
#######################################################
#                                                     #
#                        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  145 (  145),  selected  145 , name T0380TS393_2
# Molecule2: number of CA atoms  142 ( 1146),  selected  142 , name T0380.pdb
# PARAMETERS: T0380TS393_2.T0380.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      I       2           -
LGA    -       -      D       3           -
LGA    M       1      E       4          2.162
LGA    I       2      K       5          2.870
LGA    D       3      F       6          2.626
LGA    -       -      L       7           -
LGA    E       4      I       8          2.913
LGA    K       5      E       9          2.864
LGA    F       6      S      10          3.776
LGA    L       7      N      11          2.942
LGA    I       8      E      12          1.654
LGA    E       9      L      13          2.891
LGA    S      10      V      14          3.198
LGA    N      11      E      15          1.953
LGA    E      12      S      16          1.269
LGA    L      13      S      17          3.246
LGA    V      14      K      18          3.554
LGA    E      15      -       -           -
LGA    S      16      -       -           -
LGA    S      17      -       -           -
LGA    K      18      -       -           -
LGA    I      19      I      19           #
LGA    V      20      V      20          4.589
LGA    M      21      M      21           #
LGA    V      22      V      22          5.059
LGA    G      23      G      23          4.057
LGA    T      24      T      24          1.839
LGA    N      25      N      25          1.664
LGA    G      26      G      26          4.304
LGA    E      27      E      27          4.077
LGA    N      28      N      28          2.925
LGA    G      29      G      29          1.489
LGA    Y      30      Y      30          2.639
LGA    P      31      -       -           -
LGA    N      32      P      31          1.264
LGA    I      33      N      32          2.380
LGA    K      34      I      33          1.777
LGA    A      35      K      34          0.733
LGA    M      36      A      35          2.938
LGA    M      37      M      36          3.328
LGA    R      38      M      37          3.420
LGA    L      39      R      38          1.513
LGA    K      40      L      39          3.806
LGA    H      41      K      40          4.081
LGA    D      42      H      41           #
LGA    G      43      D      42          4.797
LGA    L      44      -       -           -
LGA    K      45      -       -           -
LGA    K      46      G      43           #
LGA    -       -      L      44           -
LGA    -       -      K      45           -
LGA    F      47      K      46          1.946
LGA    W      48      F      47          1.621
LGA    -       -      W      48           -
LGA    L      49      L      49          2.423
LGA    S      50      S      50          4.317
LGA    T      51      T      51          5.190
LGA    N      52      N      52           #
LGA    T      53      T      53          4.091
LGA    S      54      S      54          2.496
LGA    T      55      T      55          4.718
LGA    R      56      R      56          4.402
LGA    M      57      M      57          3.451
LGA    V      58      V      58          3.232
LGA    E      59      E      59          3.795
LGA    R      60      R      60          2.447
LGA    L      61      L      61          1.304
LGA    K      62      K      62          2.792
LGA    K      63      K      63          3.108
LGA    N      64      N      64          1.869
LGA    N      65      N      65          1.657
LGA    K      66      K      66          2.079
LGA    I      67      I      67          1.966
LGA    C      68      C      68          1.478
LGA    L      69      L      69          2.024
LGA    Y      70      Y      70          3.124
LGA    F      71      F      71          2.423
LGA    V      72      V      72          4.887
LGA    D      73      D      73          4.087
LGA    D      74      D      74          4.109
