Research Output

2009

The WAVE regulatory complex is inhibited

Ismail, A. M., Padrick, S. B., Chen, B., Umetani, J. & Rosen, M. K., May 1 2009, In : Nature Structural and Molecular Biology. 16, 5, p. 561-563 3 p.

Research output: Contribution to journalArticle

98 Scopus citations

Why kinesin is so processive

Toprak, E., Yildiz, A., Hoffman, M. T., Rosenfeld, S. S. & Selvin, P. R., Aug 4 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 31, p. 12717-12722 6 p.

Research output: Contribution to journalArticle

59 Scopus citations
2008

Computational Redesign of the SHV-1 β-Lactamase/β-Lactamase Inhibitor Protein Interface

Reynolds, K. A., Hanes, M. S., Thomson, J. M., Antczak, A. J., Berger, J. M., Bonomo, R. A., Kirsch, J. F. & Handel, T. M., Oct 24 2008, In : Journal of Molecular Biology. 382, 5, p. 1265-1275 11 p.

Research output: Contribution to journalArticle

37 Scopus citations

Conformational switch of syntaxin-1 controls synaptic vesicle fusion

Gerber, S. H., Rah, J. C., Min, S. W., Liu, X., De Wit, H., Dulubova, I., Meyer, A. C., Rizo-Rey, J., Arancillo, M., Hammer, R. E., Verhage, M., Rosenmund, C. & Südhof, T. C., Sep 12 2008, In : Science. 321, 5895, p. 1507-1510 4 p.

Research output: Contribution to journalArticle

189 Scopus citations

Continuum polarizable force field within the Poisson-Boltzmann framework

Tan, Y. H., Tan, C., Wang, J. & Luo, R., Jun 26 2008, In : Journal of Physical Chemistry B. 112, 25, p. 7675-7688 14 p.

Research output: Contribution to journalArticle

19 Scopus citations

Coordinate regulation of G protein signaling via dynamic interactions of receptor and GAP

Turcotte, M., Tang, W. & Ross, E. M., Aug 1 2008, In : PLoS Computational Biology. 4, 8, e1000148.

Research output: Contribution to journalArticle

34 Scopus citations

Coordinating Speed and Amplitude in G-Protein Signaling

Ross, E. M., Sep 9 2008, In : Current Biology. 18, 17, p. R777-R783

Research output: Contribution to journalReview article

62 Scopus citations

Coordinating Speed and Amplitude in G-Protein Signaling (DOI:10.1016/j.cub.2008.07.035)

Ross, E. M., Dec 9 2008, In : Current Biology. 18, 23, 1 p.

Research output: Contribution to journalComment/debate

Cytoskeletal waves in the absence of molecular motors

Doubrovinski, K. & Kruse, K., Jul 1 2008, In : EPL. 83, 1, 18003.

Research output: Contribution to journalArticle

39 Scopus citations

Deranged calcium signaling and neurodegeneration in spinocerebellar ataxia type 3

Chen, X., Tang, T. S., Tu, H., Nelson, O., Pook, M., Hammer, R. E., Nukina, N. & Bezprozvanny, I., Nov 26 2008, In : Journal of Neuroscience. 28, 48, p. 12713-12724 12 p.

Research output: Contribution to journalArticle

145 Scopus citations

Effects of the gut microbiota on host adiposity are modulated by the short-chain fatty-acid binding G protein-coupled receptor, Gpr41

Samuel, B. S., Shaito, A., Motoike, T., Rey, F. E., Backhed, F., Manchester, J. K., Hammer, R. E., Williams, S. C., Crowley, J., Yanagisawa, M. & Gordon, J. I., Oct 28 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 43, p. 16767-16772 6 p.

Research output: Contribution to journalArticle

819 Scopus citations

Estimation of the available free energy in a LOV2-Jα photoswitch

Yao, X., Rosen, M. K. & Gardner, K. H., Aug 2008, In : Nature chemical biology. 4, 8, p. 491-497 7 p.

Research output: Contribution to journalArticle

86 Scopus citations

Genetically encoded photoswitching of actin assembly through the Cdc42-WASP-Arp2/3 complex pathway

Leung, D. W., Otomo, C., Chory, J. & Rosen, M. K., Sep 2 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 35, p. 12797-12802 6 p.

