Exorga, Inc. - Consultants in Chemistry, Molecular Modeling, and the Environment


The new version of StruMM3D is (refreshed on 04/27/2017)

A chelated calcium ion, in the x-ray coordinate data, of JESXIO, flawed by coordinate data errors.

Find out about StruMM3D's molecular models, how you can generate them, and how you can use them in your daily tasks, presentations, reports and publications.

The StruMM3D (© Vernon. G. S. Box, Ph.D.) downloadable version, from version, is now unrestricted.

The auto-update feature is being tested from version The structure drawing/creation routine has been massively overhauled. StruMM3D now installs smoothly in all the Windows O/Ses, from windows 95 to 10. We extend special thanks to the dedicated users of StruMM3D that continue to help us find problems.

The downloadable version is the complete and fully capable version of the powerful StruMM3D molecular modeler, but the software is copyrighted, all rights are reserved. StruMM3D can handle up to 10000 atoms and lone pairs (5000 per structure). All queries and assistance must be obtained from Exorga, Inc. Contact us anytime.

StruMM3D_Setup_Files.Exe is a complete installation of StruMM3D that you can install as is described below. It creates a new folder, \Str3Di, that has all the bits and pieces necessary for an immediate use of the program, again, as is described below. This new installation mode now includes features that allow users, plagued by the Microsoft UAC bug, to run StruMM3D unimpeded, even with the UAC feature enabled at its most restrictive level.

New Features - On 09/16/16 the installations files were updated. An automatic chart feature has been added for energy changes in automated bond rotations and transition state manipulations. Copy any CIF file into the \Str3Di folder to change the start-up molecular display. The first CIF found is the first CIF used (no libraries, please).

Users of Str3Di32 -

Str3Di32 is no longer supported. We strongly recommend that you replace your installation with a new StruMM3D package.

New Users -

We must recommend that you do NOT try to install StruMM3D into the "Program Files (x86)" folder, found on drive C: of Windows 7 through 10. Instead, try to install StruMM3D into drive C:\, or any other drive than drive C:, or create a new folder in drive C:, like C:\MyPrograms or C:\Chemistry, and install StruMM3D there. Windows is increasingly denying write access to the "C:\Program Files" folders, and this is preventing many third-party programs from functioning properly.

Download the StruMM3D_Setup_Files.Exe file onto your desktop, or into some folder you can find easily, like C:\Temp. In Windows 7/8/8.1/10, very few non-system executables work well if not initiated by using the “Run as Administrator” option, so, now, right click on StruMM3D_Setup_Files.Exe, select “Run as Administrator”. When it asks where to put the files, instruct it to place the files into your selected drive, like C:\Temp, where you can find them easily.

The folder you selected to contain the setup files will contain a batch file named INSTALL.BAT. If you find Install.Bat and simply left_click on it, it will reveal it's usage mode, and that will enable you to select where to install the program.

Right_click on the Windows START button, open an admin command prompt window, and navigate to the folder with the setup files. At the command prompt, if you enter Install X: (note the space), this will install the StruMM3D program into X:\Str3Di. If you enter Install X: \AnyFolder (again, note the spaces) this will install the StruMM3D program into X:\AnyFolder\Str3Di. Just follow the prompts.

Use Windows Explorer to open the folder c:\programdata. You should see a sub-folder \str3di and in that folder a file str3didrive.dat. Use Notepad to open that file. The third line of that file should have the name of the folder into which you installed StruMM3D. So if you had used the command line, above, Install X: \MyChemistry, to install the StruMM3D program, then this should say X:\MyChemistry (Note that there is no space in this address). If it just says X:, or C:, then change it.

The newly created installation sub-folder X:\MyChemistry\Str3Di, or whatever, will contain all the files you need. One new bonus is the presence of the new file StruMM3DX.Bat in the \Str3Di folder. When you run StruMM3D and use the main menu's HELP sub menu to create the shortcuts you'll need on the desktop, one of these shortcuts will be for StruMM3DX, the other for StruMM3D. If you execute StruMM3D by clicking on the StruMM3DX shortcut then it will be unimpeded by the UAC screwup. You can also associate the StruMM3D files with StruMM3DX by executing, from a command window/prompt, the file assocstrx.bat.

Current users of StruMM3D -

You should download the StruMM3DUpd.Exe package only (updated 04/27/2017). This zip contains a generic copy of str3didrive.dat, new support program updates, and new additions to the StruMM3D working environment, including help with the command line options. Copy the StruMM3DUpd.Exe into the \Str3Di directory, and then click on, to unzip, the file. The destination/working directory MUST be \Str3Di. If you have any issues during the next execution of StruMM3D, then delete the old program environment data file, STR3DISPLAY, whatever the file extension.

