Related Content
Search Google Scholar for:
More Information
Related Jobs from ScienceCareers
|
|
Science 20 June 2003: Vol. 300. no. 5627, pp. 1944 - 1947 DOI: 10.1126/science.1078797
|
|
Reports
Watching a Protein as it Functions with 150-ps Time-Resolved X-ray Crystallography
Friedrich Schotte,1
Manho Lim,2
Timothy A. Jackson,3
Aleksandr V. Smirnov,1
Jayashree Soman,4
John S. Olson,4
George N. Phillips , Jr.,5
Michael Wulff,6
Philip A. Anfinrud1
We report picosecond time-resolved x-ray diffraction from the myoglobin (Mb) mutant in which Leu29 is replaced by Phe (L29Fmutant). The frame-by-frame structural evolution, resolved to 1.8 angstroms, allows one to literally "watch" the protein as it executes its function. Time-resolved mid-infrared spectroscopy of flash-photolyzed L29F MbCO revealed a short-lived CO intermediate whose 140-ps lifetime is shorter than that found in wild-type protein by a factor of 1000. The electron density maps of the protein unveil transient conformational changes far more dramatic than the structural differences between the carboxy and deoxy states and depict the correlated side-chain motion responsible for rapidly sweeping CO away from its primary docking site.
1 Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA.
2 Department of Chemistry, Pusan National University, Pusan, 609-735, Korea.
3 Harvard Medical School, Boston, MA 02115, USA.
4 Department of Biochemistry and Cell Biology, Rice University, Houston, TX 772511892, USA.
5 Biochemistry Department, University of Wisconsin, Madison, WI 53706, USA.
6 European Synchrotron Radiation Facility, BP 220, 38043 Grenoble Cedex, France.
Read the Full Text
THIS ARTICLE HAS BEEN CITED BY OTHER ARTICLES:
- Atomic level computational identification of ligand migration pathways between solvent and binding site in myoglobin.
- J. Z. Ruscio, D. Kumar, M. Shukla, M. G. Prisant, T. M. Murali, and A. V. Onufriev (2008)
PNAS
105, 9204-9209
| Abstract »
| Full Text »
| PDF »
- The Kinetics of Ligand Migration in Crystallized Myoglobin as Revealed by Molecular Dynamics Simulations.
- M. Anselmi, A. Di Nola, and A. Amadei (2008)
Biophys. J.
94, 4277-4281
| Abstract »
| Full Text »
| PDF »
- The Role of Higher CO-Multipole Moments in Understanding the Dynamics of Photodissociated Carbonmonoxide in Myoglobin.
- N. Plattner and M. Meuwly (2008)
Biophys. J.
94, 2505-2515
| Abstract »
| Full Text »
| PDF »
- Reassessing a sparse energetic network within a single protein domain.
- C. N. Chi, L. Elfstrom, Y. Shi, T. Snall, A. Engstrom, and P. Jemth (2008)
PNAS
105, 4679-4684
| Abstract »
| Full Text »
| PDF »
- O2 Migration Pathways Are Not Conserved across Proteins of a Similar Fold.
- J. Cohen and K. Schulten (2007)
Biophys. J.
93, 3591-3600
| Abstract »
| Full Text »
| PDF »
- Direct observation of ligand transfer and bond formation in cytochrome c oxidase by using mid-infrared chirped-pulse upconversion.
- J. Treuffet, K. J. Kubarych, J.-C. Lambry, E. Pilet, J.-B. Masson, J.-L. Martin, M. H. Vos, M. Joffre, and A. Alexandrou (2007)
PNAS
104, 15705-15710
| Abstract »
| Full Text »
| PDF »
- Multidimensional Ultrafast Spectroscopy Special Feature: Protein ligand migration mapped by nonequilibrium 2D-IR exchange spectroscopy.
- J. Bredenbeck, J. Helbing, K. Nienhaus, G. U. Nienhaus, and P. Hamm (2007)
PNAS
104, 14243-14248
| Abstract »
| Full Text »
| PDF »
- Molecular Dynamics Simulation of Deoxy and Carboxy Murine Neuroglobin in Water.
