Color
Set Color
Set the Color attribute on the point domain, based on the input Color field. The Selection field limits the setting of the color to the input Selection, with the unselected points keeping their current Color attribute
Outputs
| Description | Socket |
|---|---|
Atomic geometry with an updated Color attribute |
Atoms |
Inputs
| Socket | Default | Description |
|---|---|---|
Atoms |
None | Atomic geometry that contains vertices and edges |
Selection |
True | Selection of atoms to apply this node to |
Color |
[0.162, 0.624, 0.196, 1.0] | Color to apply to the selected atoms |
Color Chain_
Pick colors that are used for each chain_id that is present in the structure. The inputs can also accept fields to generate colors for that chain based on upstream field evaluation. This node is generated on a per-structure basis, so will only be useful for the corresponding structure.
Outputs
| Description | Socket |
|---|---|
The colors based on chain_id |
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Chain A |
[0.461, 0.6, 0.24, 1.0] | Color to set for Chain A |
Chain B |
[0.24, 0.6, 0.574, 1.0] | Color to set for Chain B |
... |
[0.6, 0.24, 0.467, 1.0] | Color to set for Chain … |
Color Segment_
Outputs
| Description | Socket |
|---|---|
The colors based on entity_id |
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Segment A |
[0.461, 0.6, 0.24, 1.0] | Color to set for Ligand B |
Segment B |
[0.24, 0.6, 0.574, 1.0] | Color to set for Ligand B |
... |
[0.6, 0.24, 0.467, 1.0] | Color to set for Ligand … |
Color Entity_
Choose the colors for the individual entities in the structure. If there are multiple copies of the same protein or molecule in the structure but in different conformations, it can helpt to color them based on their entity_id rather than individual chain_id values
Outputs
| Description | Socket |
|---|---|
The colors based on entity_id |
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Entity A |
[0.461, 0.6, 0.24, 1.0] | Color to set for Entity A |
Entity B |
[0.24, 0.6, 0.574, 1.0] | Color to set for Entity B |
... |
[0.6, 0.24, 0.467, 1.0] | Color to set for Entity … |
Color Ligand_
Choose the colors for individual ligands in the structure.
Outputs
| Description | Socket |
|---|---|
The colors based on entity_id |
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Ligand A |
[0.461, 0.6, 0.24, 1.0] | Color to set for Ligand B |
Ligand B |
[0.24, 0.6, 0.574, 1.0] | Color to set for Ligand B |
... |
[0.6, 0.24, 0.467, 1.0] | Color to set for Ligand … |
Color Element
Choose colors for the individual elements of the periodic table. The first 80 elements are listed, grouped into panels in chunks of 20 elements per panel for better organisation.
Outputs
| Description | Socket |
|---|---|
The selected colors based on the atomic_number |
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
H |
[1.0, 1.0, 1.0, 1.0] | Set the color for the element H |
He |
[0.851, 1.0, 1.0, 1.0] | Set the color for the element He |
Li |
[0.8, 0.502, 1.0, 1.0] | Set the color for the element Li |
Be |
[0.761, 1.0, 0.0, 1.0] | Set the color for the element Be |
B |
[1.0, 0.71, 0.71, 1.0] | Set the color for the element B |
C |
[0.565, 0.565, 0.565, 1.0] | Set the color for the element C |
N |
[0.188, 0.314, 0.973, 1.0] | Set the color for the element N |
O |
[1.0, 0.051, 0.051, 1.0] | Set the color for the element O |
F |
[0.565, 0.878, 0.314, 1.0] | Set the color for the element F |