LGA    N      75      N      75          4.892
LGA    K      76      K      76          3.964
LGA    F      77      F      77          2.927
LGA    A      78      A      78          3.372
LGA    G      79      G      79          2.204
LGA    L      80      L      80          1.502
LGA    M      81      M      81          2.229
LGA    L      82      L      82          3.103
LGA    V      83      V      83          2.066
LGA    G      84      G      84          2.129
LGA    T      85      T      85          2.144
LGA    I      86      I      86          3.239
LGA    E      87      E      87          1.567
LGA    I      88      I      88          0.836
LGA    L      89      L      89          1.437
LGA    H      90      H      90          2.859
LGA    D      91      D      91          1.368
LGA    R      92      R      92          1.750
LGA    A      93      A      93          1.570
LGA    S      94      S      94          0.949
LGA    K      95      K      95          0.638
LGA    E      96      E      96          0.407
LGA    M      97      M      97          0.910
LGA    L      98      L      98          1.016
LGA    W      99      W      99          1.869
LGA    T     100      T     100           #
LGA    D     101      D     101           -
LGA    G     102      -       -           -
LGA    C     103      -       -           -
LGA    E     104      -       -           -
LGA    I     105      -       -           -
LGA    Y     106      -       -           -
LGA    Y     107      -       -           -
LGA    P     108      G     102           #
LGA    -       -      C     103           -
LGA    -       -      E     104           -
LGA    L     109      I     105           #
LGA    G     110      Y     106           #
LGA    I     111      Y     107           -
LGA    D     112      P     108           -
LGA    D     113      L     109           -
LGA    P     114      G     110           -
LGA    -       -      I     111           -
LGA    -       -      D     112           -
LGA    -       -      D     113           -
LGA    -       -      P     114           -
LGA    -       -      D     115           -
LGA    D     115      Y     116          4.784
LGA    Y     116      T     117          2.896
LGA    -       -      A     118           -
LGA    T     117      L     119          0.234
LGA    A     118      C     120          2.946
LGA    L     119      F     121          2.416
LGA    C     120      T     122          1.655
LGA    F     121      A     123          1.337
LGA    T     122      E     124          5.559
LGA    A     123      -       -           -
LGA    E     124      -       -           -
LGA    W     125      -       -           -
LGA    G     126      -       -           -
LGA    N     127      W     125          2.609
LGA    Y     128      G     126          3.439
LGA    Y     129      N     127          4.316
LGA    -       -      Y     128           -
LGA    -       -      Y     129           -
LGA    -       -      R     130           -
LGA    -       -      H     131           -
LGA    -       -      L     132           -
LGA    -       -      K     133           -
LGA    -       -      N     134           -
LGA    -       -      I     135           -
LGA    R     130      T     136           #
LGA    H     131      F     137           -
LGA    L     132      K     138           -
LGA    K     133      I     139           -
LGA    N     134      D     140           -
LGA    I     135      E     141           -
LGA    T     136      I     142           -
LGA    F     137      Y     143           -
LGA    K     138      -       -           -
LGA    I     139      -       -           -
LGA    D     140      -       -           -
LGA    E     141      -       -           -
LGA    I     142      -       -           -
LGA    Y     143      -       -           -
LGA    N     144      -       -           -
LGA    Y     145      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  145  142    5.0     98    2.96    62.24     39.870     3.201

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.368139 * X  +  -0.438485 * Y  +  -0.819881 * Z  +  -8.068578