- M. Anselmi, M. Brunori, B. Vallone, and A. Di Nola (2007)
Biophys. J.
93, 434-441
| Abstract »
| Full Text »
| PDF »
- Exploring Molecular Oxygen Pathways in Hansenula polymorpha Copper-containing Amine Oxidase.
- B. J. Johnson, J. Cohen, R. W. Welford, A. R. Pearson, K. Schulten, J. P. Klinman, and C. M. Wilmot (2007)
J. Biol. Chem.
282, 17767-17776
| Abstract »
| Full Text »
| PDF »
- Imaging Atomic Structure and Dynamics with Ultrafast X-ray Scattering.
- K. J. Gaffney and H. N. Chapman (2007)
Science
316, 1444-1448
| Abstract »
| Full Text »
| PDF »
- Theoretical Characterization of Carbon Monoxide Vibrational Spectrum in Sperm Whale Myoglobin Distal Pocket.
- M. Anselmi, M. Aschi, A. Di Nola, and A. Amadei (2007)
Biophys. J.
92, 3442-3447
| Abstract »
| Full Text »
| PDF »
- CO migration pathways in cytochrome P450cam studied by molecular dynamics simulations.
- L. Mouawad, C. Tetreau, S. Abdel-Azeim, D. Perahia, and D. Lavalette (2007)
Protein Sci.
16, 781-794
| Abstract »
| Full Text »
| PDF »
- Ligand Dynamics in an Electron Transfer Protein: PICOSECOND GEMINATE RECOMBINATION OF CARBON MONOXIDE TO HEME IN MUTANT FORMS OF CYTOCHROME c.
- G. Silkstone, A. Jasaitis, M. T. Wilson, and M. H. Vos (2007)
J. Biol. Chem.
282, 1638-1649
| Abstract »
| Full Text »
| PDF »
- Optimization and Evaluation of a Coarse-Grained Model of Protein Motion Using X-Ray Crystal Data.
- D. A. Kondrashov, Q. Cui, and G. N. Phillips Jr. (2006)
Biophys. J.
91, 2760-2767
| Abstract »
| Full Text »
| PDF »
- Imaging the Migration Pathways for O2, CO, NO, and Xe Inside Myoglobin.
- J. Cohen, A. Arkhipov, R. Braun, and K. Schulten (2006)
Biophys. J.
91, 1844-1857
| Abstract »
| Full Text »
| PDF »
- Nitric Oxide Binding to Prokaryotic Homologs of the Soluble Guanylate Cyclase beta1 H-NOX Domain.
- E. M. Boon, J. H. Davis, R. Tran, D. S. Karow, S. H. Huang, D. Pan, M. M. Miazgowicz, R. A. Mathies, and M. A. Marletta (2006)
J. Biol. Chem.
281, 21892-21902
| Abstract »
| Full Text »
| PDF »
- Ensemble-Based Convergence Analysis of Biomolecular Trajectories.
- E. Lyman and D. M. Zuckerman (2006)
Biophys. J.
91, 164-172
| Abstract »
| Full Text »
| PDF »
- Spatiotemporal reaction kinetics of an ultrafast photoreaction pathway visualized by time-resolved liquid x-ray diffraction.
- T. K. Kim, M. Lorenc, J. H. Lee, M. Lo Russo, J. Kim, M. Cammarata, Q. Kong, S. Noel, A. Plech, M. Wulff, et al. (2006)
PNAS
103, 9410-9415
| Abstract »
| Full Text »
| PDF »
- Allosteric action in real time: Time-resolved crystallographic studies of a cooperative dimeric hemoglobin.
- J. E. Knapp, R. Pahl, V. Srajer, and W. E. Royer Jr. (2006)
PNAS
103, 7649-7654
| Abstract »
| Full Text »
| PDF »
- Extended subnanosecond structural dynamics of myoglobin revealed by Laue crystallography.
- D. Bourgeois, B. Vallone, A. Arcovito, G. Sciara, F. Schotte, P. A. Anfinrud, and M. Brunori (2006)
PNAS
103, 4924-4929
| Abstract »
| Full Text »
| PDF »
- Studying Reactive Processes with Classical Dynamics: Rebinding Dynamics in MbNO.