Research output: Contribution to journalArticle

78 Scopus citations

Hierarchical Regulation of WASP/WAVE Proteins

Padrick, S. B., Cheng, H. C., Ismail, A. M., Panchal, S. C., Doolittle, L. K., Kim, S., Skehan, B. M., Umetani, J., Brautigam, C. A., Leong, J. M. & Rosen, M. K., Nov 7 2008, In : Molecular cell. 32, 3, p. 426-438 13 p.

Research output: Contribution to journalArticle

138 Scopus citations

Internal dynamics control activation and activity of the autoinhibited Vav DH domain

Li, P., Martins, I. R. S., Amarasinghe, G. K. & Rosen, M. K., Jun 1 2008, In : Nature Structural and Molecular Biology. 15, 6, p. 613-618 6 p.

Research output: Contribution to journalArticle

78 Scopus citations

Liver receptor homolog-1 regulates bile acid homeostasis but is not essential for feedback regulation of bile acid synthesis

Lee, Y. K., Schmidt, D. R., Cummins, C. L., Choi, M., Li, P., Zhang, Y., Goodwin, B., Hammer, R. E., Mangelsdorf, D. J. & Kliewer, S. A., Jun 1 2008, In : Molecular Endocrinology. 22, 6, p. 1345-1356 12 p.

Research output: Contribution to journalArticle

98 Scopus citations

Molecular basis for LDL receptor recognition by PCSK9

Hyock, J. K., Lagace, T. A., McNutt, M. C., Horton, J. D. & Deisenhofer, J., Feb 12 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 6, p. 1820-1825 6 p.

Research output: Contribution to journalArticle

253 Scopus citations

PP2A-dependent disruption of centrosome replication and cytoskeleton organization in Drosophila by SV40 small tumor antigen

Kotadia, S., Kao, L. R., Comerford, S. A., Jones, R. T., Hammer, R. E. & Megraw, T. L., Oct 23 2008, In : Oncogene. 27, 49, p. 6334-6346 13 p.

Research output: Contribution to journalArticle

18 Scopus citations

Repetitive N-WASP-binding elements of the enterohemorrhagic Escherichia coli effector EspFU synergistically activate actin assembly

Campellone, K. G., Cheng, H. C., Robbins, D., Siripala, A. D., McGhie, E. J., Hayward, R. D., Welch, M. D., Rosen, M. K., Koronakis, V. & Leong, J. M., Oct 1 2008, In : PLoS pathogens. 4, 10, e1000191.

Research output: Contribution to journalArticle

34 Scopus citations

Sohlh2 knockout mice are male-sterile because of degeneration of differentiating type a spermatogonia

Hao, J., Yamamoto, M., Richardson, T. E., Chapman, K. M., Denard, B. S., Hammer, R. E., Guang, Q. Z. & Hamra, F. K., Jun 1 2008, In : STEM CELLS. 26, 6, p. 1587-1597 11 p.

Research output: Contribution to journalArticle

66 Scopus citations

Structural mechanism of WASP activation by the enterohaemorrhagic E. coli effector EspFU

Cheng, H. C., Skehan, B. M., Campellone, K. G., Leong, J. M. & Rosen, M. K., Aug 21 2008, In : Nature. 454, 7207, p. 1009-1013 5 p.

Research output: Contribution to journalArticle

74 Scopus citations

Structure-ADME relationship: Still a long way to go?

Hou, T. & Wang, J., Jun 1 2008, In : Expert Opinion on Drug Metabolism and Toxicology. 4, 6, p. 759-770 12 p.

Research output: Contribution to journalReview article

97 Scopus citations

Surface sites for engineering allosteric control in proteins

Lee, J., Natarajan, M., Nashine, V. C., Socolich, M., Vo, T., Russ, W. P., Benkovic, S. J. & Ranganathan, R., Oct 17 2008, In : Science. 322, 5900, p. 438-442 5 p.

Research output: Contribution to journalArticle

228 Scopus citations

Systems analysis of the single photon response in invertebrate photoreceptors

Pumir, A., Graves, J., Ranganathan, R. & Shraiman, B. I., Jul 29 2008, In : Proceedings of the National Academy of Sciences of the United States of America. 105, 30, p. 10354-10359 6 p.

Research output: Contribution to journalArticle

24 Scopus citations

Unfolding and melting of DNA (RNA) hairpins: The concept of structure-specific 2D dynamic landscapes

Lin, M. M., Meinhold, L., Shorokhov, D. & Zewail, A. H., Jul 25 2008, In : Physical Chemistry Chemical Physics. 10, 29, p. 4227-4239 13 p.

