Error estimates in the determination of rigid body displacements in protein crystals

1994 ◽  
Vol 24 (1) ◽  
pp. 1-3
Author(s):  
Simon A. Butler ◽  
Gillian W. Harris ◽  
David S. Moss ◽  
Beatrice A. Gorinsky ◽  
Margaret J. Adams ◽  
...  
Keyword(s):  
Rigid Body ◽  
Error Estimates ◽  
Protein Crystals

Determination of viscosity parameters in rigid body-soil interaction

2016 ◽  
pp. 163-165
Author(s):  
G. X. Xojimetov ◽  
D. A. Bekmirzaev ◽  
A. S. Yuvmitov
Keyword(s):  
Rigid Body

A Hybrid Highly Parallelizable Algorithm for the Dynamics of Rigid Body Chain Systems

1999 ◽  
Author(s):  
Shanzhong Duan ◽  
Kurt S. Anderson
Keyword(s):  
Rigid Body ◽  
Degrees Of Freedom ◽  
High Efficiency ◽  
Equations Of Motion ◽  
Constraint Forces ◽  
Dynamics Of Rigid Body ◽  
A Chain ◽  
Explicit Determination ◽  
Order Algorithm

Abstract The paper presents a new hybrid parallelizable low order algorithm for modeling the dynamic behavior of multi-rigid-body chain systems. The method is based on cutting certain system interbody joints so that largely independent multibody subchain systems are formed. These subchains interact with one another through associated unknown constraint forces f¯c at the cut joints. The increased parallelism is obtainable through cutting the joints and the explicit determination of associated constraint loads combined with a sequential O(n) procedure. In other words, sequential O(n) procedures are performed to form and solve equations of motion within subchains and parallel strategies are used to form and solve constraint equations between subchains in parallel. The algorithm can easily accommodate the available number of processors while maintaining high efficiency. An O[(n+m)Np+m(1+γ)Np+mγlog2Np](0<γ<1) performance will be achieved with Np processors for a chain system with n degrees of freedom and m constraints due to cutting of interbody joints.

Experimental Determination of Steady and Unsteady Loads on a Surface Piercing, Ventilated Hydrofoil

1969 ◽  
Vol 13 (01) ◽  
pp. 1-11
Author(s):  
G. E. Ransleben
Keyword(s):  
Rigid Body ◽  
Experimental Determination ◽  
Cross Section ◽  
Angle Of Attack ◽  
Chord Length ◽  
Body Rolling

Measured steady and unsteady section lift and moment coefficients at two spanwise locations on a surface-piercing ventilated hydrofoil are presented. The foil, of wedge cross section, was supported vertically, and submerged one chord length from the tip. Excitation in rigid-body rolling and pitching modes to the cantilevered foil produced the unsteady loads. All tests were made at a nominal angle of attack of 12 deg.

scholarly journals Intermolecular correlations are necessary to explain diffuse scattering from protein crystals

IUCrJ ◽  
2018 ◽  
Vol 5 (2) ◽  
pp. 211-222 ◽  
Author(s):  
Ariana Peck ◽  
Frédéric Poitevin ◽  
Thomas J. Lane
Keyword(s):  
Rigid Body ◽  
Conformational Changes ◽  
Protein Function ◽  
Diffuse Scattering ◽  
Conformational Dynamics ◽  
Protein Crystals ◽  
Biological Unit ◽  
Long Range Correlations ◽  
Correlated Motions ◽  
Potential Applications