Ne |
[0.702, 0.89, 0.961, 1.0] | Set the color for the element Ne |
Na |
[0.671, 0.361, 0.949, 1.0] | Set the color for the element Na |
Mg |
[0.541, 1.0, 0.0, 1.0] | Set the color for the element Mg |
Al |
[0.749, 0.651, 0.651, 1.0] | Set the color for the element Al |
Si |
[0.941, 0.784, 0.627, 1.0] | Set the color for the element Si |
P |
[1.0, 0.502, 0.0, 1.0] | Set the color for the element P |
S |
[1.0, 1.0, 0.188, 1.0] | Set the color for the element S |
Cl |
[0.122, 0.941, 0.122, 1.0] | Set the color for the element Cl |
Ar |
[0.502, 0.82, 0.89, 1.0] | Set the color for the element Ar |
K |
[0.561, 0.251, 0.831, 1.0] | Set the color for the element K |
Ca |
[0.239, 1.0, 0.0, 1.0] | Set the color for the element Ca |
Sc |
[0.902, 0.902, 0.902, 1.0] | Set the color for the element Sc |
Ti |
[0.749, 0.761, 0.78, 1.0] | Set the color for the element Ti |
V |
[0.651, 0.651, 0.671, 1.0] | Set the color for the element V |
Cr |
[0.541, 0.6, 0.78, 1.0] | Set the color for the element Cr |
Mn |
[0.612, 0.478, 0.78, 1.0] | Set the color for the element Mn |
Fe |
[0.878, 0.4, 0.2, 1.0] | Set the color for the element Fe |
Co |
[1.0, 0.851, 0.561, 1.0] | Set the color for the element Co |
Ni |
[0.78, 0.541, 0.541, 1.0] | Set the color for the element Ni |
Cu |
[0.784, 0.502, 0.2, 1.0] | Set the color for the element Cu |
Zn |
[0.49, 0.502, 0.69, 1.0] | Set the color for the element Zn |
Ga |
[0.761, 0.561, 0.561, 1.0] | Set the color for the element Ga |
Ge |
[0.4, 0.561, 0.561, 1.0] | Set the color for the element Ge |
As |
[0.741, 0.502, 0.89, 1.0] | Set the color for the element As |
Se |
[1.0, 0.631, 0.0, 1.0] | Set the color for the element Se |
Br |
[0.651, 0.161, 0.161, 1.0] | Set the color for the element Br |
Kr |
[0.361, 0.722, 0.82, 1.0] | Set the color for the element Kr |
Rb |
[0.439, 0.18, 0.69, 1.0] | Set the color for the element Rb |
Sr |
[0.0, 1.0, 0.0, 1.0] | Set the color for the element Sr |
Y |
[0.58, 1.0, 1.0, 1.0] | Set the color for the element Y |
Zr |
[0.58, 0.878, 0.878, 1.0] | Set the color for the element Zr |
Nb |
[0.451, 0.761, 0.788, 1.0] | Set the color for the element Nb |
Mo |
[0.329, 0.71, 0.71, 1.0] | Set the color for the element Mo |
Tc |
[0.231, 0.62, 0.62, 1.0] | Set the color for the element Tc |
Ru |
[0.141, 0.49, 0.49, 1.0] | Set the color for the element Ru |
Rh |
[0.039, 0.49, 0.549, 1.0] | Set the color for the element Rh |
Pd |
[0.0, 0.412, 0.522, 1.0] | Set the color for the element Pd |
Ag |
[0.753, 0.753, 0.753, 1.0] | Set the color for the element Ag |
Cd |
[1.0, 0.851, 0.561, 1.0] | Set the color for the element Cd |
In |
[0.651, 0.459, 0.451, 1.0] | Set the color for the element In |
Sn |
[0.4, 0.502, 0.502, 1.0] | Set the color for the element Sn |
Sb |
[0.62, 0.388, 0.71, 1.0] | Set the color for the element Sb |
Te |
[0.831, 0.478, 0.0, 1.0] | Set the color for the element Te |
I |
[0.58, 0.0, 0.58, 1.0] | Set the color for the element I |
Xe |
[0.259, 0.62, 0.69, 1.0] | Set the color for the element Xe |
Cs |
[0.341, 0.09, 0.561, 1.0] | Set the color for the element Cs |
Ba |
[0.0, 0.788, 0.0, 1.0] | Set the color for the element Ba |
La |
[0.439, 0.831, 1.0, 1.0] | Set the color for the element La |
Ce |
[1.0, 1.0, 0.78, 1.0] | Set the color for the element Ce |
Pr |
[0.851, 1.0, 0.78, 1.0] | Set the color for the element Pr |
Nd |
[0.78, 1.0, 0.78, 1.0] | Set the color for the element Nd |
