є "Ш╬Ic@sКddlmZddlmZmZdZiZded Represents a residue. A Residue object stores atoms. cCs8d|_d|_||_||_tj||ГdS(NtRi(tlevelt disorderedtresnametsegidRt__init__(tselftidRR((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR s cCs;|jГ}|jГ\}}}||||f}d|S(Ns&(tget_resnametget_id(RRthetflagtresseqticodetfull_id((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyt__repr__"scCs╗|jГ}|jГ}||kr=t|jГ|jГГStj|ГrYt|}nd}tj|Гr{t|}nd}|rЪ|rЪt||ГS|rдdS|rоdSt||ГS(s┴Sort the Atom objects. Atoms are sorted alphabetically according to their name, but N, CA, C, O always come first. Arguments: o a1, a2 - Atom objects i iN(tget_nametcmpt get_altloct_atom_name_dictthas_keytNone(Rta1ta2tname1tname2tindex1tindex2((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyt_sort*s" cCsH|jГ}|j|Гr4td||fГВntj||ГdS(s}Add an Atom object. Checks for adding duplicate atoms, and raises a PDBConstructionException if so. s#Atom %s defined twice in residue %sN(Rthas_idRRtadd(Rtatomtatom_id((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR%Is cCs|jj|jГdS(N(t child_listtsortR#(R((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR)UscCs d|_dS(sSet the disordered flag.iN(R (R((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pytflag_disorderedXscCs|jS(s2Return 1 if the residue contains disordered atoms.(R (R((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyt is_disordered\scCs|jS(N(R(R((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR`scCsS|jГ}g}x:|D]2}|jГr>||jГ}q|j|ГqW|S(sI Returns the list of all atoms, unpack DisorderedAtoms." (tget_listR+tdisordered_get_listtappend(Rt atom_listtundisordered_atom_listR&((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pytget_unpacked_listcs cCs|jS(N(R(R((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyt get_segidps( t__name__t __module__t__doc__R RR#R%R)R*R+RR1R2(((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyRs tDisorderedResiduecBs;eZdZdДZdДZdДZdДZdДZRS(s┼ DisorderedResidue is a wrapper around two or more Residue objects. It is used to represent point mutations (e.g. there is a Ser 60 and a Cys 60 residue, each with 50 % occupancy). cCstj||ГdS(N(RR (RR((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR zscCs;|jГ}|jГ\}}}||||f}d|S(Ns0(RR(RRRRRR((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR}scCs||jГ}|jГdksk|jГ}|jГ\}}}|j|Гtd||||fГВn|j|ГdS(Nis2Blank altlocs in duplicate residue %s (%s, %i, %s)(tdisordered_getR+RRR%R(RR&tresidueRthetRR((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR%Гs cCs%x|jГD]}|jГq WdS(s,Sort the atoms in the child Residue objects.N(R-R)(RR8((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR)СscCsV|jГ}|jГ}|j|Г|j|Гs;tВ|||<|j|ГdS(spAdd a residue object and use its resname as key. Arguments: o residue - Residue object N(Rt get_parentt set_parenttdisordered_has_idtAssertionErrortdisordered_select(RR8Rtchain((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pytdisordered_addЦs (R3R4R5R RR%R)R@(((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyR6ts N(t PDBExceptionsRRRR5RRR6(((sВ/oak/stanford/groups/akundaje/marinovg/programs/biopython-1.50.tar.gz/biopython-1.50/build/lib.linux-x86_64-2.7/Bio/PDB/Residue.pyts _