pl.poznan.put.protein.Threonine Maven / Gradle / Ivy

Go to download
package pl.poznan.put.protein;

import org.immutables.value.Value;
import pl.poznan.put.atom.AtomName;
import pl.poznan.put.pdb.analysis.ResidueComponent;
import pl.poznan.put.torsion.TorsionAngleType;

import java.util.Collections;
import java.util.List;
import java.util.Set;
import java.util.stream.Collectors;
import java.util.stream.Stream;

@Value.Immutable(singleton = true)
abstract class Threonine implements Sidechain {
  @Override
  public final List moleculeComponents() {
    return Stream.of(ImmutableBackbone.of(), ImmutableThreonine.of())
        .collect(Collectors.toList());
  }

  @Override
  public final char oneLetterName() {
    return 'T';
  }

  @Override
  public final List aliases() {
    return Collections.singletonList("THR");
  }

  @Override
  public final List torsionAngleTypes() {
    return Stream.of(
            AminoAcidTorsionAngle.PHI.angleTypes().get(0),
            AminoAcidTorsionAngle.PSI.angleTypes().get(0),
            AminoAcidTorsionAngle.OMEGA.angleTypes().get(0),
            AminoAcidTorsionAngle.CALPHA.angleTypes().get(0),
            Chi1.getInstance(Chi1.THREONINE_ATOMS))
        .collect(Collectors.toList());
  }

  @Override
  public final Set requiredAtoms() {
    return Stream.of(
            AtomName.CB,
            AtomName.HB,
            AtomName.OG1,
            AtomName.HG1,
            AtomName.CG2,
            AtomName.HG21,
            AtomName.HG22,
            AtomName.HG23)
        .collect(Collectors.toSet());
  }
}