  Y_new =  -0.675451 * X  +  -0.732105 * Y  +   0.088253 * Z  +  -7.620578
  Z_new =  -0.638937 * X  +   0.521300 * Y  +  -0.565691 * Z  +  12.719992 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.397010   -0.744582  [ DEG:   137.3386    -42.6614 ]
  Theta =   0.693115    2.448478  [ DEG:    39.7126    140.2874 ]
  Phi   =  -1.071780    2.069813  [ DEG:   -61.4085    118.5915 ]
 
# 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: T0380TS393_2                                  
REMARK     2: T0380.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0380TS393_2.T0380.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  145  142   5.0   98   2.96   62.24  39.870
REMARK  ---------------------------------------------------------- 
MOLECULE T0380TS393_2
PFRMAT TS
TARGET T0380
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1     -21.537   5.151   0.353  1.00 25.00           C
ATOM      2  CA  ILE     2     -23.464   4.587   3.538  1.00 25.00           C
ATOM      3  CA  ASP     3     -22.232   7.031   6.242  1.00 25.00           C
ATOM      4  CA  GLU     4     -18.960   7.158   4.254  1.00 25.00           C
ATOM      5  CA  LYS     5     -17.806   9.840   6.733  1.00 25.00           C
ATOM      6  CA  PHE     6     -17.361   7.174   9.446  1.00 25.00           C
ATOM      7  CA  LEU     7     -15.318   5.018   7.028  1.00 25.00           C
ATOM      8  CA  ILE     8     -13.122   8.032   6.158  1.00 25.00           C
ATOM      9  CA  GLU     9     -12.576   8.740   9.882  1.00 25.00           C
ATOM     10  CA  SER    10     -11.611   5.080  10.462  1.00 25.00           C
ATOM     11  CA  ASN    11      -9.141   5.242   7.540  1.00 25.00           C
ATOM     12  CA  GLU    12      -7.613   8.446   8.978  1.00 25.00           C
ATOM     13  CA  LEU    13      -7.262   6.770  12.403  1.00 25.00           C
ATOM     14  CA  VAL    14      -5.562   3.748  10.779  1.00 25.00           C
ATOM     15  CA  GLU    15      -3.151   6.073   8.920  1.00 25.00           C
ATOM     16  CA  SER    16      -4.054   4.481   5.536  1.00 25.00           C
ATOM     17  CA  SER    17      -6.383   1.509   5.582  1.00 25.00           C
ATOM     18  CA  LYS    18      -9.455   0.080   7.430  1.00 25.00           C
ATOM     19  CA  ILE    19      -8.923  -1.639  10.817  1.00 25.00           C
ATOM     20  CA  VAL    20      -8.473  -4.270  13.448  1.00 25.00           C
ATOM     21  CA  MET    21      -8.236  -6.698  16.422  1.00 25.00           C
ATOM     22  CA  VAL    22      -7.878 -10.348  17.431  1.00 25.00           C
ATOM     23  CA  GLY    23      -6.595  -8.947  20.727  1.00 25.00           C
ATOM     24  CA  THR    24      -8.062 -11.872  22.550  1.00 25.00           C
ATOM     25  CA  ASN    25     -11.447 -12.020  24.241  1.00 25.00           C
ATOM     26  CA  GLY    26     -10.476 -15.577  25.283  1.00 25.00           C
ATOM     27  CA  GLU    27      -9.150 -17.755  28.128  1.00 25.00           C
ATOM     28  CA  ASN    28     -10.790 -17.875  31.623  1.00 25.00           C
ATOM     29  CA  GLY    29     -11.998 -14.420  32.684  1.00 25.00           C
ATOM     30  CA  TYR    30     -10.124 -12.723  29.839  1.00 25.00           C
ATOM     31  CA  PRO    31      -7.958  -9.748  28.960  1.00 25.00           C
ATOM     32  CA  ASN    32     -11.201  -8.036  27.892  1.00 25.00           C
ATOM     33  CA  ILE    33      -9.223  -7.157  24.783  1.00 25.00           C
ATOM     34  CA  LYS    34      -7.953  -3.975  23.090  1.00 25.00           C
ATOM     35  CA  ALA    35      -4.335  -4.398  21.842  1.00 25.00           C
ATOM     36  CA  MET    36      -4.240  -4.081  18.017  1.00 25.00           C
ATOM     37  CA  MET    37      -4.096  -1.936  14.867  1.00 25.00           C
ATOM     38  CA  ARG    38      -2.803  -0.386  11.597  1.00 25.00           C
ATOM     39  CA  LEU    39      -2.843  -2.708   8.584  1.00 25.00           C
ATOM     40  CA  LYS    40      -2.838  -2.105   4.821  1.00 25.00           C
ATOM     41  CA  HIS    41      -4.560  -2.092   1.461  1.00 25.00           C
