
#######################################################
#                                                     #
#                        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   97 (   97),  selected   97 , name T0360TS393_4-D1
# Molecule2: number of CA atoms   97 (  785),  selected   97 , name T0360_D1.pdb
# PARAMETERS: T0360TS393_4-D1.T0360_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    K      20      K      20           -
LGA    K      21      K      21           -
LGA    K      22      K      22           -
LGA    Q      23      Q      23           -
LGA    T      24      T      24           -
LGA    E      25      E      25           -
LGA    -       -      M      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      D      29           -
LGA    M      26      H      30           #
LGA    I      27      I      31           #
LGA    A      28      Y      32           #
LGA    D      29      G      33          4.919
LGA    H      30      K      34          2.931
LGA    I      31      Y      35          4.414
LGA    Y      32      -       -           -
LGA    G      33      -       -           -
LGA    K      34      -       -           -
LGA    Y      35      -       -           -
LGA    D      36      -       -           -
LGA    V      37      -       -           -
LGA    F      38      -       -           -
LGA    K      39      D      36           #
LGA    R      40      V      37           -
LGA    F      41      F      38           -
LGA    K      42      K      39           -
LGA    -       -      R      40           -
LGA    -       -      F      41           -
LGA    -       -      K      42           -
LGA    -       -      P      43           -
LGA    -       -      L      44           -
LGA    P      43      A      45           #
LGA    L      44      L      46           -
LGA    A      45      -       -           -
LGA    L      46      -       -           -
LGA    G      47      G      47           #
LGA    I      48      I      48          2.216
LGA    D      49      -       -           -
LGA    Q      50      D      49          1.714
LGA    D      51      Q      50          0.676
LGA    L      52      D      51          2.680
LGA    I      53      L      52          3.239
LGA    A      54      I      53          3.036
LGA    A      55      A      54          4.085
LGA    L      56      A      55           -
LGA    P      57      L      56           -
LGA    Q      58      P      57           #
LGA    Y      59      Q      58          2.629
LGA    D      60      Y      59          2.297
LGA    A      61      D      60          2.751
LGA    -       -      A      61           -
LGA    A      62      A      62          1.759
LGA    L      63      L      63          1.819
LGA    I      64      I      64          1.509
LGA    A      65      A      65          1.240
LGA    R      66      R      66          1.276
LGA    V      67      V      67          1.324
LGA    L      68      L      68          1.255
LGA    A      69      A      69          1.721
LGA    N      70      N      70          2.090
LGA    H      71      H      71          2.065
LGA    C      72      C      72          2.296
LGA    R      73      R      73          2.401
LGA    R      74      R      74          2.775
LGA    -       -      P      75           -
LGA    P      75      R      76          4.880
LGA    R      76      Y      77          4.173
LGA    Y      77      L      78          2.135
LGA    L      78      K      79          1.432
LGA    K      79      A      80          3.561
LGA    A      80      L      81           #
