activate() | PResidue | |
ApplyRotamer() | PProteinResidue | |
ApplyRotamer(int index) | PProteinResidue | |
DetachBlocks(const string &blockType, const string &blockToDetachFrom) | PResidue | |
DOFCacher | PResidue | [friend] |
FindAnyCollision() const | PResidue | |
FindSelfCollision() const | PResidue | |
FindStaticCollision() const | PResidue | |
getAllCollidingEither() const | PResidue | |
getAllCollidingSelf() const | PResidue | |
getAllCollidingStatic() const | PResidue | |
getAtom(const string &id) | PResidue | [inline] |
getAtomPosition(const string &id) | PResidue | [inline] |
getAtoms() | PResidue | [inline] |
getBond(const string &id1, const string &id2) | PResidue | |
getChain() const | PResidue | |
GetChi(int index) | PProteinResidue | |
getDOF(const string &blockType, const string &atomId1, const string &atomId2) | PResidue | |
getDOFsForBlock(const string &blockType) | PResidue | |
getHeadBlock() | PResidue | [inline] |
getName() const | PResidue | [inline] |
getPdbId() const | PResidue | [inline] |
GetPhi() | PProteinResidue | |
getProtein() | PProteinResidue | [inline] |
GetPsi() | PProteinResidue | |
getResourceName() const | PResidue | [inline] |
getSpaceManager() const | PResidue | |
getSpec() | PResidue | |
getTailBlock() | PResidue | [inline] |
HASH_MAP_STR(PAtom *)*getAtomMap() | PResidue | [inline] |
inactivate() | PResidue | |
InAnyCollision() const | PResidue | |
InSelfCollision() const | PResidue | |
InStaticCollision() const | PResidue | |
NextResidue() | PProteinResidue | [inline] |
PResidue::NextResidue() const | PResidue | [inline] |
PChain class | PResidue | [friend] |
PProteinResidue(PProtein *loop, const string &shellName) | PProteinResidue | [inline] |
PProteinResidue(PProtein *loop, const string &shellName, PResidueSpec &spec) | PProteinResidue | [inline] |
PProteinResidue(PProtein *loop, const string &shellName, PResidue *toConnect) | PProteinResidue | [inline] |
PProteinResidue(PProtein *loop, const string &shellName, PResidueSpec &spec, PResidue *toConnect) | PProteinResidue | [inline] |
PResidue(PChain *loop, const string &shellName) | PResidue | |
PResidue(PChain *loop, const string &shellName, PResidueSpec &spec) | PResidue | |
PResidue(PChain *loop, const string &shellName, PResidue *toConnect) | PResidue | |
PResidue(PChain *loop, const string &shellName, PResidueSpec &spec, PResidue *toConnect) | PResidue | |
PreviousResidue() | PProteinResidue | [inline] |
PResidue::PreviousResidue() const | PResidue | [inline] |
RandomizeDOFs(const string &blockType, PChain *rootChain) | PResidue | |
RandomizeDOFs(const string &blockType) | PResidue | |
ReattachAllBlocks() | PResidue | |
ReattachBlocks(const string &blockType) | PResidue | |
ResetSideChain() | PProteinResidue | |
SaveSideChain() | PProteinResidue | |
SetChi(Real chi, int index) | PProteinResidue | |
setName(string name) | PResidue | [inline] |
SetPhi(Real phi) | PProteinResidue | |
setPositions(const PAtomPositionsSpec &spec) | PResidue | |
SetPsi(Real psi) | PProteinResidue | |
~PResidue() | PResidue | |