Research output: Contribution to journalArticle

27 Scopus citations

White fat progenitor cells reside in the adipose vasculature

Tang, W., Zeve, D., Suh, J. M., Bosnakovski, D., Kyba, M., Hammer, R. E., Tallquist, M. D. & Graff, J. M., Oct 24 2008, In : Science. 322, 5901, p. 583-586 4 p.

Research output: Contribution to journalArticle

719 Scopus citations
2007

ADME evaluation in drug discovery. 6. Can oral biavailability in humans be effectively predicted by simple molecular property-based rules?

Hou, T., Wang, J., Zhang, W. & Xu, X., Mar 1 2007, In : Journal of Chemical Information and Modeling. 47, 2, p. 460-463 4 p.

Research output: Contribution to journalReview article

122 Scopus citations

ADME evaluation in drug discovery. 7. prediction of oral absorption by correlation and classification

Hou, T., Wang, J., Zhang, W. & Xu, X., Jan 1 2007, In : Journal of Chemical Information and Modeling. 47, 1, p. 208-218 11 p.

Research output: Contribution to journalArticle

138 Scopus citations

ADME evaluation in drug discovery. 8. The prediction of human intestinal absorption by a support vector machine

Hou, T., Wang, J. & Li, Y., Nov 1 2007, In : Journal of Chemical Information and Modeling. 47, 6, p. 2408-2415 8 p.

Research output: Contribution to journalArticle

93 Scopus citations

A neuroligin-3 mutation implicated in autism increases inhibitory synaptic transmission in mice

Tabuchi, K., Blundell, J., Etherton, M. R., Hammer, R. E., Liu, X., Powell, C. M. & Südhof, T. C., Oct 5 2007, In : Science. 318, 5847, p. 71-76 6 p.

Research output: Contribution to journalArticle

617 Scopus citations

An object-oriented library for computational protein design

Chowdry, A. B., Reynolds, K. A., Hanes, M. S., Voorhies, M., Pokala, N. & Handel, T. M., Nov 15 2007, In : Journal of Computational Chemistry. 28, 14, p. 2378-2388 11 p.

Research output: Contribution to journalArticle

30 Scopus citations

Arp2/3-independent assembly of actin by Vibrio type III effector VopL

Liverman, A. D. B., Cheng, H. C., Trosky, J. E., Leung, D. W., Yarbrough, M. L., Burdette, D. L., Rosen, M. K. & Orth, K., Oct 23 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 43, p. 17117-17122 6 p.

Research output: Contribution to journalArticle

114 Scopus citations

A single nucleotide polymorphism in the MDM2 gene disrupts the oscillation of p53 and MDM2 levels in cells

Hu, W., Feng, Z., Ma, L., Wagner, J., Rice, J. J., Stolovitzky, G. & Levine, A. J., Mar 15 2007, In : Cancer Research. 67, 6, p. 2757-2765 9 p.

Research output: Contribution to journalArticle

84 Scopus citations

Biochemistry: Signaling across the cell membrane

Ranganathan, R., Nov 23 2007, In : Science. 318, 5854, p. 1253-1254 2 p.

Research output: Contribution to journalShort survey

13 Scopus citations

Development of reliable aqueous solubility models and their application in druglike analysis

Wang, J., Krudy, G., Hou, T., Zhang, W., Holland, G. & Xu, X., Jul 1 2007, In : Journal of Chemical Information and Modeling. 47, 4, p. 1395-1404 10 p.

Research output: Contribution to journalArticle

74 Scopus citations

Dynamic Scaffolding in a G Protein-Coupled Signaling System

Mishra, P., Socolich, M., Wall, M. A., Graves, J., Wang, Z. & Ranganathan, R., Oct 5 2007, In : Cell. 131, 1, p. 80-92 13 p.

Research output: Contribution to journalArticle

73 Scopus citations

Elevated basal slippage mutation rates among the Canidae

Laidlaw, J., Gelfand, Y., Ng, K. W., Garner, H. R., Ranganathan, R., Benson, G. & Fondon, J. W., Sep 10 2007, In : Journal of Heredity. 98, 5, p. 452-460 9 p.

