Note: for a really nice fully-featured molecular structure viewer, see the JMol app that is now ported to Android!
== About ==
NDKmol is a molecular viewer for Android. You can view three dimensional structures of proteins, nucleic acids and small molecules. NDKmol supports most of common representations for molecules, such as ribbon, trace, stick, sphere and line. NDKmol also supports symmetry operations; biological assemblies and crystal packing can be displayed. You can search and download structures from RCSB PDB and NCBI Pubchem.
NDKmol has almost same functionality as GLmol, which is written in
== Features ==
* Read PDB or SDF/MOL file
* Rotate/Translate/Zoom model by finger
- Sphere(van der Waals radius)
- Alpha carbon trace
- Ribbon (Thin or Thick)
- B factor tube
- Nucleic acid ladder
- Nucleic acid line
- solvent 'stars'
* Smoothing of beta-sheets
- By chain
- By secondary structure(when defined in SHEET/HELIX records)
- By Elements
- Gradation (a.k.a chainbow)
- B factor
- Display unit cell
- Show crystal packing (when defined in REMARK section)
- Display biological assembly (when defined in REMARK section)
== How to Use ==
When launched, NDKmol automatically loads Porin (PDBID: 2POR) 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.
Everything else can be done from the MENU.
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 get source codes for this program from here.
Comments and suggestions are welcome at http://sourceforge.jp/projects/webglmol/forums/ or email@example.com
=== LICENSE notice ===
NDKmol itself is licensed under GNU Lesser General Public License as follows.
However, PDB files included as examples are under DIFFERENT conditions.
NDKmol - 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/>.
Do you want to see different molecules such as adrenaline, cocaine, amino acids and etc. with real 3D stereoscopic mode?
With "Molecule 3D" you can look at them with several 3D stereoscopic modes: Anaglyth, Side by Side and Mirror separated.
"Molecule 3D" helps you to understand space structure of complex molecules.
For Anaglyph stereoscopic mode you must have Anaglyph stereo glasses having red/green-blue color division.
Some people can see stereoscopic image without special glasses using Side by Side or Mirror separated mode.
You can simply open any file in PDB(protein Data Bank) format or choose some molecules in the available list and interact with it by simple standard touch control.
File browser shows files only with *.pdb, *.ent, *.txt extensions and only not empty directories.
Interleaved stereoscopic mode for HTC Evo 3D mobile phone is supported. It is automatically detected and added in stereo mode list.
Some basic control features:
- main menu is called by clicking on the title of the main window(where molecule is displayed) or by context menu;
- grouping, search are available by context menu in the "Molecule List" window.
Some available functions:
- Opening molecules from existing database list or from file in PDB or SDF format.
- Groupping, search and sorting are available by context menu in the "Molecule List" window.
- Show molecules in different stereo modes, view modes.
- Tuning of colors.
- Creating wallpaper, screenshots.
NOTE: ChemDoodle® Mobile is accessed with your ChemDoodle account that is provided to you for free when you purchase ChemDoodle desktop ( http://www.chemdoodle.com/buy-now ). You can use the Guest account to access this app without purchasing ChemDoodle, but you will not be able to save your drawings and some features may be restricted.
Full 3D graphics requires Android 5+, Lollipop.
Logging into your account enables the following:
1. IUPAC naming
2. Full 3D graphics (orthographic lines otherwise)
3. 1H NMR Spectra
4. Saving structures
Thank you for all the positive feedback! Please rate ChemDoodle Mobile 5 stars so we can continue to provide you with new and free features.
ChemDoodle Mobile is the Android companion to the popular chemical publishing desktop application, ChemDoodle. ChemDoodle Mobile is a calculator for drawn organic structures. There are five main windows: Draw, 3D, Calculate, Spectra and Help. The Draw window shows a typical ChemDoodle sketcher, where you can draw and store your structures. The 3D window allows you to view the drawn molecule in 3D. The Calculate page calculates properties and the Spectra page simulates NMR spectra. All spectra are interactive. The Help page contains a thorough help guide.
Please note that in the Android version, pinch gestures only work on platforms supporting Chrome for Android. Performance may vary depending on the Android device this app is run on. Recommended screen size of 320x480 pixels or greater.
1. IUPAC Name
2. Molecular Formula
3. Empirical Formula
4. Molecular Mass
5. Monoisotopic Mass
6. Degree of Unsaturation
7. Hydrogen Bond Acceptors
8. Hydrogen Bond Donors
9. Rotatable Bonds
10. Total Number of Electrons
11. Average Molecular Polarizability
12. Molar Refractivity
13. Polar Surface Area
14. van der Waals Volume
1. Mass Parent Peak (Isotopic Distribution)
2. 1H NMR
3. 13C NMR
As moléculas apresentadas podem ser manipuladas pelos usuários, permitindo a visualização por diferentes ângulos, assim como ampliar ou reduzir as estruturas, para que seja dado destaque em áreas de interesse. Cada molécula possui um texto explicativo.