- D. R. Nutt and M. Meuwly (2006)
Biophys. J.
90, 1191-1201
| Abstract »
| Full Text »
| PDF »
- Roles of static and dynamic domains in stability and catalysis of adenylate kinase.
- E. Bae and G. N. Phillips Jr. (2006)
PNAS
103, 2132-2137
| Abstract »
| Full Text »
| PDF »
- The Position 68(E11) Side Chain in Myoglobin Regulates Ligand Capture, Bond Formation with Heme Iron, and Internal Movement into the Xenon Cavities.
- D. Dantsker, C. Roche, U. Samuni, G. Blouin, J. S. Olson, and J. M. Friedman (2005)
J. Biol. Chem.
280, 38740-38755
| Abstract »
| Full Text »
| PDF »
- Structural Observation of the Primary Isomerization in Vision with Femtosecond-Stimulated Raman.
- P. Kukura, D. W. McCamant, S. Yoon, D. B. Wandschneider, and R. A. Mathies (2005)
Science
310, 1006-1009
| Abstract »
| Full Text »
| PDF »
- Ultrafast X-ray Diffraction of Transient Molecular Structures in Solution.
- H. Ihee, M. Lorenc, T. K. Kim, Q. Y. Kong, M. Cammarata, J. H. Lee, S. Bratos, and M. Wulff (2005)
Science
309, 1223-1227
| Abstract »
| Full Text »
| PDF »
- Ligand migration pathway and protein dynamics in myoglobin: A time-resolved crystallographic study on L29W MbCO.
- M. Schmidt, K. Nienhaus, R. Pahl, A. Krasselt, S. Anderson, F. Parak, G. U. Nienhaus, and V. Srajer (2005)
PNAS
102, 11704-11709
| Abstract »
| Full Text »
| PDF »
- Molecular Dynamics Simulation of Sperm Whale Myoglobin: Effects of Mutations and Trapped CO on the Structure and Dynamics of Cavities.
- C. Bossa, A. Amadei, I. Daidone, M. Anselmi, B. Vallone, M. Brunori, and A. Di Nola (2005)
Biophys. J.
89, 465-474
| Abstract »
| Full Text »
| PDF »
- Light-Induced Relaxation of Photolyzed Carbonmonoxy Myoglobin: A Temperature-Dependent X-Ray Absorption Near-Edge Structure (XANES) Study.
- A. Arcovito, D. C. Lamb, G. U. Nienhaus, J. L. Hazemann, M. Benfatto, and S. D. Longa (2005)
Biophys. J.
88, 2954-2964
| Abstract »
| Full Text »
| PDF »
- Disentangling Ligand Migration and Heme Pocket Relaxation in Cytochrome P450cam.
- C. Tetreau, L. Mouawad, S. Murail, P. Duchambon, Y. Blouquit, and D. Lavalette (2005)
Biophys. J.
88, 1250-1263
| Abstract »
| Full Text »
| PDF »
- From the Cover: Human myoglobin recognition of oxygen: Dynamics of the energy landscape.
- Y. Wang, J. S. Baskin, T. Xia, and A. H. Zewail (2004)
PNAS
101, 18000-18005
| Abstract »
| Full Text »
| PDF »
- Coherent Atomic Motions in a Nanostructure Studied by Femtosecond X-ray Diffraction.
- M. Bargheer, N. Zhavoronkov, Y. Gritsai, J. C. Woo, D. S. Kim, M. Woerner, and T. Elsaesser (2004)
Science
306, 1771-1773
| Abstract »
| Full Text »
| PDF »
- Unveiling functional protein motions with picosecond x-ray crystallography and molecular dynamics simulations.
- G. Hummer, F. Schotte, and P. A. Anfinrud (2004)
PNAS
101, 15330-15334
| Abstract »
| Full Text »
| PDF »
- Bulk-solvent and hydration-shell fluctuations, similar to {alpha}- and {beta}-fluctuations in glasses, control protein motions and functions.
