
#######################################################
#                                                     #
#                        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_3-D1
# Molecule2: number of CA atoms   97 (  785),  selected   97 , name T0360_D1.pdb
# PARAMETERS: T0360TS393_3-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    M      26      A      28           #
LGA    I      27      -       -           -
LGA    A      28      -       -           -
LGA    D      29      D      29           #
LGA    -       -      H      30           -
LGA    H      30      I      31           #
LGA    I      31      Y      32           #
LGA    Y      32      G      33           #
LGA    G      33      -       -           -
LGA    K      34      -       -           -
LGA    Y      35      -       -           -
LGA    D      36      -       -           -
LGA    V      37      K      34           #
LGA    F      38      Y      35           #
LGA    K      39      D      36           #
LGA    R      40      -       -           -
LGA    F      41      -       -           -
LGA    K      42      -       -           -
LGA    P      43      V      37          4.188
LGA    L      44      F      38           -
LGA    A      45      K      39           -
LGA    L      46      R      40           -
LGA    -       -      F      41           -
LGA    -       -      K      42           -
LGA    -       -      P      43           -
LGA    -       -      L      44           -
LGA    -       -      A      45           -
LGA    -       -      L      46           -
LGA    -       -      G      47           -
LGA    G      47      I      48           #
LGA    I      48      D      49           #
LGA    D      49      Q      50           -
LGA    Q      50      -       -           -
LGA    D      51      D      51           #
LGA    L      52      L      52          1.284
LGA    -       -      I      53           -
LGA    -       -      A      54           -
LGA    I      53      A      55          3.733
LGA    A      54      L      56          4.182
LGA    A      55      P      57           #
LGA    L      56      Q      58          3.516
LGA    P      57      Y      59          4.607
LGA    Q      58      D      60          3.043
LGA    Y      59      A      61          2.375
LGA    D      60      A      62          4.128
LGA    A      61      L      63          2.674
LGA    -       -      I      64           -
LGA    A      62      A      65          1.988
LGA    L      63      R      66          1.009
LGA    I      64      V      67          0.799
LGA    A      65      L      68          1.501
LGA    R      66      A      69          1.100
LGA    V      67      N      70          1.167
LGA    L      68      H      71          1.774
LGA    A      69      C      72          2.233
LGA    N      70      R      73          2.106
LGA    H      71      R      74          2.919
LGA    -       -      P      75           -
LGA    C      72      R      76           #
LGA    R      73      Y      77          3.681
LGA    R      74      L      78          1.936
LGA    P      75      K      79          2.860
LGA    R      76      A      80          2.229
LGA    Y      77      L      81          5.169
LGA    L      78      A      82           #
LGA    K      79      -       -           -
LGA    A      80      -       -           -
LGA    L      81      -       -           -
LGA    A      82      -       -           -
LGA    R      83      -       -           -
LGA    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      -       -           -
LGA    P     100      -       -           -
LGA    E     101      -       -           -
LGA    E     102      R      83          3.403
LGA    Q     103      G      84          4.976
LGA    A     104      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    I     105      T      99          4.688
LGA    -       -      P     100           -
LGA    -       -      E     101           -
LGA    -       -      E     102           -
LGA    A     106      Q     103          1.628
LGA    Q     107      A     104          2.734
LGA    N     108      I     105          4.938
LGA    H     109      A     106          4.467
LGA    P     110      Q     107           #
LGA    F     111      N     108          4.717
LGA    V     112      -       -           -
LGA    Q     113      -       -           -
LGA    Q     114      H     109           #
LGA    A     115      P     110           -