Pm |
[0.639, 1.0, 0.78, 1.0] | Set the color for the element Pm |
Sm |
[0.561, 1.0, 0.78, 1.0] | Set the color for the element Sm |
Eu |
[0.38, 1.0, 0.78, 1.0] | Set the color for the element Eu |
Gd |
[0.271, 1.0, 0.78, 1.0] | Set the color for the element Gd |
Tb |
[0.188, 1.0, 0.78, 1.0] | Set the color for the element Tb |
Dy |
[0.122, 1.0, 0.78, 1.0] | Set the color for the element Dy |
Ho |
[0.0, 1.0, 0.612, 1.0] | Set the color for the element Ho |
Er |
[0.0, 0.902, 0.459, 1.0] | Set the color for the element Er |
Tm |
[0.0, 0.831, 0.322, 1.0] | Set the color for the element Tm |
Yb |
[0.0, 0.749, 0.22, 1.0] | Set the color for the element Yb |
Lu |
[0.0, 0.671, 0.141, 1.0] | Set the color for the element Lu |
Hf |
[0.302, 0.761, 1.0, 1.0] | Set the color for the element Hf |
Ta |
[0.302, 0.651, 1.0, 1.0] | Set the color for the element Ta |
W |
[0.129, 0.58, 0.839, 1.0] | Set the color for the element W |
Re |
[0.149, 0.49, 0.671, 1.0] | Set the color for the element Re |
Os |
[0.149, 0.4, 0.588, 1.0] | Set the color for the element Os |
Ir |
[0.09, 0.329, 0.529, 1.0] | Set the color for the element Ir |
Pt |
[0.816, 0.816, 0.878, 1.0] | Set the color for the element Pt |
Au |
[1.0, 0.82, 0.137, 1.0] | Set the color for the element Au |
Hg |
[0.722, 0.722, 0.816, 1.0] | Set the color for the element Hg |
Color Atomic Number
Choose the color for an individual atomic_number. Useful for joining with fields and selecting individual elements for coloring
Outputs
| Description | Socket |
|---|---|
| The generated color based on the node inputs | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
atomic_number |
6 | The atomic_number of to use the selected color for |
Color |
[0.8, 0.8, 0.8, 1.0] | The color to use for the specified atomic_number |
Color Res Name
Choose colors for the individual amino acid and nucleic acid residues
Outputs
| Description | Socket |
|---|---|
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
ALA |
[0.0, 0.0, 0.0, 1.0] | Set the color for the residue ALA |
ARG |
[0.095, 0.095, 0.095, 1.0] | Set the color for the residue ARG |
ASN |
[0.114, 0.22, 0.185, 1.0] | Set the color for the residue ASN |
ASP |
[0.141, 0.337, 0.429, 1.0] | Set the color for the residue ASP |
CYS |
[0.281, 0.151, 0.106, 1.0] | Set the color for the residue CYS |
GLU |
[0.202, 0.202, 0.202, 1.0] | Set the color for the residue GLU |
GLN |
[0.128, 0.205, 0.8, 1.0] | Set the color for the residue GLN |
GLY |
[0.8, 0.069, 0.068, 1.0] | Set the color for the residue GLY |
HIS |
[0.184, 0.761, 0.341, 1.0] | Set the color for the residue HIS |
ILE |
[0.091, 0.627, 0.129, 1.0] | Set the color for the residue ILE |
LEU |
[0.037, 0.17, 0.411, 1.0] | Set the color for the residue LEU |
LYS |
[0.052, 0.052, 0.052, 1.0] | Set the color for the residue LYS |
MET |
[0.528, 0.452, 0.498, 1.0] | Set the color for the residue MET |
PHE |
[0.359, 0.305, 0.094, 1.0] | Set the color for the residue PHE |
PRO |
[0.8, 0.172, 0.525, 1.0] | Set the color for the residue PRO |
SER |
[0.8, 0.722, 0.052, 1.0] | Set the color for the residue SER |
THR |
[0.106, 1.0, 0.116, 1.0] | Set the color for the residue THR |
TRP |
[0.528, 0.137, 0.411, 1.0] | Set the color for the residue TRP |
TYR |
[0.086, 0.365, 0.638, 1.0] | Set the color for the residue TYR |
VAL |
[0.069, 0.152, 0.56, 1.0] | Set the color for the residue VAL |
A |
[0.274, 0.548, 0.8, 1.0] | Set the color for the residue A |
