Difference between revisions of "Normal Mode Analysis of ARSA"
From Bioinformatikpedia
(→oGNM – Gaussian network model) |
(→All-atom NMA of 1BPT) |
||
| Line 192: | Line 192: | ||
|} |
|} |
||
| − | === |
+ | === NMA of 1BPT === |
{| border="1" style="text-align:center; border-spacing:0;" |
{| border="1" style="text-align:center; border-spacing:0;" |
||
| Line 202: | Line 202: | ||
|mode 11 |
|mode 11 |
||
|- |
|- |
||
| − | | ''600K'' |
+ | | ''600K (all-atom)'' |
|[[Image:nomadgr_arsa7.gif|200px]] |
|[[Image:nomadgr_arsa7.gif|200px]] |
||
|[[Image:nomadgr_arsa8.gif|200px]] |
|[[Image:nomadgr_arsa8.gif|200px]] |
||
| Line 209: | Line 209: | ||
|[[Image:nomadgr_arsal11.gif|200px]] |
|[[Image:nomadgr_arsal11.gif|200px]] |
||
|- |
|- |
||
| − | | ''2000K '' |
+ | | ''2000K (all-atom)'' |
|[[Image:nomadgr_arsa7_2000.gif|200px]] |
|[[Image:nomadgr_arsa7_2000.gif|200px]] |
||
|[[Image:nomadgr_arsa8_2000.gif|200px]] |
|[[Image:nomadgr_arsa8_2000.gif|200px]] |
||
| Line 215: | Line 215: | ||
|[[Image:nomadgr_arsal10_2000.gif|200px]] |
|[[Image:nomadgr_arsal10_2000.gif|200px]] |
||
|[[Image:nomadgr_arsal11_2000.gif|200px]] |
|[[Image:nomadgr_arsal11_2000.gif|200px]] |
||
| + | |- |
||
| + | | ''Elastic Network'' |
||
| + | |[[Image:nomad_1bpt7.gif|200px]] |
||
| + | |[[Image:nomad_1bpt8.gif|200px]] |
||
| + | |[[Image:nomad_1bpt9.gif|200px]] |
||
| + | |[[Image:nomad_1bpt10.gif|200px]] |
||
| + | |[[Image:nomad_1bpt11.gif|200px]] |
||
|- |
|- |
||
|} |
|} |
||
Revision as of 11:53, 26 July 2011
Contents
WEBnm@
We used | http://www.lcdf.org/gifsicle/ to generate the animated gifs:
gifsicle --delay=5 --loop --colors 256 *.gif > anim.gif
| Mode | Motion | Vecors | Displacement |
| mode 7 | 
|
|
|
| mode 8 | 
|
|
|
| mode 9 | 
|
|
|
| mode 10 | 
|
|
|
| mode 11 | 
|
|
|
| mode 12 | 
|
|
|
ElNemo
| Mode | Pymol animation | picture 1 from ElNemo | picture 2 from ElNemo | picture 3 from ElNemo | Fluctuations |
| Mode 7 | 
|
|
|
|
|
| Mode 8 | 
|
|
|
|
|
| Mode 9 | 
|
|
|
|
|
| Mode 10 | 
|
|
|
|
|
| Mode 11 | 
|
|
|
|
|
Anisotropic Network Model web server
for file in *.png; do convert "$file" "$(basename $file .png).gif";done
| mode 1 | mode 2 | mode 3 | mode 4 | mode 5 | |
| Motion | 
|
|
|
|
|
| Distance | 
|
|
|
|
|
| Fluctuations | 
|
|
|
|
|
oGNM – Gaussian network model
http://ignm.ccbb.pitt.edu/ognm/1960654514/temp/index.htm
| mode 7 | mode 8 | mode 9 | mode 10 | mode 11 | |
| Motion | 
|
|
|
|
|
| Fluctuations | 
|
|
|
|
|
NOMAD-Ref
NMA of ARSA
| mode 7 | mode 8 | mode 9 | mode 10 | mode 11 | |
| Motion | 
|
|
|
|
|
| Distance | 
|
|
|
|
|
NMA of 1BPT
| Temperature | mode | mode 8 | mode 9 | mode 10 | mode 11 |
| 600K (all-atom) | 
|
|
|
|
|
| 2000K (all-atom) | 
|
|
|
|
|
| Elastic Network | 
|
|
|
|
|