Conformational changes drive protein function, including catalysis, allostery and signaling. X-ray diffuse scattering from protein crystals has frequently been cited as a probe of these correlated motions, with significant potential to advance our understanding of biological dynamics. However, recent work has challenged this prevailing view, suggesting instead that diffuse scattering primarily originates from rigid-body motions and could therefore be applied to improve structure determination. To investigate the nature of the disorder giving rise to diffuse scattering, and thus the potential applications of this signal, a diverse repertoire of disorder models was assessed for its ability to reproduce the diffuse signal reconstructed from three protein crystals. This comparison revealed that multiple models of intramolecular conformational dynamics, including ensemble models inferred from the Bragg data, could not explain the signal. Models of rigid-body or short-range liquid-like motions, in which dynamics are confined to the biological unit, showed modest agreement with the diffuse maps, but were unable to reproduce experimental features indicative of long-range correlations. Extending a model of liquid-like motions to include disorder across neighboring proteins in the crystal significantly improved agreement with all three systems and highlighted the contribution of intermolecular correlations to the observed signal. These findings anticipate a need to account for intermolecular disorder in order to advance the interpretation of diffuse scattering to either extract biological motions or aid structural inference.

The First Direct Determination of a Ligand Binding Constant in Protein Crystals

2001 ◽  
Vol 113 (3) ◽  
pp. 602-606 ◽  
Author(s):  
Su-ying Wu ◽  
Jacqueline Dornan ◽  
George Kontopidis ◽  
Paul Taylor ◽  
Malcolm D. Walkinshaw
Keyword(s):  
Ligand Binding ◽  
Binding Constant ◽  
Direct Determination ◽  
Protein Crystals

scholarly journals Analysis of oscillatory rocking curve by dynamical diffraction in protein crystals

2018 ◽  
Vol 115 (14) ◽  
pp. 3634-3639 ◽  
Author(s):  
Ryo Suzuki ◽  
Haruhiko Koizumi ◽  
Keiichi Hirano ◽  
Takashi Kumasaka ◽  
Kenichi Kojima ◽  
...  
Keyword(s):  
Glucose Isomerase ◽  
Dynamical Theory ◽  
Protein Crystals ◽  
X Ray Diffraction ◽  
High Quality ◽  
Rocking Curve ◽  
Dynamical Diffraction ◽  
High Quality Protein ◽  
Good Agreement

High-quality protein crystals meant for structural analysis by X-ray diffraction have been grown by various methods. The observation of dynamical diffraction in protein crystals is an interesting topic because dynamical diffraction generally occurs in perfect crystals such as Si crystals. However, to our knowledge, there is no report yet on protein crystals showing clear dynamical diffraction. We wonder whether the perfection of protein crystals might still be low compared with that of high-quality Si crystals. Here, we present observations of the oscillatory profile of rocking curves for protein crystals such as glucose isomerase crystals. The oscillatory profiles are in good agreement with those predicted by the dynamical theory of diffraction. We demonstrate that dynamical diffraction occurs even in protein crystals. This suggests the possibility of the use of dynamical diffraction for the determination of the structure and charge density of proteins.

Closed-Form Determination of the Location of a Rigid Body by Seven In-Parallel Linear Transducers

1996 ◽  
Author(s):  
Carlo Innocenti
Keyword(s):  
Rigid Body ◽  
Linear Equations ◽  
Parallel Manipulators ◽  
Rigid Bodies ◽  
Body Location ◽  
Position And Orientation ◽  
General Geometry ◽  
Two Bodies

Abstract The paper presents an original analytic procedure for unambiguously determining the relative position and orientation (location) of two rigid bodies based on the readings from seven linear transducers. Each transducer connects two points arbitrarily chosen on the two bodies. The sought-for rigid-body location simply results by solving linear equations. The proposed procedure is suitable for implementation in control of fully-parallel manipulators with general geometry. A numerical example shows application of the reported results to a case study.

scholarly journals Determination of thermal diffusivity for rigid body at non-stationary thermal conditions

2019 ◽  
Vol 288 ◽  
pp. 012097
Author(s):  
Denis Karpov ◽  
Vladimir Agafonov ◽  
Viktor Pisarenko ◽  
Pavel Berezin ◽  
Oleg Derevianko ◽  
...  
Keyword(s):  
Thermal Diffusivity ◽  
Rigid Body ◽  
Thermal Conditions
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