The Experts below are selected from a list of 237 Experts worldwide ranked by ideXlab platform
Janet M Thornton - One of the best experts on this subject based on the ideXlab platform.
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domplot a program to generate Schematic Diagrams of the structural domain organization within proteins annotated by ligand contacts
Protein Engineering, 1999Co-Authors: Annabel E Todd, C A Orengo, Janet M ThorntonAbstract:A program is described for automatically generating Schematic linear representations of protein chains in terms of their structural domains. The program requires the coordinates of the chain, the domain assignment, PROSITE information and a file listing all intermolecular interactions in the protein structure. The output is a Postscript file in which each protein is represented by a set of linked boxes, each box corresponding to all or part of a structural domain. PROSITE motifs and residues involved in ligand interactions are highlighted. The Diagrams allow immediate visualization of the domain arrangement within a protein chain, and by providing information on sequence motifs, and metal ion, ligand and DNA binding at the domain level, the program facilitates detection of remote evolutionary relationships between proteins.
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nucplot a program to generate Schematic Diagrams of protein nucleic acid interactions
Nucleic Acids Research, 1997Co-Authors: Nicholas M Luscombe, Roman A Laskowski, Janet M ThorntonAbstract:Proteins that bind to DNA are found in all areas of genetic activity within the cell. To help understand how these proteins perform their various functions, it is useful to analyse which residues are involved in binding to the DNA and how they interact with the bases and sugar-phosphate backbone of nucleic acids. Here we describe a program called NUCPLOT which can automatically identify these interactions from the 3D atomic coordinates of the complex from a PDB file and generate a plot that shows all the interactions in a Schematic manner. The program produces a PostScript output file representing hydrogen, van der Waals and covalent bonds between the protein and the DNA. The resulting diagram is both clear and simple and allows immediate identification of important interactions within the structure. It also facilitates comparison of binding found in different structures. NUCPLOT is a completely automatic program, which can be used for any protein-DNA complex and will also work for certain protein-RNA structures.
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hera a program to draw Schematic Diagrams of protein secondary structures
Proteins, 1990Co-Authors: Gail E Hutchinson, Janet M ThorntonAbstract:A program is described which generates hydrogen bonding Diagrams of protein structures and optionally helical wheels and helical nets. The program can also be used simply to calculate the connectivities of β-strands and to automatically extract simple structural motifs such as hairpins or Greek keys. The program greatly reduces the effort required to produce these Diagrams and offers considerable flexibility in the information which can be represented. The usefulness of the program is illustrated by several examples including comparing homologous families, correlating protein structure with attributes of individual residues, and extracting all examples of the ψ-loop motif from the Brookhaven Data Bank.
Sergey M. Afonin - One of the best experts on this subject based on the ideXlab platform.
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Structural-Parametric Model Multilayer Electromagnetoelastic Actuator for Nanomechatronics
The International Journal of Physics, 2019Co-Authors: Sergey M. AfoninAbstract:In this work, the structural-parametric model and the parametric structural Schematic diagram of the multilayer electromagnetoelastic actuator for nanomechatronics are received. The purpose of the research is to obtain structural-parametric model of the multilayer electromagnetoelastic actuator for the nanomechatronics systems. The method of mathematical physics is used to solve the matrix equation of the multilayer electromagnetoelastic actuator for its structural-parametric model. The generalized parametric structural Schematic Diagrams of the multilayer electromagnetoelastic actuator or the multilayer piezoactuator for nanomechatronics with the mechanical parameters the displacement and the force are determined in contrast to Cady and Masoni¯s electrical equivalent circuits for the calculation of the piezotransmitter, the piezoreceiver, the vibration piezomotor. We obtain the generalized structural-parametric model and the generalized parametric structural Schematic diagram of the multilayer electromagnetoelastic actuator from the general equation of the electromagnetoelasticity and determination of the caused force, the system of the equations for the equivalent quadripole of the multilayer actuator, the equations of the forces on its faces. The decision matrix equation for the equivalent quadripole of the multilayer electromagnetoelastic actuator is used. The parametric structural Schematic diagram of multilayer electromagnetoelastic actuator is obtained with the mechanical parameters the displacement and the force. The matrix transfer function of the multilayer electromagnetoelastic actuator is determined for nanomechatronics. The generalized parametric structural Schematic diagram, the generalized matrix equation of the multilayer electromagnetoelastic actuator for nanomechatronics are obtained. The deformations of the multilayer electromagnetoelastic actuator for nanomechatronics are described by the matrix equation. The parametric structural Schematic diagram and the matrix transfer function of the multilayer piezoactuator are obtained for calculations the nanomechatronics systems with the multilayer piezoactuator of micro and nanodisplacement.