LGA    L      81      -       -           -
LGA    A      82      A      82           #
LGA    R      83      R      83          3.386
LGA    G      84      G      84           #
LGA    G      85      -       -           -
LGA    K      86      -       -           -
LGA    R      87      -       -           -
LGA    F      88      -       -           -
LGA    D      89      -       -           -
LGA    L      90      -       -           -
LGA    N      91      -       -           -
LGA    N      92      -       -           -
LGA    R      93      -       -           -
LGA    F      94      -       -           -
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    E      97      -       -           -
LGA    V      98      -       -           -
LGA    T      99      G      85           #
LGA    P     100      K      86           -
LGA    -       -      R      87           -
LGA    -       -      F      88           -
LGA    -       -      D      89           -
LGA    -       -      L      90           -
LGA    -       -      N      91           -
LGA    -       -      N      92           -
LGA    -       -      R      93           -
LGA    -       -      F      94           -
LGA    -       -      K      95           -
LGA    -       -      G      96           -
LGA    -       -      E      97           -
LGA    E     101      V      98          4.268
LGA    E     102      T      99          5.152
LGA    Q     103      P     100          5.005
LGA    A     104      E     101          1.883
LGA    I     105      E     102          1.950
LGA    -       -      Q     103           -
LGA    A     106      A     104           #
LGA    Q     107      I     105          2.269
LGA    N     108      A     106           #
LGA    -       -      Q     107           -
LGA    H     109      N     108          3.685
LGA    P     110      H     109          4.747
LGA    F     111      P     110           -
LGA    V     112      F     111           -
LGA    Q     113      V     112           -
LGA    Q     114      Q     113           -
LGA    A     115      Q     114           -
LGA    L     116      A     115           -
LGA    -       -      L     116           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   97    5.0     40    3.00    40.00     28.523     1.291

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.614424 * X  +  -0.066019 * Y  +   0.786209 * Z  + -72.709221
  Y_new =   0.325367 * X  +   0.886610 * Y  +   0.328725 * Z  +   3.316488
  Z_new =  -0.718763 * X  +   0.457783 * Y  +  -0.523274 * Z  + -17.802366 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.422851   -0.718741  [ DEG:   138.8192    -41.1808 ]
  Theta =   0.802021    2.339572  [ DEG:    45.9524    134.0476 ]
  Phi   =   2.654588   -0.487005  [ DEG:   152.0967    -27.9033 ]
 
# 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: T0360TS393_4-D1                               
REMARK     2: T0360_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0360TS393_4-D1.T0360_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   97   97   5.0   40   3.00   40.00  28.523
REMARK  ---------------------------------------------------------- 
MOLECULE T0360TS393_4-D1
PFRMAT TS
TARGET T0360
MODEL 4
PARENT N/A
ATOM     20  CA  LYS    20     -71.267  -6.918   0.344  1.00 25.00           C
ATOM     21  CA  LYS    21     -71.842 -10.684  -0.037  1.00 25.00           C
ATOM     22  CA  LYS    22     -75.591 -10.085  -0.543  1.00 25.00           C
ATOM     23  CA  GLN    23     -74.835  -7.432  -3.199  1.00 25.00           C
ATOM     24  CA  THR    24     -72.468  -9.858  -4.984  1.00 25.00           C