ATOM     42  CA  ASP    42      -7.037  -1.142  -1.206  1.00 25.00           C
ATOM     43  CA  GLY    43      -8.023  -4.650  -2.248  1.00 25.00           C
ATOM     44  CA  LEU    44     -11.406  -5.780  -1.021  1.00 25.00           C
ATOM     45  CA  LYS    45      -9.309  -8.586   0.562  1.00 25.00           C
ATOM     46  CA  LYS    46     -10.285  -9.659   4.115  1.00 25.00           C
ATOM     47  CA  PHE    47      -9.888  -6.896   6.700  1.00 25.00           C
ATOM     48  CA  TRP    48      -6.791  -6.715   8.949  1.00 25.00           C
ATOM     49  CA  LEU    49      -4.714  -7.280  12.094  1.00 25.00           C
ATOM     50  CA  SER    50      -2.542  -8.462  14.947  1.00 25.00           C
ATOM     51  CA  THR    51      -1.498 -11.676  16.799  1.00 25.00           C
ATOM     52  CA  ASN    52       1.142 -14.405  16.755  1.00 25.00           C
ATOM     53  CA  THR    53       3.454 -16.543  18.897  1.00 25.00           C
ATOM     54  CA  SER    54       3.550 -15.969  22.708  1.00 25.00           C
ATOM     55  CA  THR    55       2.708 -12.932  24.851  1.00 25.00           C
ATOM     56  CA  ARG    56      -0.668 -11.945  26.252  1.00 25.00           C
ATOM     57  CA  MET    57      -2.916 -11.394  23.201  1.00 25.00           C
ATOM     58  CA  VAL    58      -1.117 -14.215  21.336  1.00 25.00           C
ATOM     59  CA  GLU    59      -1.583 -16.535  24.347  1.00 25.00           C
ATOM     60  CA  ARG    60      -5.308 -15.659  24.478  1.00 25.00           C
ATOM     61  CA  LEU    61      -5.638 -16.392  20.734  1.00 25.00           C
ATOM     62  CA  LYS    62      -3.887 -19.764  21.215  1.00 25.00           C
ATOM     63  CA  LYS    63      -6.253 -20.609  24.105  1.00 25.00           C
ATOM     64  CA  ASN    64      -9.283 -20.305  21.847  1.00 25.00           C
ATOM     65  CA  ASN    65     -10.046 -18.089  18.868  1.00 25.00           C
ATOM     66  CA  LYS    66     -11.301 -14.559  19.375  1.00 25.00           C
ATOM     67  CA  ILE    67     -13.520 -11.471  19.679  1.00 25.00           C
ATOM     68  CA  CYS    68     -12.572  -7.875  19.024  1.00 25.00           C
ATOM     69  CA  LEU    69     -11.995  -4.207  17.998  1.00 25.00           C
ATOM     70  CA  TYR    70      -9.470  -1.501  18.820  1.00 25.00           C
ATOM     71  CA  PHE    71     -10.582  -0.146  15.401  1.00 25.00           C
ATOM     72  CA  VAL    72      -8.006   2.707  15.496  1.00 25.00           C
ATOM     73  CA  ASP    73      -9.573   5.766  17.049  1.00 25.00           C
ATOM     74  CA  ASP    74      -8.560   8.737  19.247  1.00 25.00           C
ATOM     75  CA  ASN    75      -8.204  11.765  17.027  1.00 25.00           C
ATOM     76  CA  LYS    76     -11.671  13.061  16.228  1.00 25.00           C
ATOM     77  CA  PHE    77     -14.052  10.417  17.617  1.00 25.00           C
ATOM     78  CA  ALA    78     -14.133   7.727  14.883  1.00 25.00           C
ATOM     79  CA  GLY    79     -14.034   3.941  15.452  1.00 25.00           C
ATOM     80  CA  LEU    80     -15.301   0.953  13.461  1.00 25.00           C
ATOM     81  CA  MET    81     -15.077  -2.794  14.175  1.00 25.00           C
ATOM     82  CA  LEU    82     -13.348  -5.650  12.238  1.00 25.00           C
ATOM     83  CA  VAL    83     -14.717  -8.557  14.303  1.00 25.00           C
ATOM     84  CA  GLY    84     -13.140 -12.040  14.241  1.00 25.00           C
ATOM     85  CA  THR    85     -10.311 -14.576  14.092  1.00 25.00           C
ATOM     86  CA  ILE    86      -7.029 -15.108  15.941  1.00 25.00           C
ATOM     87  CA  GLU    87      -5.327 -17.189  13.292  1.00 25.00           C
ATOM     88  CA  ILE    88      -1.785 -17.047  12.038  1.00 25.00           C
ATOM     89  CA  LEU    89      -1.580 -16.067   8.319  1.00 25.00           C
ATOM     90  CA  HIS    90       0.871 -18.702   7.222  1.00 25.00           C
ATOM     91  CA  ASP    91       4.660 -18.752   6.951  1.00 25.00           C
ATOM     92  CA  ARG    92       7.248 -16.046   6.201  1.00 25.00           C
ATOM     93  CA  ALA    93       5.981 -16.079   2.587  1.00 25.00           C