There is a new file MakeStruMM3DTask.Bat that you should execute ONCE from a command prompt. This will install/eneble StruMM3DX to execute StruMM3D without interference from the UAC bug.

Click here to download StruMM3DUpd.Exe now (04/27/2017, the download size is about 1121 Kbytes). The StruMM3D.EXE program is about 1004 Kbytes.

Click here to download the Installation file – StruMM3D_Setup_Files.Exe (the download size is about 4650 Kbytes, and it includes all the files and DLLs needed to run StruMM3D, utilities, templates, WAV files, and others).

These self-extracting zipped files contain all the supporting programs for the StruMM3D program. All of the needed DLLs (that are normally supplied by the Windows OS but might be missing from your computer), the help file (program manual), many template molecular structure files, and other non-essential (but convenient) support files, are also included.

REMEMBER, if you have any installed version of STR3DI32 on your computer, this version is no longer supported and will not be compatible with the new features implemented in StruMM3D. Please ensure that you erase ALL of the old files in \Str3Di, but keep all the data files in their current folders, before installing StruMM3D and any new version of this software. If your installation is not in drive C:, then remember to ensure that the C:\ProgramData\Str3Di\Str3diDrive.Dat file is properly configured before the first execution of StruMM3D.

By now, most users of StruMM3D will know that the program will play various sound files, depending on the context. These sound files (in the WAV format) can be downloaded here. You can also make your own sound files, but they have to be in the WAV format, and you have to name them like ours, in order to get StruMM3D to recognize them.

Users of Windows Vista/7/8/8.1/10, will already have the required DLLs in their C:\Windows\System32 folder. Most computers will already have these DLLs in C:\WINDOWS\SYSTEM, C:\WINDOWS\SYSTEM32, or C:\WINNT\SYSTEM32. However, if you have the Windows Vista OS, or when you try to run StruMM3D you get an error message about a missing DLL, then download this VBRUN60SP6.EXE, copy it to your SYSTEM32 folder (see above) and unzip the file there. If you are only missing VB6 run-time files, these are available in the run-time library for VB6, vbrun60sp6.exe. Just download it and run/open it.

Click VBRUN60SP6.EXE to download the run-time files for VB6 (about 1005 K). Once you have thee file, just click on it and the VB6 run-time files will be installed into your computer. Users of Windows 7 or 8 should right click on the executable file and select “Run as Administrator”.

StruMM3D needs a file named Str3DiDrive.Dat, for its proper functioning. This file is included in all installation packages, and should have been installed into Drive C:\ProgramData\Str3Di after your first use of StruMM3D. If your installation tells you that it is missing, look for a duplicate in X:\Str3Di, where the program is installed. If this file is missing from X:\Str3Di then you can get a copy from StruMM3DUpd.Exe, above and place it in X:\Str3Di. Follow the instructions described above (New Users).

You are encouraged to place a shortcut to StruMM3D on your desktop. While executing, StruMM3D, click on HELP in the main menu, and then there is an option to place a shortcut onto your desktop. Do that. Otherwise, open Windows Explorer, navigate to the directory X:\ Str3Di, left-click on the file StruMM3D and create the shortcut. Drag the shortcut to the desktop.


When using StruMM3D you can save a graphic of the current image to the clipboard (there are three ways to do this within the program), and this simultaneously places that image, as a BMP file, into the current working directory. You can use this graphic in your publications/documents etc.. If you view the folder using Windows Explorer, you can see these thumbnails (Windows makes them from the BMP file, or any other graphics file in the folder, JPG, GIF) and these thumbnails show the molecules in glorious color.

So you would now have a visual/graphic display of all the processed molecules!

Now, StruMM3D allows you to right click on the thumbnail, select "open with" from the menu, direct the PC to use StruMM3D, and the molecular modeling of the selected structure begins. After the first run the process is easier.

Having a lot of high resolution BMP files on your drive takes up a lot of space, but you can convert them to smaller JPG or GIF files and StruMM3D will also use these files. We recommend using the program Convert in the ImageMagick Software package to convert your BMP files to JPG files. If you want StruMM3D to do this conversion for you, using ImageMagick's convert, write to us and we'll show you how.

If you have any trouble, with the installation, or the software, just send us an e-mail, to customer support, so that we can assist you.

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