rc.yale.edu

Richards Center at Yale University

Coordinates, Space Groups, Sequences. Spots, Peaks, Maps, Coordinates. Build, Dynamics and Minimization. Geometry, Surfaces, Packing, Electrostatics. Userguides for Molecular Graphics Applications. Userguides for X-ray Crystallography Applications. Userguides for NMR Applications. Slides, Pictures, Movies. Align, Analyze, Predict. In Memoriam: Frederic M. Richards. The March 1, 2015 release of XDS. Version 0.8.1 of Coot. The November 3, 2014 release of XDS. Version 706 of HKL 2000. Either with the ray.

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Richards Center at Yale University | rc.yale.edu Reviews

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Coordinates, Space Groups, Sequences. Spots, Peaks, Maps, Coordinates. Build, Dynamics and Minimization. Geometry, Surfaces, Packing, Electrostatics. Userguides for Molecular Graphics Applications. Userguides for X-ray Crystallography Applications. Userguides for NMR Applications. Slides, Pictures, Movies. Align, Analyze, Predict. In Memoriam: Frederic M. Richards. The March 1, 2015 release of XDS. Version 0.8.1 of Coot. The November 3, 2014 release of XDS. Version 706 of HKL 2000. Either with the ray.

<META> KEYWORDS

1 richards center

2 at yale university

3 contents

4 alphabetical listing

5 intro

6 general information

7 policies

8 the rules

9 databases

10 data analysis

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richards center,at yale university,contents,alphabetical listing,intro,general information,policies,the rules,databases,data analysis,modeling,model analysis,csb people,image display,sequences,related www,journals etc,what's new,for molecular replacement

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Richards Center at Yale University | rc.yale.edu Reviews

https://rc.yale.edu

Coordinates, Space Groups, Sequences. Spots, Peaks, Maps, Coordinates. Build, Dynamics and Minimization. Geometry, Surfaces, Packing, Electrostatics. Userguides for Molecular Graphics Applications. Userguides for X-ray Crystallography Applications. Userguides for NMR Applications. Slides, Pictures, Movies. Align, Analyze, Predict. In Memoriam: Frederic M. Richards. The March 1, 2015 release of XDS. Version 0.8.1 of Coot. The November 3, 2014 release of XDS. Version 706 of HKL 2000. Either with the ray.

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webserver.rc.yale.edu

Richards Center at Yale University

Coordinates, Space Groups, Sequences. Spots, Peaks, Maps, Coordinates. Build, Dynamics and Minimization. Geometry, Surfaces, Packing, Electrostatics. Userguides for Molecular Graphics Applications. Userguides for X-ray Crystallography Applications. Userguides for NMR Applications. Slides, Pictures, Movies. Align, Analyze, Predict. In Memoriam: Frederic M. Richards. The March 1, 2015 release of XDS. Version 0.8.1 of Coot. The November 3, 2014 release of XDS. Version 706 of HKL 2000. Either with the ray.

INTERNAL PAGES

rc.yale.edu

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Table of Contents for Molecular Modeling and SimulationApplications

http://www.rc.yale.edu/model_toc.html

Table of Contents for Molecular Modeling and Simulation Applications. Dynamics Simulation (Local Only). Model Building, Completion, and Validation. Most Favorable Ligand/Receptor Binding. Dynamics for Molecular Modeling. Chemical Structure Drawing package. Model Building and Refinement. Protein Homology and Comparative Modeling. Interactive manipulation in three diensional space. Dynamics for Molecular Modeling. Nucleic Acid Modeling Tool. Model Building and Refinement. Build Hydrogens on your Model.

2

CSB Database Access

http://www.rc.yale.edu/userguides/databases/csb_hm_db.html

Protein, DNA and Diffraction Databases and Servers. Anomolous Scattering Factors and Absorption Coefficients. Local copy of Sasaki's tables. Atlas of Side-Chain and Main-Chain Hydrogen Bonding. A record of the hydrogen bonding patterns of the standard hydrogen bonding groups. Point and click web interface that provides access to databases and analysis tools. Cambridge Structural Data Base. Aligns two polypeptide chains using characteristics of their local geometry. Comparing protein structures in 3D.

3

Sequence Manipulation and Analysis

http://www.rc.yale.edu/userguides/seq/csb_hm_seq.html

Last Modified: Wednesday, 02-Feb-2005 10:00:14 EST. Sequence Manipulation and Analysis. Fully gapped alignment searching. Protein Secondary Structure Prediction. Sequence Comparison and Searching. Searching with Hidden Markov models. Wisconsin Sequence Analysis Package (GCG). Multiple sequence alignment based on homology and secondary structure. Last Modified: Wednesday, 02-Feb-2005 10:00:14 EST. Richards Center ( www.rc.yale.edu. At Yale University ( www.yale.edu. Contact: webmaster at ben rc yale edu.