ATOM     25  CA  GLU    25     -75.167 -12.575  -4.921  1.00 25.00           C
ATOM     26  CA  MET    26     -77.716 -10.111  -6.371  1.00 25.00           C
ATOM     27  CA  ILE    27     -75.253  -9.156  -9.143  1.00 25.00           C
ATOM     28  CA  ALA    28     -74.681 -12.856  -9.943  1.00 25.00           C
ATOM     29  CA  ASP    29     -78.463 -13.432 -10.106  1.00 25.00           C
ATOM     30  CA  HIS    30     -78.843 -10.437 -12.462  1.00 25.00           C
ATOM     31  CA  ILE    31     -76.048 -11.807 -14.693  1.00 25.00           C
ATOM     32  CA  TYR    32     -77.759 -15.232 -14.775  1.00 25.00           C
ATOM     33  CA  GLY    33     -76.178 -18.647 -14.356  1.00 25.00           C
ATOM     34  CA  LYS    34     -72.937 -16.748 -15.103  1.00 25.00           C
ATOM     35  CA  TYR    35     -69.663 -16.138 -16.995  1.00 25.00           C
ATOM     36  CA  ASP    36     -70.959 -18.199 -19.950  1.00 25.00           C
ATOM     37  CA  VAL    37     -74.217 -16.186 -19.959  1.00 25.00           C
ATOM     38  CA  PHE    38     -72.224 -12.916 -19.928  1.00 25.00           C
ATOM     39  CA  LYS    39     -70.093 -14.158 -22.857  1.00 25.00           C
ATOM     40  CA  ARG    40     -73.261 -15.089 -24.799  1.00 25.00           C
ATOM     41  CA  PHE    41     -74.726 -11.616 -24.122  1.00 25.00           C
ATOM     42  CA  LYS    42     -71.563 -10.132 -25.669  1.00 25.00           C
ATOM     43  CA  PRO    43     -71.357  -6.276 -25.736  1.00 25.00           C
ATOM     44  CA  LEU    44     -71.121  -6.820 -29.501  1.00 25.00           C
ATOM     45  CA  ALA    45     -74.687  -8.134 -29.719  1.00 25.00           C
ATOM     46  CA  LEU    46     -75.595  -5.163 -31.878  1.00 25.00           C
ATOM     47  CA  GLY    47     -74.551  -2.785 -29.078  1.00 25.00           C
ATOM     48  CA  ILE    48     -75.290  -0.718 -25.990  1.00 25.00           C
ATOM     49  CA  ASP    49     -76.867  -2.121 -22.794  1.00 25.00           C
ATOM     50  CA  GLN    50     -78.309   1.329 -21.962  1.00 25.00           C
ATOM     51  CA  ASP    51     -79.751   1.605 -25.500  1.00 25.00           C
ATOM     52  CA  LEU    52     -81.328  -1.868 -25.154  1.00 25.00           C
ATOM     53  CA  ILE    53     -82.858  -0.866 -21.790  1.00 25.00           C
ATOM     54  CA  ALA    54     -84.270   2.331 -23.356  1.00 25.00           C
ATOM     55  CA  ALA    55     -85.769   0.291 -26.229  1.00 25.00           C
ATOM     56  CA  LEU    56     -89.069   1.118 -24.488  1.00 25.00           C
ATOM     57  CA  PRO    57     -91.721   3.042 -22.464  1.00 25.00           C
ATOM     58  CA  GLN    58     -92.592  -0.405 -21.017  1.00 25.00           C
ATOM     59  CA  TYR    59     -89.329  -1.724 -19.548  1.00 25.00           C
ATOM     60  CA  ASP    60     -89.186   1.305 -17.187  1.00 25.00           C
ATOM     61  CA  ALA    61     -85.961   2.818 -18.520  1.00 25.00           C
ATOM     62  CA  ALA    62     -84.876   6.168 -17.015  1.00 25.00           C
ATOM     63  CA  LEU    63     -83.587   4.373 -13.887  1.00 25.00           C
ATOM     64  CA  ILE    64     -81.632   1.912 -16.074  1.00 25.00           C
ATOM     65  CA  ALA    65     -80.112   4.826 -18.039  1.00 25.00           C
ATOM     66  CA  ARG    66     -79.107   6.542 -14.766  1.00 25.00           C
ATOM     67  CA  VAL    67     -77.489   3.297 -13.534  1.00 25.00           C
ATOM     68  CA  LEU    68     -75.568   2.974 -16.831  1.00 25.00           C
ATOM     69  CA  ALA    69     -74.366   6.597 -16.513  1.00 25.00           C
ATOM     70  CA  ASN    70     -73.217   5.926 -12.923  1.00 25.00           C