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Structural-Parametric Model and Diagram of a Multilayer Electromagnetoelastic Actuator for Nanomechanics
Actuators, 2019Co-Authors: Sergey M. AfoninAbstract:In this work, the parametric structural Schematic Diagrams of a multilayer electromagnetoelastic actuator and a multilayer piezoactuator for nanomechanics were determined in contrast to the electrical equivalent circuits of a piezotransmitter and piezoreceiver, the vibration piezomotor. The decision matrix equation of the equivalent quadripole of the multilayer electromagnetoelastic actuator was used. The structural-parametric model, the parametric structural Schematic diagram, and the matrix transfer function of the multilayer electromagnetoelastic actuator for nanomechanics were obtained.
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Structural-parametric models of electromagnetoelastic actuators of nano- and microdisplacement for robotics and mechatronics systems
2017 IEEE Conference of Russian Young Researchers in Electrical and Electronic Engineering (EIConRus), 2017Co-Authors: Sergey M. AfoninAbstract:Structural-parametric models and parametric structural Schematic Diagrams of electromagnetoelastic actuators are obtained. The transfer functions of the actuators are determined from structural parametric models. For calculations robotics and mechatronics systems with piezoactuators the parametric structural Schematic Diagrams and the transfer functions of piezoactuators are obtained.
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Structural-Parametric Models and Transfer Functions of Electromagnetoelastic Actuators Nano- and Microdisplacement for Mechatronic Systems
2016Co-Authors: Sergey M. AfoninAbstract:Structural-parametric models, parametric structural Schematic Diagrams and transfer functions of electromagnetoelastic actuators are determined. A generalized parametric structural Schematic diagram of the electromagnetoelastic actuator is constructed. Effects of geometric and physical parameters of actuators and external load on its dynamic characteristics are determined. For calculations the mechatronic systems with piezoactuators for nano- and microdisplacement the parametric structural Schematic Diagrams and the transfer functions of piezoactuators are obtained.
S. Watanabe - One of the best experts on this subject based on the ideXlab platform.
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generating two dimensional Schematic Diagrams of mechanical electrical and plumbing systems from three dimensional building information models
International Journal of Architectural Computing, 2016Co-Authors: Masakazu Matsubayashi, S. WatanabeAbstract:In this article, we propose a method of generating two-dimensional Schematic Diagrams from three-dimensional models of mechanical, electrical, and plumbing systems on computer-aided design software to represent this information in a more traditional, user-friendly format. It can be difficult to grasp the relationships between various mechanical, electrical, and plumbing elements in building information models because they are represented in a visually complex, three-dimensional manner. On the other hand, the relationships between building elements can be easily understood when using traditional Schematic Diagrams. First, the network of mechanical, electrical, and plumbing systems and a section view are extracted separately from three-dimensional models. Next, these extracted files are displayed as Schematic Diagrams on computer-aided design software. The expressions of traditional drawings were referenced to generate new Diagrams. After Schematic Diagrams were created, they were evaluated by staff members...