4

Table of Contents for Model Analysis Applications

http://www.rc.yale.edu/model_anal.html

Table of Contents for Model Analysis Applications. Special Category: Volume and Packing Calculations. Special Category: Questions and Methods for Every New Structure. Nucleic acid structure analysis and visualization. Calculate pockets on the surface of a molecule. Program for the Automated Docking of Flexible Ligands to Macromolecules. Check Geometry in NMR Protein Structures. Computational searching of protein helix interactions. Crystallography and NMR System (Local Only). Compare Side Chain Movements.

5

CSB Image Display

http://www.rc.yale.edu/userguides/image/csb_hm_image.html

List of RGB colors. Making Slides and Pictures. Making Movies on a Windows PC. Making Animated GIF Images. Center for Structural Biology ( www.csb.yale.edu. Yale University ( www.yale.edu. Contact: webadmin(at)mail csb yale edu. Last Modified: Tuesday, 27-Aug-2002 12:55:02 EDT by P. Fleming.

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csb.yale.edu

Sequence Manipulation and Analysis

http://www.csb.yale.edu/userguides/seq/csb_hm_seq.html

Last Modified: Wednesday, 02-Feb-2005 10:00:14 EST. Sequence Manipulation and Analysis. Fully gapped alignment searching. Protein Secondary Structure Prediction. Sequence Comparison and Searching. Searching with Hidden Markov models. Wisconsin Sequence Analysis Package (GCG). Multiple sequence alignment based on homology and secondary structure. Last Modified: Wednesday, 02-Feb-2005 10:00:14 EST. Richards Center ( www.rc.yale.edu. At Yale University ( www.yale.edu. Contact: webmaster at ben rc yale edu.

webserver.rc.yale.edu

CSB Datareduction

http://webserver.rc.yale.edu/userguides/datamanip/csb_hm_dm.html

Last Modified: Friday, 17-Oct-2008 11:16:52 EDT. Data Reduction and Analysis Applications. Calculate pockets on the surface of a molecule. Automated Docking of Flexible Lig ands to Macromolecules. Check Geometry in NMR Protein Structures. I:Computational searching of protein helix interactions. Crystallography and NMR System (Local Only). All atom difference distance plot. Plotting of R and Rfree, Etot, BOND, ANGL, DIHE, VDW, NOE, etc. Helical Analysis of Irregular Nucleic Acids. Greg Van Duyne's Programs.

webserver.rc.yale.edu

Sequence Manipulation and Analysis

http://webserver.rc.yale.edu/userguides/seq/csb_hm_seq.html

Last Modified: Wednesday, 02-Feb-2005 10:00:14 EST. Sequence Manipulation and Analysis. Fully gapped alignment searching. Protein Secondary Structure Prediction. Sequence Comparison and Searching. Searching with Hidden Markov models. Wisconsin Sequence Analysis Package (GCG). Multiple sequence alignment based on homology and secondary structure. Last Modified: Wednesday, 02-Feb-2005 10:00:14 EST. Richards Center ( www.rc.yale.edu. At Yale University ( www.yale.edu. Contact: webmaster at ben rc yale edu.

csb.yale.edu

CSB Datareduction

http://www.csb.yale.edu/userguides/datamanip/csb_hm_dm.html

Last Modified: Friday, 17-Oct-2008 11:16:52 EDT. Data Reduction and Analysis Applications. Calculate pockets on the surface of a molecule. Automated Docking of Flexible Lig ands to Macromolecules. Check Geometry in NMR Protein Structures. I:Computational searching of protein helix interactions. Crystallography and NMR System (Local Only). All atom difference distance plot. Plotting of R and Rfree, Etot, BOND, ANGL, DIHE, VDW, NOE, etc. Helical Analysis of Irregular Nucleic Acids. Greg Van Duyne's Programs.

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rc.yale.edu

Richards Center at Yale University

Coordinates, Space Groups, Sequences. Spots, Peaks, Maps, Coordinates. Build, Dynamics and Minimization. Geometry, Surfaces, Packing, Electrostatics. Userguides for Molecular Graphics Applications. Userguides for X-ray Crystallography Applications. Userguides for NMR Applications. Slides, Pictures, Movies. Align, Analyze, Predict. In Memoriam: Frederic M. Richards. The March 1, 2015 release of XDS. Version 0.8.1 of Coot. The November 3, 2014 release of XDS. Version 706 of HKL 2000. Either with the ray.

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