LGA    L     116      F     111           -
LGA    -       -      V     112           -
LGA    -       -      Q     113           -
LGA    -       -      Q     114           -
LGA    -       -      A     115           -
LGA    -       -      L     116           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   97    5.0     33    3.24     6.06     22.896     0.987

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.316548 * X  +  -0.725294 * Y  +   0.611347 * Z  + -69.479759
  Y_new =  -0.413722 * X  +   0.685524 * Y  +   0.599075 * Z  +   2.614187
  Z_new =  -0.853599 * X  +  -0.063292 * Y  +  -0.517071 * Z  + -15.781526 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.019794    0.121799  [ DEG:  -173.0215      6.9785 ]
  Theta =   1.022856    2.118737  [ DEG:    58.6053    121.3947 ]
  Phi   =  -2.223906    0.917687  [ DEG:  -127.4204     52.5796 ]
 
# 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_3-D1                               
REMARK     2: T0360_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0360TS393_3-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   33   3.24    6.06  22.896
REMARK  ---------------------------------------------------------- 
MOLECULE T0360TS393_3-D1
PFRMAT TS
TARGET T0360
MODEL 3
PARENT N/A
ATOM     20  CA  LYS    20     -71.175   0.038   4.493  1.00 25.00           C
ATOM     21  CA  LYS    21     -72.612  -3.298   5.709  1.00 25.00           C
ATOM     22  CA  LYS    22     -75.909  -2.563   3.906  1.00 25.00           C
ATOM     23  CA  GLN    23     -73.996  -1.734   0.693  1.00 25.00           C
ATOM     24  CA  THR    24     -72.032  -5.009   0.990  1.00 25.00           C
ATOM     25  CA  GLU    25     -75.296  -6.951   1.477  1.00 25.00           C
ATOM     26  CA  MET    26     -76.795  -5.254  -1.612  1.00 25.00           C
ATOM     27  CA  ILE    27     -73.679  -6.153  -3.649  1.00 25.00           C
ATOM     28  CA  ALA    28     -73.931  -9.790  -2.475  1.00 25.00           C
ATOM     29  CA  ASP    29     -77.629  -9.881  -3.469  1.00 25.00           C
ATOM     30  CA  HIS    30     -76.762  -8.464  -6.920  1.00 25.00           C
ATOM     31  CA  ILE    31     -74.034 -11.118  -7.350  1.00 25.00           C
ATOM     32  CA  TYR    32     -76.518 -13.864  -6.373  1.00 25.00           C
ATOM     33  CA  GLY    33     -75.353 -17.500  -6.652  1.00 25.00           C
ATOM     34  CA  LYS    34     -75.341 -16.463 -10.307  1.00 25.00           C
ATOM     35  CA  TYR    35     -71.772 -15.283  -9.572  1.00 25.00           C
ATOM     36  CA  ASP    36     -70.360 -18.239 -11.556  1.00 25.00           C
ATOM     37  CA  VAL    37     -72.671 -17.405 -14.493  1.00 25.00           C
ATOM     38  CA  PHE    38     -71.533 -13.749 -14.382  1.00 25.00           C
ATOM     39  CA  LYS    39     -67.869 -14.866 -14.376  1.00 25.00           C
ATOM     40  CA  ARG    40     -68.532 -17.145 -17.381  1.00 25.00           C
ATOM     41  CA  PHE    41     -70.218 -14.249 -19.236  1.00 25.00           C
ATOM     42  CA  LYS    42     -72.114 -10.949 -18.718  1.00 25.00           C
ATOM     43  CA  PRO    43     -69.494  -8.842 -20.526  1.00 25.00           C
ATOM     44  CA  LEU    44     -69.166 -11.448 -23.274  1.00 25.00           C
ATOM     45  CA  ALA    45     -68.747  -9.365 -26.373  1.00 25.00           C
ATOM     46  CA  LEU    46     -72.409  -8.605 -25.920  1.00 25.00           C
ATOM     47  CA  GLY    47     -72.552  -5.342 -23.969  1.00 25.00           C
ATOM     48  CA  ILE    48     -74.341  -3.270 -21.325  1.00 25.00           C
ATOM     49  CA  ASP    49     -76.629  -6.338 -21.179  1.00 25.00           C
ATOM     50  CA  GLN    50     -77.847  -5.294 -17.701  1.00 25.00           C
ATOM     51  CA  ASP    51     -78.557  -1.756 -18.985  1.00 25.00           C
ATOM     52  CA  LEU    52     -80.512  -3.196 -21.946  1.00 25.00           C
ATOM     53  CA  ILE    53     -82.545  -5.401 -19.564  1.00 25.00           C
ATOM     54  CA  ALA    54     -83.303  -2.362 -17.359  1.00 25.00           C
ATOM     55  CA  ALA    55     -84.428  -0.380 -20.437  1.00 25.00           C
ATOM     56  CA  LEU    56     -87.921  -1.384 -19.492  1.00 25.00           C
ATOM     57  CA  PRO    57     -90.757   0.921 -20.690  1.00 25.00           C
ATOM     58  CA  GLN    58     -91.344   3.958 -18.432  1.00 25.00           C
ATOM     59  CA  TYR    59     -87.502   4.154 -18.400  1.00 25.00           C