Apoio: Sociedade Brasileria de Química (SBQ), INCT Energia e Ambiente e INCT Inomat
The app provides many 3D features including rotating model with finger movement, zooming in/out, changing color, etc. You can view multiple files together.
3D data files can be added to the app's external storage folder called 'afanche'. Just connect your phone (or tablet) with a PC and copy your 3D models to the 'afanche' folder of the device. After that, you can use the app to load the models you saved in the directory. If you have files in system 'download' folder of your device, the app can open them as well. You can also use the app to open files from email(attachment) or web (by downloading). The app also supports third party file management app, for instance, DropBox.
The app provides you file sorting features so that you can find your model quickly. You can sort by file name or file creation time. If you don't need some of the files any more, you can use the app to delete them. If you need share 3D model with your friend, coworker, client or partner, you can use in-app email feature to send your model out as email attachment.
The app is not just a data file viewer. It is also a 3D data file organizer. With its help, it is so easy to keep your 3D data and other files orgainzied. The app provides native support for multimedia including image, video and audio.
If you need Android, iPhone, iPad, Windows app for other 3D file formats, please search 'Afanche' to find more 3D oriented apps. Afanche Technologies is a company specialized in 3D technologies. Afanche provides customized 3D programming solutions for mobile, web and desktop. For more info, please contact us. Our email address is firstname.lastname@example.org
The app is built on top of jmol library. It supports the following molecule data format well:
MOL MDL / Elsevier / Symyx structure (classic version V2000)
PDB Protein Data Bank - Research Collaboratory for Structural Bioinformatics
XYZ XYZ format, XMol file - Minnesota Supercomputer Institute
CTFile MDL / Elsevier / Symyx chemical table (generic)
CIF Crystallographic Information File - standard from the International Union of Crystallography
CML Chemical Markup Language
CSF Fujitsu Cache chemical structure, now Fujitsu Sygress
HIN HIN / HIV files from HyperChem - Hypercube, Inc.
Jaguar Schrodinger, LLC
GRO Gromos87 format from GROMACS
PQR Modified pdb format including charge and radius
JME Java Molecular Editor - Peter Ertl
VASP VASP / VAMP / Vienna ab-initio simulation package
ADF ADF output - Amsterdam Density Functional
XSD Accelrys Materials Studio
WebMO WebMO interface to computational chemistry packages
CRYSTAL Output files from CRYSTAL, a computational tool for solid state chemistry and physics.
The app might also support the following format:V3000,SDF, MDL / Elsevier / Symyx structure (multiple models)
mmCIF Macromolecular Crystallographic Information File
XYZ+vib XYZ format with added vibrational vector information
XYZ-FAH XYZ format for Folding@home
MOL2 Sybyl, Tripos
Cube Gaussian, Inc.
Ghemical The Ghemical computational chemistry package
MM1GP Ghemical molecular mechanics file
MOLPRO Molpro output
odydata Odyssey data
xodydata Odyssey XML data
QOUT Q-Chem, Inc.
SMOL Spartan data - Wavefunction, Inc.
spinput Spartan data - Wavefunction, Inc.
Amber The Amber package of molecular simulation programs
CASTEP The CASTEP software package, uses density functional theory
DGrid Miroslav Kohout, Max-Planck Institute
Molden Electron density / molecular orbitals
Uncover real stucture of the things arround you.
How does sugar look inside on molecule level? And what about salt?
MEL Chemistry will show you structures of these and hundreds of other molecules including:
* Sulfuric acid
* Citric acid
* Hydrochloric acid
* Tin Chloride
* Sodium Carbonate
* Sodium Hydrosulfate
* Potassium Permanganate
* Calcium Hydroxide
* Thymol Blue
* ...and hundreds others
In addition constantly add new molecules to this list. If you want to see some molecules that are missed in the app contact us and we will try to add it.
1. Animation zu physikalisch- Chemischen Grundlagen
2. Der eigentliche 'Molekül-/ Salz- und Metall-Baukasten
3. Betrachter für schon 'fertige Moleküle"
Auch im Playstore:
Die Phone-Version: ★AK Minilabor Phone★
Die Tablet-Version: ★AK Minilabor Tab★
Zunächst kann man in einfachen Animationen die Wirkung von Ladungen und das Entstehen der unterschiedlichen Bindungstypen anschauen. Die entsprechenden Eigenschaften ergeben sich dabei fast automatisch.
Im wichtigen zweiten Teil muss man als 'Baumeister' durch Abgeben / Aufnehmen von Elektronen oder Bilden gemeinsamer Elektronenpaare Substanzen bauen, diese benennen und im 'Chemiker-Modus' auch noch die Eigenschaften der gebauten Substanzen vorhersagen.
Im letzten Teil lassen sich die 3D-Modelle mit Hilfe eines eingebauten Viewers durch Drehen auch in verschiedenen Perspektiven ansehen.
So kommt auf 'spielerische' Weise Ordnung in die komplizierte Welt der Salze, Gase, Dipole, Metalle, Ionenverbindungen, Flüssigkeiten, Edelgase, Feststoffe, polarisierten Moleküle etc.,
This app requires feedback from interested parties, from which further development can be started. If you have ideas for new features, please do not hesitate to contact me.
