
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms    5 (   25),  selected    5 , name T0335TS102_4
# Molecule2: number of CA atoms   42 (  691),  selected   42 , name T0335.pdb
# PARAMETERS: T0335TS102_4.T0335.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      I       2           -
LGA    -       -      S       3           -
LGA    -       -      N       4           -
LGA    -       -      A       5           -
LGA    -       -      K       6           -
LGA    -       -      I       7           -
LGA    -       -      A       8           -
LGA    -       -      R       9           -
LGA    -       -      I      10           -
LGA    -       -      N      11           -
LGA    -       -      E      12           -
LGA    -       -      L      13           -
LGA    -       -      A      14           -
LGA    -       -      A      15           -
LGA    -       -      K      16           -
LGA    -       -      A      17           -
LGA    -       -      K      18           -
LGA    -       -      A      19           -
LGA    -       -      G      20           -
LGA    -       -      V      21           -
LGA    -       -      I      22           -
LGA    -       -      T      23           -
LGA    -       -      E      24           -
LGA    -       -      E      25           -
LGA    -       -      E      26           -
LGA    -       -      K      27           -
LGA    H      81      A      28          0.578
LGA    H      82      E      29          0.496
LGA    H      83      Q      30          0.674
LGA    H      84      Q      31          0.593
LGA    H      85      K      32          0.600
LGA    -       -      L      33           -
LGA    -       -      R      34           -
LGA    -       -      Q      35           -
LGA    -       -      E      36           -
LGA    -       -      Y      37           -
LGA    -       -      L      38           -
LGA    -       -      K      39           -
LGA    -       -      G      40           -
LGA    -       -      F      41           -
LGA    -       -      R      42           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    5   42    5.0      5    0.59     0.00     11.905     0.724

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.530701 * X  +  -0.843994 * Y  +  -0.077648 * Z  + 110.368851
  Y_new =  -0.238759 * X  +   0.060968 * Y  +   0.969163 * Z  + -10.652419
  Z_new =  -0.813234 * X  +   0.532875 * Y  +  -0.233867 * Z  +  13.504626 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.984363   -1.157230  [ DEG:   113.6956    -66.3044 ]
  Theta =   0.949688    2.191904  [ DEG:    54.4131    125.5869 ]
  Phi   =  -2.718827    0.422766  [ DEG:  -155.7773     24.2227 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0335TS102_4                                  
REMARK     2: T0335.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS102_4.T0335.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    5   42   5.0    5   0.59    0.00  11.905
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS102_4
PFRMAT TS
TARGET T0335
MODEL 4
PARENT 1im4_A
ATOM      1  N   HIS    81       4.091   4.686   7.262  1.00  1.00
ATOM      2  CA  HIS    81       3.808   4.171   5.882  1.00  1.00
ATOM      3  C   HIS    81       3.566   2.671   5.840  1.00  1.00
ATOM      4  O   HIS    81       2.691   2.163   6.536  1.00  1.00
ATOM      5  CB  HIS    81       4.954   4.536   4.907  1.00  1.00
ATOM      6  N   HIS    82       4.356   1.980   5.022  1.00  1.00
ATOM      7  CA  HIS    82       4.269   0.533   4.812  1.00  1.00
ATOM      8  C   HIS    82       3.396   0.316   3.594  1.00  1.00
ATOM      9  O   HIS    82       2.850  -0.772   3.359  1.00  1.00
ATOM     10  CB  HIS    82       3.696  -0.179   6.036  1.00  1.00
ATOM     11  N   HIS    83       3.308   1.388   2.815  1.00  1.00
ATOM     12  CA  HIS    83       2.548   1.423   1.585  1.00  1.00
ATOM     13  C   HIS    83       3.264   2.319   0.564  1.00  1.00
ATOM     14  O   HIS    83       3.498   1.890  -0.572  1.00  1.00
ATOM     15  CB  HIS    83       1.152   1.969   1.861  1.00  1.00
ATOM     16  N   HIS    84       3.616   3.548   0.971  1.00  1.00
ATOM     17  CA  HIS    84       4.303   4.541   0.107  1.00  1.00
ATOM     18  C   HIS    84       5.463   3.923  -0.655  1.00  1.00
ATOM     19  O   HIS    84       5.997   4.517  -1.602  1.00  1.00
ATOM     20  CB  HIS    84       4.829   5.719   0.937  1.00  1.00
ATOM     21  N   HIS    85       5.843   2.724  -0.223  1.00  1.00
ATOM     22  CA  HIS    85       6.895   1.991  -0.863  1.00  1.00
ATOM     23  C   HIS    85       6.626   0.470  -0.990  1.00  1.00
ATOM     24  O   HIS    85       5.909  -0.168  -0.189  1.00  1.00
ATOM     25  CB  HIS    85       8.218   2.183  -0.109  1.00  1.00
TER
END
