Attributes

Read attributes from structures

Atom ID

nodes.geometry.AtomID(index=0)

GUI reference: Atom ID.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.atom_id	`IntegerSocket`	The `atom_id` attribute, read from geometry. Corresponds to the order of the atoms when they were read from the file

Atom Name

nodes.geometry.AtomName(index=0)

Geometry Nodes doesn’t currently support text attributes, so strings like atom names have to be first converted to integers and mapping to atom names back and forth. Definitions for the atom names are available on the GitHub page

GUI reference: Atom Name.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.atom_name	`IntegerSocket`	The `atom_name` attribute read from the points, an integer representation of the atom names. Corresponds to `CA` and `O` in the file etc.

Atomic Number

nodes.geometry.AtomicNumber(index=0)

GUI reference: Atomic Number.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.atomic_number	`IntegerSocket`	Read the `atomic_number` attribute from the geometry corresponding to elements

B Factor

nodes.geometry.BFactor(index=0)

GUI reference: B Factor.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.b_factor	`FloatSocket`	b_factor

Chain ID

nodes.geometry.ChainID(index=0)

Integer representation of the Chain IDs that were present in the structure

GUI reference: Chain ID.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.chain_id	`IntegerSocket`	The `chain_id` attribute read from the points, corresponding to the different chains that were read from the structure

Color

nodes.geometry.Color(index=0)

GUI reference: Color.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.color	`ColorSocket`	Read the `Color` attribute from the geometry

Entity ID

nodes.geometry.EntityID(index=0)

The entity_id attribute read from the points, corresponding to the unique entities in the structure (that may appear several times as different chains)

GUI reference: Entity ID.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.entity_id	`IntegerSocket`	The `entity_id` attribute read from the points, corresponding to the unique entities in the structure (that may appear several times as different chains)

Frame ID

nodes.geometry.FrameID(index=0)

Read the frame_id attribute, created when multiple frames from a trajectory are merged into a single structure

GUI reference: Frame ID.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.frame_id	`IntegerSocket`	Read the `frame_id` attribute from the geometry

Mass

nodes.geometry.Mass(index=0)

GUI reference: Mass.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.mass	`FloatSocket`	Read the `mass` attribute from the geometry

Residue ID

nodes.geometry.ResidueID(index=0)

GUI reference: Residue ID.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.res_id	`IntegerSocket`	Read the `res_id` attribute from the geometry

Residue Name

nodes.geometry.ResidueName(index=0)

GUI reference: Residue Name.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.res_name	`IntegerSocket`	Read the `res_name` attribute from the geometry

Secondary Structure

nodes.geometry.SecondaryStructure(index=0)

GUI reference: Secondary Structure.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.sec_struct	`IntegerSocket`	sec_struct

URes ID

nodes.geometry.UResID(index=0)

GUI reference: URes ID.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.ures_id	`IntegerSocket`	ures_id
o.size	`IntegerSocket`	The total of all of the values in the corresponding group

VDW Radii

nodes.geometry.VDWRadii(index=0)

GUI reference: VDW Radii.

Parameters

Name	Type	Description	Default
index	`InputInteger`	Index	`0`

Inputs

Name	Type	Description
i.index	`IntegerSocket`	Index

Outputs

Name	Type	Description
o.vdw_radii	`FloatSocket`	Read the `vdw_radii` attribute from the geometry