Jmol Help: Difference between revisions
From MoodleDocs
Line 210: | Line 210: | ||
== Jmol measurements == | == Jmol measurements == | ||
* Distance (2 atoms): | |||
# double-click on the starting atom | |||
# to fix a distance measurement, double-click on second atom</p> | |||
* Angle (3 atoms): | |||
# double-click on the starting atom | |||
# click on the second atom (central atom in angle) | |||
# to fix an angle measurement, double-click on third atom</p> | |||
* Torsion angle or dihedral (4 atoms) | |||
# double-click on the starting atom | |||
# click on the second atom | |||
# click on the third atom</p> | |||
# to fix a dihedral angle measurement, double-click on fourth atom | |||
* In all cases: | |||
* move pointer over destination atom in order to see measurement results without leaving a permanent measurement | |||
* move outside the window in order to cancel the measurement | |||
* make the same measurement again in order to delete the measurement | |||
==More== | ==More== | ||
For further information see: [[http://jmol.sourceforge.net http://jmol.sourceforge.net]] | For further information see: [[http://jmol.sourceforge.net http://jmol.sourceforge.net]] |
Revision as of 15:01, 30 March 2014
Help with using the Jmol_filter
Jmol default element colours
Hover over any element to see more information (Atomic Number, Symbol, Element Name)
H | He | ||||||||||||||||
Li | Be | B | C | N | O | F | Ne | ||||||||||
Na | Mg | Al | Si | P | S | Cl | Ar | ||||||||||
K | Ca | Sc | Ti | V | Cr | Mn | Fe | Co | Ni | Cu | Zn | Ga | Ge | As | Se | Br | Kr |
Rb | Sr | Y | Zr | Nb | Mo | Tc | Ru | Rh | Pd | Ag | Cd | In | Sn | Sb | Te | I | Xe |
Cs | Ba | * | Hf | Ta | W | Re | Os | Ir | Pt | Au | Hg | Tl | Pb | Bi | Po | At | Rn |
Fr | Ra | ** | Rf | Db | Sg | Bh | Hs | Mt | |||||||||
* | La | Ce | Pr | Nd | Pm | Sm | Eu | Gd | Tb | Dy | Ho | Er | Tm | Yb | Lu | ||
** | Ac | Th | Pa | U | Np | Pu | Am | Cm | Bk | Cf | Es | Fm | Md | No | Lr |
Jmol mouse control
Jmol controls for 1-button (e.g. Macintosh), 2-button (e.g. Windows), 3-button (e.g. Linux), or wheel mice.
Action | Main (left) button | Middle button | Secondary (right) button |
---|---|---|---|
Jmol menu | Click on Jmol logo or Ctrl + click |
Click | |
Rotate X,Y | Click & drag | ||
Translate X,Y | Shift + double-click & drag | Double-click & drag | Ctrl + click & drag |
Rotate Z | Shift + click & drag horizontally | Click & drag horizontally | Shift + click & drag horizontally |
Zoom | Shift + click & drag vertically | Click & drag vertically or mouse wheel |
|
Reset & centre | Shift + double-click (away from molecule) | Double-click (away from molecule) | |
Resize Jmol | Click & drag bottom-right corner |
Jmol measurements
- Distance (2 atoms):
# double-click on the starting atom
# to fix a distance measurement, double-click on second atom
- Angle (3 atoms):
# double-click on the starting atom # click on the second atom (central atom in angle)
# to fix an angle measurement, double-click on third atom
- Torsion angle or dihedral (4 atoms)
# double-click on the starting atom # click on the second atom
# click on the third atom
# to fix a dihedral angle measurement, double-click on fourth atom
- In all cases:
* move pointer over destination atom in order to see measurement results without leaving a permanent measurement * move outside the window in order to cancel the measurement * make the same measurement again in order to delete the measurement
More
For further information see: [http://jmol.sourceforge.net]