FIX: Version 2.1 includes a fix to allow legacy draft queries to be loaded, edited, deleted and sent.
Creating and Opening Documents
Saving and Sharing Documents
Working with Text
Indents and Tabs
Line and Paragraph Spacing
Headers, Footers, and Page Numbers
Working with Objects
Pictures and Text Wrapping
Text Boxes and WordArt
Reviewing Documents and Collaboration
Checking Spelling and Grammar
Track Changes and Comments
Finalizing and Protecting Documents
Doing More with Word
Customizing the Ribbon
Enabling Touch Mode
Embedding an Excel Chart
Editing PDF Files
The Periodic Table is where all life begins and ends - it’s useful for so many purposes, from your studies to general everyday tasks including medicinal purposes and referencing. Our latest application brings key information to your fingertips - from summaries of an element to the properties of it.
THE PERIODIC TABLE - AT YOUR FINGERTIPS.
The Periodic Table is useful in everyday life - have every element in your pocket and find out more from your fingertips.
THE ULTIMATE CHEMISTRY TOOL, IN YOUR POCKET.
Search for any element - find its properties and compare it to other elements on the fly - it’s easy, fast and free. Scroll through the elements to find the one you want or simply search for it. See the elements sorted by state at various temperatures, classifications or properties.
THE ULTIMATE EDUCATION APP FOR ANDROID.
Take a quiz or view a collection of Study Cards on a variety of topics - the Periodic Table app is perfect for revision and education purposes. With the Periodic Table for Android, the world is at your fingertips, literally.
The Periodic Table for Android - the ultimate chemistry tool, just a tap away.
- See all of the elements, their details, atomic structure, boiling point and so much more.
- Compare different elements and improve your productivity.
- Sort the elements by properties, classification or state, instantly.
- Search for any element.
- Use the built-in Study Cards for revision.
Featured Search Engines:
- Google Scholar
- Microsoft Academic Search
- Directory of Open Access journals (DOAJ)
- Astrophysics Data System
- Open J-Gate
This is a FREE application, with NO ASSOCIATION at all with any of these services and companies and no financial gain or support of any kind. All results will link directly to each Search Engine Website
Initial ribbons support (no sheets yet)
Check the server news for HOWTOs and explanations.
Contribute your molecules to the library (share button) and enter our contributor ranking!
Please report any problems via mail! :-)
### NEXT ###
Complete ribbons support
The Atomdroid app is a computational chemistry tool for the Android platform. It can be used as a molecular viewer/builder and contains local optimization and Monte Carlo simulation features. Install now and experience mobile computational chemistry!
List of features:
* molecular viewing (compatible with xyz and pdb files)
* trajectory analysis and viewing
* molecular building (export to xyz)
* PDB downloader (requires the Internet permission, downloads compressed pdb to save on your data plan)
* Atomdroid molecular libraries (requires the Internet permission)
* local optimization (L-BFGS and Powell algorithms)
* Monte Carlo simulation and analysis
* Global optimization using a Monte Carlo with minimizations approach
* Universal Force Field (UFF) implementation (currently without electrostatics)
* communication with other Atomdroid users via bluetooth and share your molecules (requires bluetooth permission, we are VERY cautious with using it)
Future versions will contain:
* more force field implementations (including analytical gradients)
* molecular dynamics engine
* and more...
The application is currently in beta state. Please report any bugs to email@example.com, we will be pleased to solve them quickly.
Support for Atomdroid molecular libraries: If you want to create your own library (e.g. for courses) let us know via mail and we provide you with the necessary tools and information free of charge!
Lennard Jones and Buckingham Simulation Engine
Create molecules from Cu, Au and Pt
Change thermodynamics properties
Experiment with the potential energy, finding stable geometries
Watch the process of melting and vaporizing
Stick and ball models of chemistry leave much to be desired. They easily reinforce misconceptions and they don’t provide learners with a sense of the dynamic movement and forces that are operating at the molecular scale.
Working with molecular dynamics simulation expert Dane Morgan, UW MRSEC education director Ann Lynn Gillian-Daniel and with the support of a MRSEC seed grant, MLI developed interactive 3-D simulation for mobile devices. The simulation was developed to help students understand the structures and attributes of particles at the molecular level, providing real-time feedback and responding to student’s actions.
Anne Lynn Gillian-Daniel (Education Lead)
Dane Morgan (Simulation Lead)
David Gagnon (Production Lead)
Tyler Anlauf (Art / UI / UX Design Lead)
Yucheng Tu (Unity Software Engineer Lead)
Justin Moeller (Software Engineer)
Ben Taylor (User Testing, Educational Design)
Izabela Szlufarska (MRSEC Inderdisciplinary Computational Group Lead)
Tam Mayesiba (Simulation Software Engineer)
Henry Wu (Simulation Software Engineer)
Amirhossein Davoody (Simulation Software Engineer)