ATOM     60  CA  ASP    60     -86.538   5.258 -14.920  1.00 25.00           C
ATOM     61  CA  ALA    61     -83.612   2.795 -15.438  1.00 25.00           C
ATOM     62  CA  ALA    62     -82.026   5.814 -17.180  1.00 25.00           C
ATOM     63  CA  LEU    63     -80.679   7.074 -13.824  1.00 25.00           C
ATOM     64  CA  ILE    64     -79.216   3.612 -13.084  1.00 25.00           C
ATOM     65  CA  ALA    65     -77.553   3.552 -16.534  1.00 25.00           C
ATOM     66  CA  ARG    66     -76.077   7.030 -15.911  1.00 25.00           C
ATOM     67  CA  VAL    67     -74.735   5.879 -12.515  1.00 25.00           C
ATOM     68  CA  LEU    68     -73.160   2.796 -14.152  1.00 25.00           C
ATOM     69  CA  ALA    69     -71.532   5.013 -16.817  1.00 25.00           C
ATOM     70  CA  ASN    70     -70.155   7.323 -14.089  1.00 25.00           C
ATOM     71  CA  HIS    71     -68.744   4.300 -12.209  1.00 25.00           C
ATOM     72  CA  CYS    72     -67.094   3.037 -15.427  1.00 25.00           C
ATOM     73  CA  ARG    73     -65.560   6.495 -16.025  1.00 25.00           C
ATOM     74  CA  ARG    74     -64.226   6.552 -12.436  1.00 25.00           C
ATOM     75  CA  PRO    75     -62.707   3.070 -12.919  1.00 25.00           C
ATOM     76  CA  ARG    76     -61.051   4.218 -16.177  1.00 25.00           C
ATOM     77  CA  TYR    77     -59.629   7.297 -14.399  1.00 25.00           C
ATOM     78  CA  LEU    78     -58.261   5.077 -11.595  1.00 25.00           C
ATOM     79  CA  LYS    79     -56.641   2.765 -14.184  1.00 25.00           C
ATOM     80  CA  ALA    80     -55.055   5.785 -15.924  1.00 25.00           C
ATOM     81  CA  LEU    81     -53.708   7.044 -12.568  1.00 25.00           C
ATOM     82  CA  ALA    82     -52.245   3.582 -11.829  1.00 25.00           C
ATOM     83  CA  ARG    83     -50.378   0.750 -10.038  1.00 25.00           C
ATOM     84  CA  GLY    84     -52.865   0.840  -7.236  1.00 25.00           C
ATOM     85  CA  GLY    85     -55.409  -1.540  -8.867  1.00 25.00           C
ATOM     86  CA  LYS    86     -56.101  -4.879 -10.548  1.00 25.00           C
ATOM     87  CA  ARG    87     -57.344  -6.050  -7.150  1.00 25.00           C
ATOM     88  CA  PHE    88     -57.488  -9.769  -6.716  1.00 25.00           C
ATOM     89  CA  ASP    89     -56.102 -13.278  -6.401  1.00 25.00           C
ATOM     90  CA  LEU    90     -55.296 -13.159 -10.145  1.00 25.00           C
ATOM     91  CA  ASN    91     -53.124 -15.927 -11.636  1.00 25.00           C
ATOM     92  CA  ASN    92     -51.775 -17.021 -15.084  1.00 25.00           C
ATOM     93  CA  ARG    93     -49.676 -16.170 -18.151  1.00 25.00           C
ATOM     94  CA  PHE    94     -51.815 -14.146 -20.561  1.00 25.00           C
ATOM     95  CA  LYS    95     -49.133 -12.617 -22.747  1.00 25.00           C
ATOM     96  CA  GLY    96     -48.555  -9.536 -24.928  1.00 25.00           C
ATOM     97  CA  GLU    97     -50.654  -6.701 -23.542  1.00 25.00           C
ATOM     98  CA  VAL    98     -52.590  -3.803 -21.976  1.00 25.00           C
ATOM     99  CA  THR    99     -50.377  -0.885 -20.784  1.00 25.00           C
ATOM    100  CA  PRO   100     -50.534   2.197 -23.067  1.00 25.00           C
ATOM    101  CA  GLU   101     -53.960   0.953 -24.241  1.00 25.00           C
ATOM    102  CA  GLU   102     -55.495   1.921 -20.869  1.00 25.00           C
ATOM    103  CA  GLN   103     -53.924   5.404 -21.126  1.00 25.00           C
ATOM    104  CA  ALA   104     -55.322   5.800 -24.670  1.00 25.00           C
ATOM    105  CA  ILE   105     -58.796   4.754 -23.443  1.00 25.00           C
ATOM    106  CA  ALA   106     -58.579   7.296 -20.585  1.00 25.00           C
ATOM    107  CA  GLN   107     -57.568  10.034 -23.065  1.00 25.00           C
ATOM    108  CA  ASN   108     -55.433  12.300 -20.862  1.00 25.00           C
ATOM    109  CA  HIS   109     -56.860  12.814 -17.331  1.00 25.00           C
ATOM    110  CA  PRO   110     -56.804  16.330 -15.879  1.00 25.00           C
ATOM    111  CA  PHE   111     -59.984  18.396 -15.345  1.00 25.00           C
ATOM    112  CA  VAL   112     -59.812  19.641 -18.962  1.00 25.00           C
ATOM    113  CA  GLN   113     -59.397  16.043 -20.207  1.00 25.00           C
ATOM    114  CA  GLN   114     -62.419  14.948 -18.123  1.00 25.00           C
ATOM    115  CA  ALA   115     -64.490  17.826 -19.569  1.00 25.00           C
ATOM    116  CA  LEU   116     -63.454  16.822 -23.117  1.00 25.00           C
TER
END
