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Jmol mouse control
Jmol controls for 1-button (e.g. Macintosh), 2-button (e.g. Windows), 3-button (e.g. Linux) and 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 |
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Jmol measurements
- Distance between 2 atoms:
- double-click on the starting atom
- to fix a distance measurement, double-click on second atom
- 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 between 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
Jmol default colours
Elements: CPK colour scheme
Hover over any element to see more information (Atomic Number, Symbol, Element Name)
| 1 |
2 |
3 |
4 |
5 |
6 |
7 |
8 |
9 |
10 |
11 |
12 |
13 |
14 |
15 |
16 |
17 |
18 |
| H |
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He |
| Li |
Be |
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B |
C |
N |
O |
F |
Ne |
| Na |
Mg |
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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 |
Ds |
Rg |
Cn |
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| |
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* |
La |
Ce |
Pr |
Nd |
Pm |
Sm |
Eu |
Gd |
Tb |
Dy |
Ho |
Er |
Tm |
Yb |
Lu |
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** |
Ac |
Th |
Pa |
U |
Np |
Pu |
Am |
Cm |
Bk |
Cf |
Es |
Fm |
Md |
No |
Lr |
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Biological macromolecules
Primary structure
Amino acid residues: Amino colour scheme
| Ala
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Arg
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Asn
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Asp
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Cys
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Gln
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Glu
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Gly
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His
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Ile
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Leu
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Lys
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Met
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Phe
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Pro
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Ser
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Thr
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Trp
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Tyr
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Val
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Asx
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Glx
|
Xxx
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Amino acid residues: Shapely colour scheme
| Ala
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Arg
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Asn
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Asp
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Cys
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Gln
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Glu
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Gly
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His
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Ile
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Leu
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Lys
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Met
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Phe
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Pro
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Ser
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Thr
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Trp
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Tyr
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Val
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Asx
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Glx
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Xxx
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Nucleotide base residues: Shapely colour scheme
Secondary structure
Polypeptides, nucleic acids and carbohydrates
| α helix
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310 helix
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π helix
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β strand
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(β) turn
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other
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DNA
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RNA
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other
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carbohydrate
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other
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Tertiary structure
Polypeptides and nucleic acids
| N-terminal or 5’-
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C-terminal or 3’-
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More
For further information see:
Jmol
Jmol Wiki
Jmol Scripting Reference