ATOM     94  CA  SER    94       2.534 -14.892   3.759  1.00 25.00           C
ATOM     95  CA  LYS    95       4.164 -12.067   5.767  1.00 25.00           C
ATOM     96  CA  GLU    96       6.208 -11.033   2.699  1.00 25.00           C
ATOM     97  CA  MET    97       3.034 -11.012   0.558  1.00 25.00           C
ATOM     98  CA  LEU    98       1.255  -8.850   3.171  1.00 25.00           C
ATOM     99  CA  TRP    99       4.212  -6.418   3.207  1.00 25.00           C
ATOM    100  CA  THR   100       4.129  -6.221  -0.618  1.00 25.00           C
ATOM    101  CA  ASP   101       0.365  -5.519  -0.523  1.00 25.00           C
ATOM    102  CA  GLY   102      -1.318  -8.702  -1.519  1.00 25.00           C
ATOM    103  CA  CYS   103      -3.493  -9.312   1.511  1.00 25.00           C
ATOM    104  CA  GLU   104      -3.741  -7.631   4.889  1.00 25.00           C
ATOM    105  CA  ILE   105      -2.109  -9.059   8.053  1.00 25.00           C
ATOM    106  CA  TYR   106      -0.380  -6.717  10.482  1.00 25.00           C
ATOM    107  CA  TYR   107       0.390  -4.131  13.163  1.00 25.00           C
ATOM    108  CA  PRO   108       2.693  -1.790  14.973  1.00 25.00           C
ATOM    109  CA  LEU   109       5.698  -0.205  16.575  1.00 25.00           C
ATOM    110  CA  GLY   110       7.904   1.819  18.918  1.00 25.00           C
ATOM    111  CA  ILE   111       6.363   0.247  22.017  1.00 25.00           C
ATOM    112  CA  ASP   112       7.682  -3.165  20.938  1.00 25.00           C
ATOM    113  CA  ASP   113       4.363  -4.424  19.736  1.00 25.00           C
ATOM    114  CA  PRO   114       2.027  -6.543  17.628  1.00 25.00           C
ATOM    115  CA  ASP   115       2.629  -9.282  15.003  1.00 25.00           C
ATOM    116  CA  TYR   116       0.836 -11.653  12.560  1.00 25.00           C
ATOM    117  CA  THR   117      -2.793 -12.143  11.537  1.00 25.00           C
ATOM    118  CA  ALA   118      -6.574 -12.088  11.927  1.00 25.00           C
ATOM    119  CA  LEU   119      -9.226  -9.458  12.471  1.00 25.00           C
ATOM    120  CA  CYS   120     -11.132 -11.142   9.655  1.00 25.00           C
ATOM    121  CA  PHE   121     -14.397  -9.311   8.986  1.00 25.00           C
ATOM    122  CA  THR   122     -15.178 -11.969   6.398  1.00 25.00           C
ATOM    123  CA  ALA   123     -18.637 -12.716   7.764  1.00 25.00           C
ATOM    124  CA  GLU   124     -21.709 -13.667   5.651  1.00 25.00           C
ATOM    125  CA  TRP   125     -23.337 -10.262   6.120  1.00 25.00           C
ATOM    126  CA  GLY   126     -22.971  -9.775   9.885  1.00 25.00           C
ATOM    127  CA  ASN   127     -22.880  -6.403  11.599  1.00 25.00           C
ATOM    128  CA  TYR   128     -19.593  -7.611  13.151  1.00 25.00           C
ATOM    129  CA  TYR   129     -20.024  -5.143  16.047  1.00 25.00           C
ATOM    130  CA  ARG   130     -23.606  -6.380  16.601  1.00 25.00           C
ATOM    131  CA  HIS   131     -22.895  -8.208  19.892  1.00 25.00           C
ATOM    132  CA  LEU   132     -21.646 -10.917  17.533  1.00 25.00           C
ATOM    133  CA  LYS   133     -25.015 -12.007  16.170  1.00 25.00           C
ATOM    134  CA  ASN   134     -23.850 -14.187  13.361  1.00 25.00           C
ATOM    135  CA  ILE   135     -20.407 -12.680  12.880  1.00 25.00           C
ATOM    136  CA  THR   136     -17.943 -15.379  11.966  1.00 25.00           C
ATOM    137  CA  PHE   137     -14.430 -15.038  10.390  1.00 25.00           C
ATOM    138  CA  LYS   138     -11.049 -16.263   9.250  1.00 25.00           C
ATOM    139  CA  ILE   139      -9.089 -19.180   7.948  1.00 25.00           C
ATOM    140  CA  ASP   140      -9.885 -22.583   6.335  1.00 25.00           C
ATOM    141  CA  GLU   141     -10.629 -25.793   4.408  1.00 25.00           C
ATOM    142  CA  ILE   142     -12.786 -28.566   2.844  1.00 25.00           C
ATOM    143  CA  TYR   143     -15.270 -29.998   0.410  1.00 25.00           C
ATOM    144  CA  ASN   144     -17.243 -29.605  -2.764  1.00 25.00           C
ATOM    145  CA  TYR   145     -19.279 -26.521  -3.470  1.00 25.00           C
TER
END
