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Chain attributes#

Chain attributes are defined in the chain attribute space (short name: c), that matches only chain nodes.

Attributes inherited from the node attribute space:

Attribute name Short name Possible values Examples
hasMaterial hm true, false c.hm
not c.hm
hidden h true, false c.h
not c.h
name n strings in quotes c.n "A"
c.n "L*"
ownsMaterial om true, false c.om
selected true, false c.selected
not c.selected
selectionFlag sf true, false c.sf false
c.sf
visibilityFlag vf true, false c.vf false
c.vf
visible v true, false c.v
not c.v

Attributes inherited from the structuralGroup attribute space:

Attribute name Short name Possible values Examples
formalCharge fc integers c.fc > 1
c.fc 6:8
numberOfAtoms nat integers c.nat < 1000
c.nat 100:200
numberOfCarbons nC integers c.nC < 10
c.nC 10:20
numberOfHydrogens nH integers c.nH < 10
c.nH 10:20
numberOfNitrogens nN integers c.nN < 10
c.nN 10:20
numberOfOxygens nO integers c.nO < 10
c.nO 10:20
numberOfSulfurs nS integers c.nS < 10
c.nS 10:20
numberOfCoarseGrainedAtoms ncga integers c.ncga < 1000
c.ncga 100:200
partialCharge pc floats c.pc > 1.5
c.pc 1.5:2.0

Attributes specific to the chain attribute space:

Attribute name Short name Possible values Examples
chainID id integers c.id 1
c.id <= 3
c.id 2:4, 6
numberOfResidues nr integers c.nr > 130
c.nr 100:130
numberOfSegments ns integers c.ns < 3
c.ns 1:3
numberOfStructuralGroups nsg integers c.nsg > 10
c.nsg 10:13

chainID#

The chain.chainID attribute (short name: c.id) matches chains with specific chain ID.

Possible values: integers.

Examples:

  • chain.id 1 (short version: c.id 1): matches chains with chain ID equal to 1
  • chain.id 2:4, 6 (short version: c.id 2:4,6): matches chains with chain ID between 2 and 4 and with chain ID equal to 6

formalCharge#

Inherited from structuralGroup.formalCharge.

hasMaterial#

Inherited from node.hasMaterial.

hidden#

Inherited from node.hidden.

name#

Inherited from node.name.

numberOfAtoms#

Inherited from structuralGroup.numberOfAtoms.

numberOfCarbons#

Inherited from structuralGroup.numberOfCarbons.

numberOfCoarseGrainedAtoms#

Inherited from structuralGroup.numberOfCoarseGrainedAtoms.

numberOfHydrogens#

Inherited from structuralGroup.numberOfHydrogens.

numberOfNitrogens#

Inherited from structuralGroup.numberOfNitrogens.

numberOfOxygens#

Inherited from structuralGroup.numberOfOxygens.

numberOfResidues#

The chainnumberOfResidues attribute (short name: c.nr) matches chains with specific number of residues.

Possible values: integers.

Examples:

  • chain.numberOfResidues > 100 (short version: c.nr > 100): matches chains with the number of residues greater than 100
  • chain.numberOfResidues 100:120 (short version: c.nr 100:120): matches chains with the number of residues between 100 and 120

numberOfSegments#

The chain.numberOfSegments attribute (short name: c.ns) matches chains with specific number of segments.

Possible values: integers.

Examples:

  • chain.numberOfSegments > 2 (short version: c.ns > 2): matches chains with the number of segments greater than 2
  • chain.numberOfSegments 2:4 (short version: c.ns 2:4): matches chains with the number of segments between 2 and 4

numberOfStructuralGroups#

The chain.numberOfStructuralGroups attribute (short name: c.nsg) matches chains with specific number of structural groups.

Possible values: integers.

Examples:

  • chain.numberOfStructuralGroups > 10 (short version: c.nsg > 10): matches chains with the number of structural groups greater than 10
  • chain.numberOfStructuralGroups 10:12 (short version: c.nsg 10:12): matches chains with the number of structural groups between 10 and 12

numberOfSulfurs#

Inherited from structuralGroup.numberOfSulfurs.

ownsMaterial#

Inherited from node.ownsMaterial.

partialCharge#

Inherited from structuralGroup.partialCharge.

selected#

Inherited from node.selected, but without the short name s.

selectionFlag#

Inherited from node.selectionFlag.

visibilityFlag#

Inherited from node.visibilityFlag.

visible#

Inherited from node.visible.