Research output: Contribution to journalArticle

21 Scopus citations

Empirical fitness landscapes reveal accessible evolutionary paths

Poelwijk, F. J., Kiviet, D. J., Weinreich, D. M. & Tans, S. J., Jan 25 2007, In : Nature. 445, 7126, p. 383-386 4 p.

Research output: Contribution to journalArticle

306 Scopus citations

Endocrine Regulation of the Fasting Response by PPARα-Mediated Induction of Fibroblast Growth Factor 21

Inagaki, T., Dutchak, P., Zhao, G., Ding, X., Gautron, L., Parameswara, V., Li, Y., Goetz, R., Mohammadi, M., Esser, V., Elmquist, J. K., Gerard, R. D., Burgess, S. C., Hammer, R. E., Mangelsdorf, D. J. & Kliewer, S. A., Jun 6 2007, In : Cell Metabolism. 5, 6, p. 415-425 11 p.

Research output: Contribution to journalArticle

931 Scopus citations

Fast approaches for molecular polarizability calculations

Wang, J., Xie, X. Q., Hou, T. & Xu, X., May 24 2007, In : Journal of Physical Chemistry A. 111, 20, p. 4443-4448 6 p.

Research output: Contribution to journalArticle

58 Scopus citations

Gas-Phase Stability of G-quadruplex DNA Determined by Electrospray Ionization Tandem Mass Spectrometry and Molecular Dynamics Simulations

Mazzitelli, C. L., Wang, J., Smith, S. I. & Brodbelt, J. S., Oct 1 2007, In : Journal of the American Society for Mass Spectrometry. 18, 10, p. 1760-1773 14 p.

Research output: Contribution to journalArticle

28 Scopus citations

GPCR structure-based virtual screening approach for CB2 antagonist search

Chen, J. Z., Wang, J. & Xie, X. Q., Jul 1 2007, In : Journal of Chemical Information and Modeling. 47, 4, p. 1626-1637 12 p.

Research output: Contribution to journalArticle

87 Scopus citations

New fluorescent tools for watching nanometer-scale conformational changes of single molecules

Toprak, E. & Selvin, P. R., Jul 4 2007, In : Annual Review of Biophysics and Biomolecular Structure. 36, p. 349-369 21 p.

Research output: Contribution to journalReview article

59 Scopus citations

Self-organization of treadmilling filaments

Doubrovinski, K. & Kruse, K., Nov 29 2007, In : Physical Review Letters. 99, 22, 228104.

Research output: Contribution to journalArticle

24 Scopus citations

Signal transduction pathway of TonB-dependent transporters

Ferguson, A. D., Amezcua, C. A., Halabi, N. M., Chelliah, Y., Rosen, M. K., Ranganathan, R. & Deisenhofer, J., Jan 9 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 2, p. 513-518 6 p.

Research output: Contribution to journalArticle

71 Scopus citations

Single-molecule fluorescence to study molecularmotors

Park, H., Toprak, E. & Selvin, P. R., Feb 1 2007, In : Quarterly Reviews of Biophysics. 40, 1, p. 87-111 25 p.

Research output: Contribution to journalReview article

59 Scopus citations

Sox15 and Fhl3 transcriptionally coactivate Foxk1 and regulate myogenic progenitor cells

Meeson, A. P., Shi, X., Alexander, M. S., Williams, R. S., Allen, R. E., Jiang, N., Adham, I. M., Goetsch, S. C., Hammer, R. E. & Garry, D. J., Apr 4 2007, In : EMBO Journal. 26, 7, p. 1902-1912 11 p.

Research output: Contribution to journalArticle

53 Scopus citations

Structural basis for conserved complement factor-like function in the antimalarial protein TEP1

Baxter, R. H. G., Chang, C. I., Chelliah, Y., Blandin, S., Levashina, E. A. & Deisenhofer, J., Jul 10 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 28, p. 11615-11620 6 p.

Research output: Contribution to journalArticle

62 Scopus citations

The peptidoglycan recognition proteins LCa and LCx

Chang, C. I. & Deisenhofer, J., Jun 1 2007, In : Cellular and Molecular Life Sciences. 64, 11, p. 1395-1402 8 p.

Research output: Contribution to journalReview article

4 Scopus citations

Three-dimensional particle tracking via bifocal imaging

Toprak, E., Balci, H., Blehm, B. H. & Selvin, P. R., Jul 1 2007, In : Nano Letters. 7, 7, p. 2043-2045 3 p.

Research output: Contribution to journalArticle

164 Scopus citations