- P. W. Fenimore, H. Frauenfelder, B. H. McMahon, and R. D. Young (2004)
PNAS
101, 14408-14413
| Abstract »
| Full Text »
| PDF »
- Structural Dynamics Controls Nitric Oxide Affinity in Nitrophorin 4.
- K. Nienhaus, E. M. Maes, A. Weichsel, W. R. Montfort, and G. U. Nienhaus (2004)
J. Biol. Chem.
279, 39401-39407
| Abstract »
| Full Text »
| PDF »
- Viscosity-dependent Relaxation Significantly Modulates the Kinetics of CO Recombination in the Truncated Hemoglobin TrHbN from Mycobacterium tuberculosis.
- D. Dantsker, U. Samuni, Y. Ouellet, B. A. Wittenberg, J. B. Wittenberg, M. Milani, M. Bolognesi, M. Guertin, and J. M. Friedman (2004)
J. Biol. Chem.
279, 38844-38853
| Abstract »
| Full Text »
| PDF »
- Coupling of Protein Relaxation to Ligand Binding and Migration in Myoglobin.
- N. Agmon (2004)
Biophys. J.
87, 1537-1543
| Abstract »
| Full Text »
| PDF »
- Thr-E11 Regulates O2 Affinity in Cerebratulus lacteus Mini-hemoglobin.
- A. Pesce, M. Nardini, P. Ascenzi, E. Geuens, S. Dewilde, L. Moens, M. Bolognesi, A. F. Riggs, A. Hale, P. Deng, et al. (2004)
J. Biol. Chem.
279, 33662-33672
| Abstract »
| Full Text »
| PDF »
- Extended Molecular Dynamics Simulation of the Carbon Monoxide Migration in Sperm Whale Myoglobin.
- C. Bossa, M. Anselmi, D. Roccatano, A. Amadei, B. Vallone, M. Brunori, and A. Di Nola (2004)
Biophys. J.
86, 3855-3862
| Abstract »
| Full Text »
| PDF »
- Heme-Ligand Tunneling in Group I Truncated Hemoglobins.
- M. Milani, A. Pesce, Y. Ouellet, S. Dewilde, J. Friedman, P. Ascenzi, M. Guertin, and M. Bolognesi (2004)
J. Biol. Chem.
279, 21520-21525
| Abstract »
| Full Text »
| PDF »
- Time-resolved crystallographic studies of light-induced structural changes in the photosynthetic reaction center.
- R. H. G. Baxter, N. Ponomarenko, V. Srajer, R. Pahl, K. Moffat, and J. R. Norris (2004)
PNAS
101, 5982-5987
| Abstract »
| Full Text »
| PDF »
- CO migration in native and mutant myoglobin: Atomistic simulations for the understanding of protein function.
- D. R. Nutt and M. Meuwly (2004)
PNAS
101, 5998-6002
| Abstract »
| Full Text »
| PDF »
- Protein kinetics: Structures of intermediates and reaction mechanism from time-resolved x-ray data.
- M. Schmidt, R. Pahl, V. Srajer, S. Anderson, Z. Ren, H. Ihee, S. Rajagopal, and K. Moffat (2004)
PNAS
101, 4799-4804
| Abstract »
| Full Text »
| PDF »
- Myoglobin cavities provide interior ligand pathway.
- M. M. Teeter (2004)
Protein Sci.
13, 313-318
| Abstract »
| Full Text »
| PDF »
- Deformation of Helix C in the Low Temperature L-intermediate of Bacteriorhodopsin.
- K. Edman, A. Royant, G. Larsson, F. Jacobson, T. Taylor, D. van der Spoel, E. M. Landau, E. Pebay-Peyroula, and R. Neutze (2004)
J. Biol. Chem.
279, 2147-2158
| Abstract »
| Full Text »
| PDF »
- Theoretical Investigation of Infrared Spectra and Pocket Dynamics of Photodissociated Carbonmonoxy Myoglobin.
- D. R. Nutt and M. Meuwly (2003)
Biophys. J.
85, 3612-3623
| Abstract »
| Full Text »
| PDF »
|
|