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ESmol -- Molecular Viewer for Android

NOTICE!

If your device can run NDKmol, please use it. It is much faster and

have more features than ESmol.

You can get NDKmol from https://play.google.com/store/apps/details?id=jp.sfjp.webglmol.NDKmol .

ESmol is maintained for compatibility with very old devices.

== About ==

ESmol is a molecular viewer for Android.

You can view three dimensional structures of proteins, nucleic acids and small molecules. ESmol supports most of common representations for molecules, such as ribbon, trace, stick, sphere and line. ESmol also supports symmetry operations; biological assemblies and crystal packing can be displayed. You can search and download structures from RCSB PDB and NCBI Pubchem.

ESmol has almost same functionality as GLmol, which is written in

WebGL/Javascript and runs on Web browsers. You can try GLmol at http://webglmol.sourceforge.jp/index-en.html

== Features ==

* Read PDB file

(ESmol cannot open LARGE molecules (more than 3MB). For this purpose, please use NDKmol at http://market.android.com/details?id=jp.sfjp.webglmol.NDKmol)

* Read SDF/MOL file

* Search and Download structures from RCSB PDB and NCBI PubChem

* Rotate/Translate/Zoom model by finger

* Representations

- Line

- Stick

- Sphere(van der Waals radius)

- Alpha carbon trace

- Ribbon

- Strand

- B factor tube

- Nucleic acid ladder

- Nucleic acid line

- solvent 'stars'

* Coloring

- By chain

- By secondary structure(when defined in SHEET/HELIX records)

- By Elements

- Gradation (a.k.a chainbow)

- B factor

- polar/nonpolar

* Crystallography

- Display unit cell

- Show crystal packing (when defined in REMARK section)

- Display biological assembly (when defined in REMARK section)

== How to Use ==

When launched, ESmol automatically loads deoxyhaemoglobin (PDBID: 4HHB) as an example. You can rotate the molecule by your finger.

To zoom or translate the molecule, press MENU button in your phone/tablet and select the mode. Two-finger gestures are also supported.

To load other PDB files, please put the file in "PDB" directory of the SD card and select "Open" command in the MENU. You can also download structures directly from RCSB PDB and NCBI PubChem web server. Select "Search and Download" in the menu.

== Contact ==

Project website is located at http://webglmol.sourceforge.jp/ . You can also get source codes.

Comments and suggestions are welcome at http://sourceforge.jp/projects/webglmol/forums/ or biochem_fan@users.sourceforge.jp

=== LICENSE notice ===

ESmol itself is licensed under GNU Lesser General Public License as follows.

However, PDB files included as examples are under DIFFERENT conditions.

Please consult

http://www.rcsb.org/pdb/static.do?p=general_information/about_pdb/pdb_advisory.html

----

ESmol - Molecular Viewer for Android

(C) Copyright 2011, biochem_fan

This program is free software: you can redistribute it and/or modify

it under the terms of the GNU Lesser General Public License as published by

the Free Software Foundation, either version 3 of the License, or

(at your option) any later version.

This program is distributed in the hope that it will be useful,

but WITHOUT ANY WARRANTY; without even the implied warranty of

MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the

GNU Lesser General Public License for more details.

You should have received a copy of the GNU Lesser General Public License

along with this program. If not, see <http://www.gnu.org/licenses/>.

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