
#######################################################
#                                                     #
#                        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  151 (  151),  selected  151 , name T0362TS168_5
# Molecule2: number of CA atoms  144 ( 1169),  selected  144 , name T0362.pdb
# PARAMETERS: T0362TS168_5.T0362.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    N       2      -       -           -
LGA    P       3      -       -           -
LGA    E       4      -       -           -
LGA    N       5      N       2           #
LGA    W       6      P       3          3.840
LGA    L       7      E       4          3.256
LGA    -       -      N       5           -
LGA    -       -      W       6           -
LGA    -       -      L       7           -
LGA    L       8      L       8          3.177
LGA    L       9      L       9          2.072
LGA    R      10      R      10          2.877
LGA    R      11      R      11          2.782
LGA    V      12      V      12          3.284
LGA    V      13      V      13          3.561
LGA    R      14      R      14           #
LGA    F      15      F      15           #
LGA    G      16      G      16          2.435
LGA    D      17      D      17          1.976
LGA    T      18      T      18          2.816
LGA    -       -      D      19           -
LGA    D      19      A      20           #
LGA    A      20      -       -           -
LGA    A      21      -       -           -
LGA    G      22      A      21           #
LGA    -       -      G      22           -
LGA    V      23      V      23          3.350
LGA    M      24      M      24          2.203
LGA    H      25      H      25          2.634
LGA    F      26      F      26          2.963
LGA    H      27      H      27          1.735
LGA    Q      28      Q      28          0.435
LGA    L      29      L      29          0.790
LGA    F      30      F      30          0.715
LGA    R      31      R      31          0.477
LGA    W      32      W      32          0.818
LGA    C      33      C      33          0.710
LGA    H      34      H      34          0.466
LGA    E      35      E      35          1.066
LGA    S      36      S      36          1.329
LGA    W      37      W      37          0.840
LGA    E      38      E      38          0.399
LGA    E      39      E      39          1.279
LGA    S      40      S      40          1.676
LGA    L      41      L      41          1.283
LGA    E      42      E      42          0.926
LGA    S      43      S      43          2.449
LGA    Y      44      Y      44          2.989
LGA    G      45      G      45          2.980
LGA    L      46      L      46          3.624
LGA    N      47      N      47          3.541
LGA    P      48      P      48          2.169
LGA    A      49      A      49          2.504
LGA    -       -      D      50           -
LGA    -       -      I      51           -
LGA    -       -      F      52           -
LGA    -       -      P      53           -
LGA    -       -      G      54           -
LGA    -       -      S      55           -
LGA    D      50      R      56           #
LGA    I      51      K      57           #
LGA    F      52      -       -           -
LGA    P      53      -       -           -
LGA    G      54      -       -           -
LGA    S      55      -       -           -
LGA    R      56      -       -           -
LGA    K      57      S      58           #
LGA    S      58      E      59           #
LGA    E      59      V      60           #
LGA    V      60      T      61           #
LGA    T      61      P      62           #
LGA    P      62      E      63          3.150
LGA    E      63      V      64          3.194
LGA    V      64      A      65          5.340
LGA    A      65      -       -           -
LGA    L      66      L      66          5.983
LGA    P      67      P      67          4.665
LGA    I      68      I      68          2.278
LGA    I      69      I      69          3.444
LGA    H      70      H      70          1.506
LGA    C      71      C      71          1.910
LGA    Q      72      Q      72          3.725
LGA    A      73      A      73          2.276
LGA    D      74      D      74          1.391
LGA    F      75      F      75          1.993
LGA    R      76      R      76          1.857
LGA    R      77      R      77          1.683
LGA    P      78      P      78          1.620
LGA    I      79      I      79          1.168
LGA    H      80      -       -           -
LGA    T      81      H      80          2.716
LGA    G      82      T      81          2.151
LGA    D      83      G      82          4.501
LGA    A      84      D      83          2.388
LGA    L      85      A      84          3.852
LGA    -       -      L      85           -
LGA    A      86      A      86          2.619
LGA    M      87      M      87          1.513
LGA    E      88      E      88          1.799
LGA    L      89      L      89          2.510
LGA    R      90      R      90          3.941
LGA    P      91      P      91          2.359
LGA    E      92      E      92          1.133
LGA    R      93      R      93          2.244
LGA    L      94      L      94          2.360
LGA    N      95      N      95          0.739
LGA    P      96      P      96          2.707
LGA    N      97      N      97          2.103
LGA    S      98      S      98          2.046
LGA    F      99      F      99          1.840
LGA    Q     100      Q     100          4.512
LGA    V     101      V     101          1.320
LGA    H     102      H     102          1.721
LGA    F     103      F     103          3.000
LGA    E     104      E     104          1.485
