| absLabelVisible |
Show (true) or hide (false) "Absolute" label |
false |
atomFont |
Atom symbol/label font: Serif, SansSerif or Monospaced |
SansSerif |
<a name="src-1802603-structuredisplayparameters-map"></a>atomMappingVisible |
Show (true) or hide (false) atom mapping |
true |
atomPropertiesVisible |
Show (true) or hide (false) atom properties |
true |
<a name="src-1802603-structuredisplayparameters-atom"></a>atomNumbersVisible |
Deprecated |
|
atomNumberingType |
Sets the type of atom numbering to Off (0), Atom numbers (1) or IUPAC numbering (2) |
0 |
<a name="src-1802603-structuredisplayparameters-vp"></a>valencePropertyVisible |
Show (true) or hide (false) valence properties |
true |
atomsize |
Atom symbol font size in C-C bond length units: atomsize 1.54 Å = atomsize scale pointsCan be given in pt ie.:msketch_param(\"atomsize\", \"16 pt\"); |
0.35714285714285715 (10pt) |
atomSymbolsVisible |
Show (true) or hide (false) atom symbols |
true |
automaticFogEnabled |
Deprecated. |
|
<a name="src-1802603-structuredisplayparameters-ball"></a>ballRadius |
Ball radius for ballstickrendering mode, in units of the covalent radius. |
0.5 |
boldBondWidth |
Width of bold bond in pt. |
6 |
bondLength |
Lenght of bond in pt. |
28 |
bondLengthVisible |
Show (true) or hide (false) bond length labels |
false |
bondSpacing |
Double bond spacing in C-C bond length units: spacing 1.54 Å = spacing scale pixels |
0.18 |
chargeWithCircle |
Charge label (plus or minus sign) is displayed circled(true) or normal(false) |
false |
chiralitySupport |
When to show atom chirality (R/S). off - never selected - if a chiral flag is set for the molecule or the atom's enhanced stereo type is absolute all - always allPossible - show all chiral centers and highlight possible but undefined centers too |
off |
circledChargeFont |
Circled charge labels font: any of the fonts installed on the machine Deprecated, will be removed by January 1st, 2016. |
SansSerif |
circledChargeSize |
Circled Charge labels font size in C-C bond length units: circledChargeSize 1.54 Å = circledChargeSize scale pointsDeprecated, will be removed by January 1st, 2016. |
0.4 |
<a name="src-1802603-structuredisplayparameters-color"></a>colorScheme |
Color scheme. mono - monochrome cpk - Corey-Pauling-Koltun * group - residue sequence numbers |
cpk |
<a name="src-1802603-structuredisplayparameters-down"></a>downWedge |
Wedge bond display convention. Down wedge points downward in MDL's convention (mdl), upward (at the chiral center) in Daylight (daylight). |
mdl |
explicitH |
Show (true) or hide (false) explicit hydrogens |
true |
ezVisible |
Show (true) or hide (false) E/Z labels |
false |
fogFactor |
Set the custom fog factor in a range from 0 to 100. The value 100 is for the strongest fog and 0 for the weakest (no) fog. |
66 |
<a name="src-1802603-structuredisplayparameters-grin"></a>grinvVisible |
Show (true) or hide (false) graph invariants (canonical labels) |
false |
<a name="src-1802603-structuredisplayparameters-ih"></a>implicitH |
How to display H labels. off hetero - on heteroatoms heteroterm - on hetero or terminal atoms all - all atoms |
heteroterm |
<a name="src-1802603-structuredisplayparameters-ligand"></a>ligandErrorVisible |
Show (true) or not (false) ligand error by coloring to red |
true |
<a name="src-1802603-structuredisplayparameters-lone"></a>lonePairsVisible |
Show (true) or hide (false) lone pairs |
false |
lonePairsAutoCalc |
Switch on (true) or off (false) automatic calculation of lone pairs. The lonePairsVisible parameter should be set to true to display the result of the automatic calculation. |
false |
maxscale |
Maximizes the magnification for autoscale to prevent overscaling of small molecules. It is usually set to 28, which is the scale factor for 100% magnification. |
|
peptideDisplayType |
Show peptide sequences with one letter or three-letter abbreviations. Valid values are "1-letter" and "3-letter" |
3-letter |
<a name="src-1802603-structuredisplayparameters-reaction"></a>reactionErrorVisible |
Deprecated. |
false |
<a name="src-1802603-structuredisplayparameters-render"></a>rendering |
Rendering style. wireframe - wireframe sticks - 3D sticks ballstick - ball & stick spacefill - balls |
wireframe |
rgroupsVisible |
Show (true) or hide (false) R-group definitions. |
true |
<a name="src-1802603-structuredisplayparameters-scale"></a>scale |
Magnification. A 1.54 Å long C-C bond is magnified to scale pixels. |
28 |
sketchAnyBond |
Display type of the Any bond in the sketcher: auto - displayed as a dashed line in most cases, solid line only when all bonds are generated from atom coordinates (e.g. XYZ and PDB files). dashed - displayed as a dashed line * solid - displayed as a solid line |
auto |
stickdst |
Stick distance of atoms in C-C bond length units. |
0.3 |
showSets |
Show the specified atom sets only. A comma-separated list of set sequence numbers (0, ..., 63). |
|
<a name="src-1802603-structuredisplayparameters-sk"></a>sketchCarbonVisibility |
Display the label of carbon atoms in structures. on - Always show the atom labels of carbon atoms. off - Never show the atom labels of carbon atoms. * inChain - Show the atom labels of carbon atoms at straight angles and implicit Hydrogens. |
inChain |
sketchLigandOrderVisibility |
Display the ligand order of R-group atoms in structures. on - Always show the ligand order of R-group atoms. off - Never show the ligand order of R-group atoms. * showOnlyWithDefinition - Show the ligand order of R-group atoms only on R-groups with a definition. |
off |
<a name="src-1802603-structuredisplayparameters-st"></a>stickThickness |
3D stick diameter for "sticks" and ballstickrendering modes, in Angstroms. |
0.1 |
<a name="src-1802603-structuredisplayparameters-valence"></a>valenceErrorVisible |
Highlight (by underlining) the labels of those atoms with valence errors. This option can also be set on the Edit / Preferences / MarvinSketch panel. true - display errors false - do not display errors |
true |
viewAnyBond |
Display type of the Any bond in the viewer: auto - displayed as a dashed line in most cases, solid line only when all bonds are generated from atom coordinates (e.g. XYZ and PDB files). dashed - displayed as a dashed line * solid - displayed as a solid line |
auto |
zeroBasedAtomIndexing |
Starts the atom indexing from zero instead of one: true - atom indexes are started from zero false - atom indexes are started from one |
false |
<a name="src-1802603-structuredisplayparameters-wire"></a>wireThickness |
Line thickness for wireframe and wireknobsrendering modes, in Angstroms. |
0.064 |