3dnascapes.rutgers.edu
DNA-LandscapesDnaCP is DNA conformational parameter database, containing base pair parameters, base-pair step parameters, dihedral angles, groove width, etc.
http://3dnascapes.rutgers.edu/
DnaCP is DNA conformational parameter database, containing base pair parameters, base-pair step parameters, dihedral angles, groove width, etc.
http://3dnascapes.rutgers.edu/
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DNA-Landscapes | 3dnascapes.rutgers.edu Reviews
https://3dnascapes.rutgers.edu
DnaCP is DNA conformational parameter database, containing base pair parameters, base-pair step parameters, dihedral angles, groove width, etc.
DNA-Landscapes
http://3dnascapes.rutgers.edu/index.php/doc/about
Thursday, August 18, 2016 03:23. 1 Olson, W. K., Lu, X.-J. (2003) 3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures. Nucleic Acids. Res. 31(17): 5108-5121. 2 Lu X-J. and Olson W.K. (2008) 3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three dimensional nucleic-acid structures, Nature Protocols 3(7): 1213-1227. New Brunswick, New Jersey, USA.
DNA-Landscapes
http://3dnascapes.rutgers.edu/index.php/doc/citation
Thursday, August 18, 2016 03:23. When using 3DNALandscapes, please cite:. Zheng G., Colasanti A.V., Lu X-J. and Olson W.K. (2010) 3DNALandscapes: A Database for Exploring the Conformational Features of DNA, Nucleic Acids Research, 38(Database issue), D267-D274. More desciption regarding 3DNA, please cite:. Lu X-J. and Olson W.K. (2003) 3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures, Nucleic Acids Research, 31(17), 5108-5121.
DNA-Landscapes
http://3dnascapes.rutgers.edu/index.php/doc/tutorial
Thursday, August 18, 2016 03:22. The second option lets the user enter a list of PDB or NDB structural identifiers (IDs), which the server checks for accuracy. This option allows the user to perform searches elsewhere, such as the integrated search at the NDB or the advanced search at the PDB, and then import the findings into the 3DNALandscapes interface for conformational analysis. The user can also modify the list at this point in the search by specifying the relevant PDB ID(s) to be removed or added.
DNA-Landscapes
http://3dnascapes.rutgers.edu/index.php/doc/definition
Thursday, August 18, 2016 03:22. Hydrogen bond XV - YW. A hydrogen bond between XV. Atom of base 1 (on the left, chain 1) and YW. Atom of base 2 (on the right, chain 2). For example, N1 - N3. Of the base pair C-G. Is a hydrogen bond between the N1 atom of base C. And the N3 atom of base G. Length of the hydrogen bond XV - YW. Torsion angle in the five-membered sugar ring: C4'-O4'-C1'-C2'. Torsion angle in the five-membered sugar ring: O4'-C1'-C2'-C3'. See description under parameter P.'. Backbone torsion...
DNA-Landscapes
http://3dnascapes.rutgers.edu/index.php/search
Tuesday, August 23, 2016 07:09. Please select structures: [ Help. All types of DNA structures. DNA structures with base-pair steps of the following types* in the selected proportion or number:. Steps - OR -. Steps - OR -. Steps - OR -. Steps - OR -. Steps - OR -. Conformational types based on the positions of P atoms within individual base-pair steps. X-ray resolution cutoff (if applicable). NMR model content (if applicable). OR please input structures: [ Help. NMR model content (if applicable).
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3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/highlights/pauling-triplex-model-of-nucleic-acids-is-available-in-3dna
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Highlights of recent developments of 3DNA/DSSR. Rsaquo; Paulings triplex model of nucleic acids is available in 3DNA. 3DNA C source code is available. The DSSR - block-color option. Integrating DSSR into Jmol and PyMOL. Characterization of base-pair geometry. DSSR base blocks in PyMOL, interactively. Details on the simple base-pair parameters. Fitting of base reference frame. In a r...
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/highlights/the-dssr-block-color-option
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Highlights of recent developments of 3DNA/DSSR. Paulings triplex model of nucleic acids is available in 3DNA. 3DNA C source code is available. Rsaquo; The DSSR - block-color option. Integrating DSSR into Jmol and PyMOL. Characterization of base-pair geometry. DSSR base blocks in PyMOL, interactively. Details on the simple base-pair parameters. Fitting of base reference frame. Script...