ATOM     71  CA  HIS    71     -71.330   2.802 -14.085  1.00 25.00           C
ATOM     72  CA  CYS    72     -69.647   4.824 -16.868  1.00 25.00           C
ATOM     73  CA  ARG    73     -68.630   7.511 -14.336  1.00 25.00           C
ATOM     74  CA  ARG    74     -67.179   4.822 -12.028  1.00 25.00           C
ATOM     75  CA  PRO    75     -65.212   3.334 -14.957  1.00 25.00           C
ATOM     76  CA  ARG    76     -63.859   6.805 -15.844  1.00 25.00           C
ATOM     77  CA  TYR    77     -62.808   7.353 -12.202  1.00 25.00           C
ATOM     78  CA  LEU    78     -61.039   3.957 -12.176  1.00 25.00           C
ATOM     79  CA  LYS    79     -59.216   4.855 -15.423  1.00 25.00           C
ATOM     80  CA  ALA    80     -58.132   8.204 -13.918  1.00 25.00           C
ATOM     81  CA  LEU    81     -56.842   6.410 -10.790  1.00 25.00           C
ATOM     82  CA  ALA    82     -54.887   3.948 -12.978  1.00 25.00           C
ATOM     83  CA  ARG    83     -53.958   4.172 -16.667  1.00 25.00           C
ATOM     84  CA  GLY    84     -53.383   0.440 -16.654  1.00 25.00           C
ATOM     85  CA  GLY    85     -56.823  -0.154 -15.249  1.00 25.00           C
ATOM     86  CA  LYS    86     -56.051  -3.791 -14.511  1.00 25.00           C
ATOM     87  CA  ARG    87     -58.023  -6.305 -12.507  1.00 25.00           C
ATOM     88  CA  PHE    88     -58.811  -9.969 -13.362  1.00 25.00           C
ATOM     89  CA  ASP    89     -56.191 -12.304 -14.915  1.00 25.00           C
ATOM     90  CA  LEU    90     -56.526 -11.205 -18.542  1.00 25.00           C
ATOM     91  CA  ASN    91     -54.696 -13.697 -20.808  1.00 25.00           C
ATOM     92  CA  ASN    92     -52.423 -13.124 -23.811  1.00 25.00           C
ATOM     93  CA  ARG    93     -53.001 -12.430 -27.477  1.00 25.00           C
ATOM     94  CA  PHE    94     -54.900  -9.395 -28.904  1.00 25.00           C
ATOM     95  CA  LYS    95     -53.228  -7.801 -31.917  1.00 25.00           C
ATOM     96  CA  GLY    96     -53.379  -4.496 -30.032  1.00 25.00           C
ATOM     97  CA  GLU    97     -53.333  -1.043 -28.320  1.00 25.00           C
ATOM     98  CA  VAL    98     -55.001   0.853 -25.464  1.00 25.00           C
ATOM     99  CA  THR    99     -52.747   3.767 -24.586  1.00 25.00           C
ATOM    100  CA  PRO   100     -54.442   7.142 -24.905  1.00 25.00           C
ATOM    101  CA  GLU   101     -57.890   6.083 -26.193  1.00 25.00           C
ATOM    102  CA  GLU   102     -59.063   5.447 -22.603  1.00 25.00           C
ATOM    103  CA  GLN   103     -57.786   8.899 -21.548  1.00 25.00           C
ATOM    104  CA  ALA   104     -59.634  10.510 -24.490  1.00 25.00           C
ATOM    105  CA  ILE   105     -62.847   8.671 -23.509  1.00 25.00           C
ATOM    106  CA  ALA   106     -62.460   9.873 -19.893  1.00 25.00           C
ATOM    107  CA  GLN   107     -61.959  13.468 -21.116  1.00 25.00           C
ATOM    108  CA  ASN   108     -59.780  16.534 -20.633  1.00 25.00           C
ATOM    109  CA  HIS   109     -60.448  15.851 -16.974  1.00 25.00           C
ATOM    110  CA  PRO   110     -61.935  17.759 -14.027  1.00 25.00           C
ATOM    111  CA  PHE   111     -65.319  18.882 -12.629  1.00 25.00           C
ATOM    112  CA  VAL   112     -65.616  21.513 -15.395  1.00 25.00           C
ATOM    113  CA  GLN   113     -64.804  18.863 -18.038  1.00 25.00           C
ATOM    114  CA  GLN   114     -67.463  16.538 -16.559  1.00 25.00           C
ATOM    115  CA  ALA   115     -70.027  19.382 -16.636  1.00 25.00           C
ATOM    116  CA  LEU   116     -69.151  20.106 -20.294  1.00 25.00           C
TER
END
