
#######################################################
#                                                     #
#                        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 T0348TS102_4
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS102_4.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    -       -      A       3           -
LGA    -       -      K       4           -
LGA    -       -      F       5           -
LGA    -       -      L       6           -
LGA    -       -      E       7           -
LGA    -       -      I       8           -
LGA    -       -      L       9           -
LGA    -       -      V      10           -
LGA    -       -      C      11           -
LGA    -       -      P      12           -
LGA    -       -      L      13           -
LGA    -       -      C      14           -
LGA    -       -      K      15           -
LGA    -       -      G      16           -
LGA    -       -      P      17           -
LGA    -       -      L      18           -
LGA    -       -      V      19           -
LGA    -       -      F      20           -
LGA    -       -      D      21           -
LGA    -       -      K      22           -
LGA    -       -      S      23           -
LGA    -       -      K      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    -       -      L      27           -
LGA    -       -      I      28           -
LGA    -       -      C      29           -
LGA    -       -      K      30           -
LGA    -       -      G      31           -
LGA    -       -      D      32           -
LGA    -       -      R      33           -
LGA    -       -      L      34           -
LGA    -       -      A      35           -
LGA    -       -      F      36           -
LGA    -       -      P      37           -
LGA    -       -      I      38           -
LGA    -       -      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    -       -      M      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    -       -      E      47           -
LGA    -       -      S      48           -
LGA    -       -      E      49           -
LGA    -       -      A      50           -
LGA    -       -      R      51           -
LGA    -       -      E      52           -
LGA    -       -      L      53           -
LGA    H      64      A      54          0.506
LGA    H      65      P      55          0.913
LGA    H      66      E      56          0.816
LGA    H      67      E      57          0.481
LGA    H      68      E      58          0.927
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    -       -      E      62           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    5   61    5.0      5    0.75     0.00      8.197     0.585

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.936942 * X  +  -0.294551 * Y  +  -0.188091 * Z  + -13.608085
  Y_new =  -0.078359 * X  +  -0.701551 * Y  +   0.708298 * Z  +  60.873417
  Z_new =  -0.340586 * X  +  -0.648896 * Y  +  -0.680394 * Z  + 147.765549 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.379886    0.761707  [ DEG:  -136.3574     43.6426 ]
  Theta =   0.347540    2.794053  [ DEG:    19.9126    160.0874 ]
  Phi   =  -0.083439    3.058154  [ DEG:    -4.7807    175.2193 ]
 
# 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: T0348TS102_4                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS102_4.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    5   61   5.0    5   0.75    0.00   8.197
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS102_4
PFRMAT TS
TARGET T0348
MODEL 4
PARENT 1im4_A
ATOM      1  N   HIS    64      10.223  12.501  54.698  1.00  1.00
ATOM      2  CA  HIS    64      11.716  12.652  54.671  1.00  1.00
ATOM      3  C   HIS    64      12.445  11.539  55.405  1.00  1.00
ATOM      4  O   HIS    64      12.256  10.365  55.098  1.00  1.00
ATOM      5  CB  HIS    64      12.145  14.022  55.253  1.00  1.00
ATOM      6  N   HIS    65      13.268  11.928  56.375  1.00  1.00
ATOM      7  CA  HIS    65      14.086  11.019  57.182  1.00  1.00
ATOM      8  C   HIS    65      15.448  10.949  56.524  1.00  1.00
ATOM      9  O   HIS    65      16.243  10.025  56.748  1.00  1.00
ATOM     10  CB  HIS    65      13.451   9.633  57.285  1.00  1.00
ATOM     11  N   HIS    66      15.696  11.979  55.722  1.00  1.00
ATOM     12  CA  HIS    66      16.935  12.148  54.996  1.00  1.00
ATOM     13  C   HIS    66      17.281  13.641  54.910  1.00  1.00
ATOM     14  O   HIS    66      18.401  14.033  55.255  1.00  1.00
ATOM     15  CB  HIS    66      16.789  11.571  53.593  1.00  1.00
ATOM     16  N   HIS    67      16.321  14.465  54.462  1.00  1.00
ATOM     17  CA  HIS    67      16.495  15.932  54.308  1.00  1.00
ATOM     18  C   HIS    67      17.153  16.556  55.527  1.00  1.00
ATOM     19  O   HIS    67      17.604  17.710  55.492  1.00  1.00
ATOM     20  CB  HIS    67      15.147  16.622  54.066  1.00  1.00
ATOM     21  N   HIS    68      17.194  15.777  56.603  1.00  1.00
ATOM     22  CA  HIS    68      17.818  16.204  57.820  1.00  1.00
ATOM     23  C   HIS    68      18.637  15.102  58.538  1.00  1.00
ATOM     24  O   HIS    68      18.375  13.883  58.444  1.00  1.00
ATOM     25  CB  HIS    68      16.768  16.738  58.803  1.00  1.00
TER
END