C |
[0.295, 0.8, 0.188, 1.0] | Set the color for the residue C |
G |
[0.85, 0.251, 0.178, 1.0] | Set the color for the residue G |
T |
[0.8, 0.27, 0.527, 1.0] | Set the color for the residue T |
rA |
[0.274, 0.548, 0.8, 1.0] | Set the color for the residue rA |
rC |
[0.295, 0.8, 0.188, 1.0] | Set the color for the residue rC |
rG |
[0.85, 0.251, 0.178, 1.0] | Set the color for the residue rG |
rU |
[0.8, 0.27, 0.527, 1.0] | Set the color for the residue rU |
Color Common
For convenience, choose colors for the common 6 elements found protein structures
Outputs
| Description | Socket |
|---|---|
| The output colors for the common elements | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Hydrogen |
[1.0, 1.0, 1.0, 1.0] | Color to set for the element Hydrogen |
Carbon |
[0.202, 0.202, 0.202, 1.0] | Color to set for the element Carbon |
Nitrogen |
[0.16, 0.233, 0.8, 1.0] | Color to set for the element Nitrogen |
Oxygen |
[0.8, 0.161, 0.16, 1.0] | Color to set for the element Oxygen |
Phosphorous |
[0.8, 0.172, 0.525, 1.0] | Color to set for the element Phosphorous |
Sulfur |
[0.8, 0.722, 0.052, 1.0] | Color to set for the element Sulfur |
Color Goodsell
Darken the color of non-carbon atoms, a similar strategy to the style developed by David Goodsell
Outputs
| Description | Socket |
|---|---|
| The generated color based on the node inputs | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Invert |
False | Whether to invert the darkening of the colors |
Factor |
0.5 | Amount to apply the ‘Goodsell Style’ coloring to |
Color |
[0.5, 0.5, 0.5, 1.0] | Color to apply ‘Goodsell’ style colors to |
Color Rainbow
Output a rainbow color spectrum along the structure. The rainbow can be generated along each chain in the structure, or along the entire structure. You can offset the strat of the rainbow and chain the color & satuation of the generated colors
Outputs
| Description | Socket |
|---|---|
| The generated color | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Factor |
Chain | |
Color Space |
HSV | |
Offset |
0.0 | Offset the starting hue of the rainbow colors. HSV is 0-1 for the entire rainbow, OKLab is -Pi to Pi for the rainbow. |
HSL Saturation |
0.8 | The Saturation value of the rainbow colors |
HSL Value |
0.8 | The Value value of the resulting rainbow colors |
OKLab Luminance |
0.94 | |
OKLab Chroma |
0.2 |
Color Attribute Map
Map a value to interpolate between two colors, optionally using an intermediate color. User can specify the Attribute Name that is used for the inerpolation, specifying the start and end values of the interpolation
Outputs
| Description | Socket |
|---|---|
| The mapped color value based on the attribute. | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Color Space |
Linear | |
Name |
b_factor | Name of the attribute to map colors to |
Min |
0.0 | Value for the attribute to be the minimum color |
Max |
150.0 | Value for the attribute to be the maxium color |
Intermediate |
True | Wheter to interpolate through the ‘Mid’ color. |
A |
[0.077, 0.479, 0.5, 1.0] | Color mapped to the minimum value of the attribute |
Intermediate |
[0.5, 0.5, 0.5, 1.0] | Color mapped to the middle value of the attribute |
B |
[0.5, 0.159, 0.058, 1.0] | Color mapped to the maximum value of the attribute |
Color Attribute Random
Generate a random color, based on the given attribute. Control the lightness and saturation of the color with the inputs.
