, Schulten, Klaus, Structure, 16 (3): 449-459 Mat 2008
In meso crystal structure and docking simulations suggest an alternative proteoglycan binding site in the OpcA outer membrane adhesion, Cherezov, Vadim, Liu, Wei, Derrick, Jeremy P., Luan, Binquan, Aksimentiev, Aleksei, Katritch, Vsevolod, Caffrey, Martin, Proteins-Structure Function and Bioinformatics, 71 (1): 24-34 Apr 2008
Determination of intrinsic switching field distributions in perpendicular recording media: Numerical study of the Delta H(M,Delta M) method, Liu, Yang, Dahmen, Karin A., Berger, A., Physical Review B, 77 (5): Art. No. 054422 Feb 2008
An experimental survey of the transition between two-state and downhill protein folding scenarios, Liu, Feng, Du, Deguo, Fuller, Amelia A., Davoren, Jennifer E., Wipf, Peter, Kelly, Jeffery W., Gruebele, Martin, Proceedings of the National Academy of Sciences of the United States of America, 105 (7): 2369-2374 Feb 19 2008
Protein sequence- and pH-dependent hydration probed by terahertz spectroscopy, Ebbinghaus, Simon, Kim, Seung Joong, Heyden, Matthias, Yu, Xin, Gruebele, Martin, Leitner, David M., Havenith, Martina, Journal of the American Chemical Society, 130 (8): 2374-2375 Feb 27 2008
Cascade of complexity in evolving predator-prey dynamics, Guttenberg, Nicholas, Goldenfeld, Nigel, Physical Review Letters, 100 (5): Art. No. 058102 Feb 8 2008
Hopping conduction and bacteria: Transport in disordered reaction-diffusion systems, Dahmen, Karin A., Physical Review Letters, 100 (5): Art. No. 058301 Feb 8 2008
A fluorescence resonance energy transfer activation sensor for Arf6, Hall, Brian, McLean, Mark A., Davis, Kathryn, Casanova, James E., Sligar, Steven G., Schwartz, Martin A., Analytical Biochemistry, 374 (2): 243-249 Mar 15 2008
Reconstruction of water temperature, pH, and flux of ancient hot springs from travertine depositional facies, Veysey, John, II, Fouke, Bruce W. Kandianis, Michael T., Schickel, Thomas J., Johnson, Roy W., Goldenfeld, Nigel, Journal of Sedimentary Research, 78 (1-2): 69-76 Jan-Feb 2008
Diffusion of glycerol through Escherichia coli aquaglyceroporin GlpF, Henin, Jerome, Tajkhorshid, Emad, Schulten, Klaus, Chipot, Christophe, Biophysical Journal, 94 (3): 832-839 Feb 1 2008
Detection of DNA sequences using an alternating electric field in a nanopore capacitor, Sigalov, Grigori, Comer, Jeffrey, Timp, Gregory, Aksmentiev, Aleksei, Nano Letters, 8 (1): 56-63 Jan 2008