Skip to main content
U.S. flag

An official website of the United States government

Here’s how you know

Official government website icon

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

icon-https

Secure .gov websites use HTTPS
A lock ( Lock Locked padlock icon )or https:// means you’ve safely connected to the .gov website. Share sensitive information only on official, secure websites.

NIH: National Institute of Diabetes and Digestive and Kidney Diseases NIH: National Institute of Diabetes and Digestive and Kidney Diseases

  next up previous contents index  Xplor-NIH home Documentation

Next: Example: Solvation of a Up: Generating the Molecular Structure Previous: Example: A Polypeptide Chain


Example: Water Molecules

This example shows how to set up 125 water molecules, assuming that the Tip3p water topology and parameters have been previously read:
 
segment 
   name="WAT" 
   chain
      molecule TIP3 number=125 end
   end
 end
A box with edge length 15.55 Å consisting of 125 equilibrated water molecules is supplied in one of the test case input files (file “tipstest1.inp" in the “test" directory).

Xplor-NIH 2025-03-21
  • Privacy Policy
  • Freedom of Information Act
  • Accessibility
  • Disclaimers
  • Copyright
  • Vulnerability Disclosure Policy
  • U.S. Department of Health and Human Services
  • National Institutes of Health