Outputs
| Description | Socket |
|---|---|
| The randomly generated color based on the input attribute | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Name |
chain_id | Attribute to base the random color generation on |
Colorspace |
HSL | |
Color Seed |
0 | Seed value for the random generation of the colors |
OKLab Luminance |
0.9 | |
OKLab Chroma |
0.2 | |
HSL Saturation |
0.6 | Saturlation level for the random color |
HSL Lightness |
0.6 | Lightness value for the generated random color |
Color pLDDT
Uses the b_factor attribute to assign the typical AlphaFold pLDDT color palette. Node is automatically used when fetching directly from the AlphaFold database
Outputs
| Description | Socket |
|---|---|
| Assigned color based on the pLDTT score | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
<50 |
[1.0, 0.205, 0.06, 1.0] | Color for pLDTT < 50 |
<70 |
[1.0, 0.708, 0.007, 1.0] | Color for 50 < pLDTT < 70 |
<90 |
[0.13, 0.597, 0.896, 1.0] | Color for 70 < pLDTT < 90 |
>90 |
[0.0, 0.086, 0.672, 1.0] | Color for 90 < pLDTT |
Color Backbone
Select colors for atoms that are part of the backbone or the side chain of a peptide or nucleic acid polymer. Atoms that are neither maintain their current Color attribute
Outputs
| Description | Socket |
|---|---|
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Backbone |
[0.469, 0.24, 0.6, 1.0] | |
Side Chain |
[0.526, 0.6, 0.24, 1.0] |
Color Sec Struct
Choose a color for the different secondary structures, based on the sec_struct attribute.
Outputs
| Description | Socket |
|---|---|
| The colors based on secondary structure | Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Alpha Helix |
[0.162, 0.624, 0.195, 1.0] | Color to set for alpha helices |
Beta Sheet |
[1.0, 0.15, 0.15, 1.0] | Color to set for beta-sheets |
Loop |
[0.171, 0.366, 0.799, 1.0] | Color to set for loops in the structure |
Color Mix Intermediate
Mix between two colors, potentially via an intermediate color. Use either linear or OKLab color spaces
Outputs
| Description | Socket |
|---|---|
Output |
Inputs
| Socket | Default | Description |
|---|---|---|
Factor |
0.5 | |
Menu |
Linear | |
Intermediate |
False | |
A |
[0.077, 0.479, 0.5, 1.0] | |
Intermediate |
[0.5, 0.5, 0.5, 1.0] | |
B |
[0.5, 0.159, 0.058, 1.0] |
Color OKLab Mix
Mix two colors together using the OKLab color space. The first color is the base color, and the second color is the color to mix in. The mix is done in the OKLab color space, and then converted back to linear RGB color space.
Outputs
| Description | Socket |
|---|---|
Result |
Inputs
| Socket | Default | Description |
|---|---|---|
Factor |
0.5 | |
A |
[0.051, 0.368, 0.701, 1.0] | |
B |
[0.696, 0.043, 0.039, 1.0] |
Color OKLab Offset
Offset a color’s luminance or hue in the OKLab color space. The offset is applied to the luminance or hue of the color.
Outputs
| Description | Socket |
|---|---|
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
Color |
[0.08, 1.0, 0.256, 1.0] | |
Luminance |
0.0 | |
Hue |
0.0 |
Color to OKLab
Convert linear RGB color to OKLab color space. This is useful for converting a color to a color that is perceptually uniform.
Outputs
| Description | Socket |
|---|---|
OKLab |
Inputs
| Socket | Default | Description |
|---|---|---|
Color |
[0.0, 0.0, 0.0, 1.0] |
OKLab to Color
Convert OKLab color to linear RGB color.
Outputs
| Description | Socket |
|---|---|
Color |
Inputs
| Socket | Default | Description |
|---|---|---|
OKLab |
[0.0, 0.0, 0.0] |
OKLab to LCh
Convert OKLab color to LCh color space. This is useful for converting a color to a color that is perceptually uniform.
Outputs
| Description | Socket |
|---|---|
L |
|
C |
|
h |
Inputs
| Socket | Default | Description |
|---|---|---|
OKLab |
[0.0, 0.0, 0.0] |
LCh to OKLab
Convert LCh color to OKLab color space. This is useful for converting a color to a color that is perceptually uniform.
Outputs
| Description | Socket |
|---|---|
OKLab |
Inputs
| Socket | Default | Description |
|---|---|---|
L |
0.0 | |
C |
0.0 | |
h |
0.0 |
OKLab Offset LCh
Offset the lightness and chroma of an OKLab color. It is first converted to LCh color space, then the lightness and chroma are offset, then converted back to OKLab color space.
Outputs
| Description | Socket |
|---|---|
OKLab |
Inputs
| Socket | Default | Description |
|---|---|---|
OKLab |
[0.64, 0.0, 0.0] | |
L |
0.0 | |
h |
0.0 |