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/articles/cartoon-block-representation-of-quadruplex-duplex-interface
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. PyMOL wrapper to 3DNA fiber models. Rsaquo; Cartoon-block representation of quadruplex-duplex interface. 3DNA Forum is spam free. Ask reproducible questions, publicly. Simple parameters for non-Watson-Crick base pairs. Quality control of DSSR (3DNA) source code. Metallo-base pairs can be identified by DSSR. Middot; Weird PDB entries. Middot; 3DNA fiber models. I quickly ran DSSR.
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/articles/3dna-fiber-models
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Rsaquo; 3DNA fiber models. PyMOL wrapper to 3DNA fiber models. Cartoon-block representation of quadruplex-duplex interface. 3DNA Forum is spam free. Ask reproducible questions, publicly. Simple parameters for non-Watson-Crick base pairs. Quality control of DSSR (3DNA) source code. Metallo-base pairs can be identified by DSSR. Middot; Weird PDB entries. Middot; 3DNA fiber models.
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/highlights/highlights-of-recent-developments-of-3dna-dssr
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Rsaquo; Highlights of recent developments of 3DNA/DSSR. Paulings triplex model of nucleic acids is available in 3DNA. 3DNA C source code is available. The DSSR - block-color option. Integrating DSSR into Jmol and PyMOL. Characterization of base-pair geometry. DSSR base blocks in PyMOL, interactively. Details on the simple base-pair parameters. Fitting of base reference frame. Subdir...
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/highlights/dssr-base-blocks-in-pymol-interactively
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Highlights of recent developments of 3DNA/DSSR. Paulings triplex model of nucleic acids is available in 3DNA. 3DNA C source code is available. The DSSR - block-color option. Integrating DSSR into Jmol and PyMOL. Characterization of base-pair geometry. Rsaquo; DSSR base blocks in PyMOL, interactively. Details on the simple base-pair parameters. Fitting of base reference frame. 8217;s...
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/articles/outside-links
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. PyMOL wrapper to 3DNA fiber models. Cartoon-block representation of quadruplex-duplex interface. 3DNA Forum is spam free. Ask reproducible questions, publicly. Simple parameters for non-Watson-Crick base pairs. Quality control of DSSR (3DNA) source code. Metallo-base pairs can be identified by DSSR. Middot; Weird PDB entries. Middot; Highlights of recent developments of 3DNA/DSSR.
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/highlights/schematic-diagrams-of-base-pair-parameters
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Highlights of recent developments of 3DNA/DSSR. Paulings triplex model of nucleic acids is available in 3DNA. 3DNA C source code is available. The DSSR - block-color option. Integrating DSSR into Jmol and PyMOL. Characterization of base-pair geometry. DSSR base blocks in PyMOL, interactively. Details on the simple base-pair parameters. Fitting of base reference frame. Pictorial defi...
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/highlights/3dna-c-source-code-is-available
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Highlights of recent developments of 3DNA/DSSR. Paulings triplex model of nucleic acids is available in 3DNA. Rsaquo; 3DNA C source code is available. The DSSR - block-color option. Integrating DSSR into Jmol and PyMOL. Characterization of base-pair geometry. DSSR base blocks in PyMOL, interactively. Details on the simple base-pair parameters. Fitting of base reference frame. Compil...
3DNA Homepage -- Nucleic Acid Structures
http://home.x3dna.org/articles/pymol-wrapper-to-3dna-fiber-models
3DNA: a suite of software programs for the analysis, rebuilding and visualization of 3-Dimensional Nucleic Acid structures. Rsaquo; PyMOL wrapper to 3DNA fiber models. Cartoon-block representation of quadruplex-duplex interface. 3DNA Forum is spam free. Ask reproducible questions, publicly. Simple parameters for non-Watson-Crick base pairs. Quality control of DSSR (3DNA) source code. Metallo-base pairs can be identified by DSSR. Middot; Weird PDB entries. Middot; 3DNA fiber models. Gives the following de...
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DNA-Landscapes
Saturday, May 16, 2015 03:30. Welcome to 3DNALandscapes, a database for exploring the conformational features of DNA. For more information about the database, please refer to About. Sections of this website. To get started with querying data, please use the Search. Improvements to the web interface allow users to specify their own choice of structures by inputting the PDB (Protein Data Bank) or NDB (Nucleic Acid Database) identifiers. New Brunswick, New Jersey, USA.
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Thursday, November 02, 2006. Eye Ball Modeling Shading. Circle Select the Top Polygons and then Extrude the polygons down slightly then scale them. Then Extrude the polygons down then scale them. Then Extrude the polygons down slightly then scale them. Then Extrude the polygons down then scale them out then translate. Then Extrude the polygons down then scale them down. Click the map button or hit m button. Select the eye ball material then edit the image uvs. Adjust the UVs. Posted by Nate at 5:18 PM.
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