Table 1. Web-servers and open-access tools released by the CMC

Aim 1 — Force Fields
General Automated Atomic Model Parameterization (GAAMP)	https://gaamp.lcrc.anl.gov/xsede.html
Force Field Toolkit (ffTK)	http://www.ks.uiuc.edu/Research/vmd/plugins/fftk/
PDB read CHARMM-GUI (spin labels, unnatural amino acids, etc)	http://www.charmm-gui.org/?doc=input/pdbreader
Protein-induced mechanical deformation of membranes. Continuum-Molecular Dynamics (CTMD) software	http://memprotein.org/?p=2601
Asymmetric ion concentration for membranes	To be inserted soon ???
Aim 2 — Multi-Resolution Structural Modeling
Molecular Dynamics Flexible Fitting Tutorial	http://www.ks.uiuc.edu/Training/Tutorials/science/mdff/tutorial_mdff-html/
Pseudoatom-driven solvent accessibility refinement (PaDSAR) Method from ESR data	http://memprotein.org/resources/tutorial-files-and-methods
Lanthanide-binding tag (LBT) conformational search web-server	http://memprotein.org/lbt-webserver
SNPS (Symmetric Nano-Positioning System) software	http://memprotein.org/snps
Aim 3 — Conformational Transition Pathways and Mechanisms
ANMPathway server	http://anmpathway.lcrc.anl.gov/anmpathway.cgi
Steered MD for reaction pathways	http://www.ks.uiuc.edu/Training/Tutorials/namd/namd-tutorial-unix-html/node16.html