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Generating two-dimensional Schematic Diagrams of mechanical, electrical, and plumbing systems from three-dimensional building information models
International Journal of Architectural Computing, 2016Co-Authors: Masakazu Matsubayashi, S. WatanabeAbstract:In this article, we propose a method of generating two-dimensional Schematic Diagrams from three-dimensional models of mechanical, electrical, and plumbing systems on computer-aided design software to represent this information in a more traditional, user-friendly format. It can be difficult to grasp the relationships between various mechanical, electrical, and plumbing elements in building information models because they are represented in a visually complex, three-dimensional manner. On the other hand, the relationships between building elements can be easily understood when using traditional Schematic Diagrams. First, the network of mechanical, electrical, and plumbing systems and a section view are extracted separately from three-dimensional models. Next, these extracted files are displayed as Schematic Diagrams on computer-aided design software. The expressions of traditional drawings were referenced to generate new Diagrams. After Schematic Diagrams were created, they were evaluated by staff members in the facilities department of a university in Japan. [ABSTRACT FROM AUTHOR]
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generating Schematic Diagrams of mep systems from 3d building information models for use in conservation
Emerging Experience in Past Present and Future of Digital Architecture Proceedings of the 20th International Conference of the Association for Compute, 2015Co-Authors: Masakazu Matsubayashi, S. WatanabeAbstract:In this paper, we propose a method of generating Schematic Diagrams from 3D models of mechanical, electrical and plumbing (MEP) systems in order to represent this information in a more traditional, user-friendly format. It can be difficult to grasp the relationships between various MEP elements in building information models (BIM) because they are represented in a visually complex, three-dimensional manner. On the other hand, the relationships between building elements can be easily understood when using traditional Schematic Diagrams. First, sets of connected elements are extracted from a 3D model of MEP elements using their connection properties. Next, various elements of these systems are identified as nodes and their connections are represented as edges. Finally, these systems are displayed as a Schematic diagram using element attribute information.
Nicholas M Luscombe - One of the best experts on this subject based on the ideXlab platform.
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nucplot a program to generate Schematic Diagrams of protein nucleic acid interactions
Nucleic Acids Research, 1997Co-Authors: Nicholas M Luscombe, Roman A Laskowski, Janet M ThorntonAbstract:Proteins that bind to DNA are found in all areas of genetic activity within the cell. To help understand how these proteins perform their various functions, it is useful to analyse which residues are involved in binding to the DNA and how they interact with the bases and sugar-phosphate backbone of nucleic acids. Here we describe a program called NUCPLOT which can automatically identify these interactions from the 3D atomic coordinates of the complex from a PDB file and generate a plot that shows all the interactions in a Schematic manner. The program produces a PostScript output file representing hydrogen, van der Waals and covalent bonds between the protein and the DNA. The resulting diagram is both clear and simple and allows immediate identification of important interactions within the structure. It also facilitates comparison of binding found in different structures. NUCPLOT is a completely automatic program, which can be used for any protein-DNA complex and will also work for certain protein-RNA structures.
A H Hamada - One of the best experts on this subject based on the ideXlab platform.
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a new system for the analysis of Schematic Diagrams
International Conference on Document Analysis and Recognition, 1993Co-Authors: A H HamadaAbstract:The objective of the work discussed consists of extracting all components (text, symbols, and connecting lines), constituting the Schematic diagram, and recognizing them. For that, the author proposes a system which consists, in a first step, of building hypotheses and, in a second one, of validating these hypotheses by symbol recognition. The author explains the hypothesis building, which performs two tasks: the detection of connecting lines guided by the result of the recognition step and the selection of an area, which is likely to contain a symbol, based on the endpoints of connecting lines. In addition, the author uses not only loops to guide the selection of this area but also the presence of the text which makes it possible to locate symbols not containing loops. The main originality of the approach consists in the fact that it makes intensive use of the cooperation between the detection of connecting lines and the recognition of symbols. The two most important advantages of the use of this strong interdependence are the efficiency of the connecting line detection and the reduction of the number of false loops to be handled. >
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ICDAR - A new system for the analysis of Schematic Diagrams
Proceedings of 2nd International Conference on Document Analysis and Recognition (ICDAR '93), 1993Co-Authors: A H HamadaAbstract:The objective of the work discussed consists of extracting all components (text, symbols, and connecting lines), constituting the Schematic diagram, and recognizing them. For that, the author proposes a system which consists, in a first step, of building hypotheses and, in a second one, of validating these hypotheses by symbol recognition. The author explains the hypothesis building, which performs two tasks: the detection of connecting lines guided by the result of the recognition step and the selection of an area, which is likely to contain a symbol, based on the endpoints of connecting lines. In addition, the author uses not only loops to guide the selection of this area but also the presence of the text which makes it possible to locate symbols not containing loops. The main originality of the approach consists in the fact that it makes intensive use of the cooperation between the detection of connecting lines and the recognition of symbols. The two most important advantages of the use of this strong interdependence are the efficiency of the connecting line detection and the reduction of the number of false loops to be handled. >