LGA    F     105      F     105          3.180
LGA    R     106      R     106          1.204
LGA    C     107      C     107          1.514
LGA    E     108      E     108          1.543
LGA    E     109      E     109          4.730
LGA    Q     110      Q     110          2.048
LGA    I     111      I     111          2.727
LGA    A     112      A     112          1.567
LGA    A     113      A     113          2.306
LGA    H     114      H     114          1.250
LGA    A     115      A     115          1.774
LGA    L     116      L     116          1.172
LGA    I     117      I     117          2.738
LGA    R     118      R     118          2.926
LGA    H     119      H     119          3.638
LGA    L     120      L     120          5.030
LGA    A     121      A     121          5.774
LGA    I     122      I     122          5.740
LGA    N     123      N     123           -
LGA    A     124      A     124           -
LGA    Q     125      -       -           -
LGA    T     126      Q     125          4.715
LGA    R     127      T     126          3.559
LGA    H     128      R     127          2.274
LGA    -       -      H     128           -
LGA    R     129      R     129          1.088
LGA    C     130      C     130          1.677
LGA    A     131      A     131          1.196
LGA    L     132      L     132          1.470
LGA    P     133      P     133          2.249
LGA    E     134      E     134          1.933
LGA    G     135      G     135          2.472
LGA    I     136      I     136          2.274
LGA    D     137      D     137          2.504
LGA    R     138      R     138          3.003
LGA    W     139      W     139          2.641
LGA    L     140      L     140          2.663
LGA    E     141      E     141          2.812
LGA    A     142      -       -           -
LGA    S     143      A     142          1.853
LGA    G     144      S     143           #
LGA    V     145      G     144           -
LGA    G     146      -       -           -
LGA    K     147      -       -           -
LGA    I     148      -       -           -
LGA    G     149      -       -           -
LGA    S     150      -       -           -
LGA    I     151      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  151  144    5.0    114    2.69    87.72     47.862     4.088

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.029069 * X  +  -0.692804 * Y  +  -0.720539 * Z  +  39.512203
  Y_new =   0.692945 * X  +   0.505551 * Y  +  -0.514048 * Z  +  45.628090
  Z_new =   0.720404 * X  +  -0.514238 * Y  +   0.465379 * Z  +  12.540654 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.835232    2.306361  [ DEG:   -47.8552    132.1448 ]
  Theta =  -0.804384   -2.337208  [ DEG:   -46.0878   -133.9122 ]
  Phi   =   1.612722   -1.528870  [ DEG:    92.4022    -87.5978 ]
 
# 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: T0362TS168_5                                  
REMARK     2: T0362.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0362TS168_5.T0362.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  151  144   5.0  114   2.69   87.72  47.862
REMARK  ---------------------------------------------------------- 
MOLECULE T0362TS168_5
PFRMAT TS
TARGET T0362
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      41.733  50.002  35.136  1.00 25.00           C
ATOM      2  CA  ASN     2      42.626  53.628  34.572  1.00 25.00           C
ATOM      3  CA  PRO     3      39.625  54.486  32.302  1.00 25.00           C
ATOM      4  CA  GLU     4      37.449  53.828  29.204  1.00 25.00           C
ATOM      5  CA  ASN     5      36.098  50.764  27.337  1.00 25.00           C
ATOM      6  CA  TRP     6      35.850  49.011  23.995  1.00 25.00           C
ATOM      7  CA  LEU     7      38.731  51.277  22.953  1.00 25.00           C
ATOM      8  CA  LEU     8      41.839  49.509  21.585  1.00 25.00           C
ATOM      9  CA  LEU     9      44.189  50.791  18.890  1.00 25.00           C
ATOM     10  CA  ARG    10      46.607  53.230  17.171  1.00 25.00           C
ATOM     11  CA  ARG    11      49.387  54.493  14.879  1.00 25.00           C
ATOM     12  CA  VAL    12      49.464  57.239  12.251  1.00 25.00           C
ATOM     13  CA  VAL    13      47.772  58.118   9.014  1.00 25.00           C
ATOM     14  CA  ARG    14      50.235  56.619   6.589  1.00 25.00           C
ATOM     15  CA  PHE    15      50.678  55.540   2.967  1.00 25.00           C
ATOM     16  CA  GLY    16      53.789  57.723   3.164  1.00 25.00           C
ATOM     17  CA  ASP    17      51.669  60.758   3.802  1.00 25.00           C
ATOM     18  CA  THR    18      49.604  61.845   0.745  1.00 25.00           C
ATOM     19  CA  ASP    19      48.685  61.394  -2.947  1.00 25.00           C
ATOM     20  CA  ALA    20      45.848  61.934  -5.488  1.00 25.00           C
ATOM     21  CA  ALA    21      42.603  63.544  -4.425  1.00 25.00           C
ATOM     22  CA  GLY    22      42.269  64.208  -0.638  1.00 25.00           C
ATOM     23  CA  VAL    23      44.658  64.103   2.361  1.00 25.00           C
ATOM     24  CA  MET    24      44.900  60.716   3.948  1.00 25.00           C
ATOM     25  CA  HIS    25      43.835  59.375   0.503  1.00 25.00           C
ATOM     26  CA  PHE    26      41.543  56.342   0.388  1.00 25.00           C
ATOM     27  CA  HIS    27      44.648  54.105   0.542  1.00 25.00           C
ATOM     28  CA  GLN    28      45.627  55.654   3.904  1.00 25.00           C
ATOM     29  CA  LEU    29      42.090  55.048   5.243  1.00 25.00           C
ATOM     30  CA  PHE    30      42.247  51.404   4.075  1.00 25.00           C
ATOM     31  CA  ARG    31      45.637  50.970   5.802  1.00 25.00           C
ATOM     32  CA  TRP    32      44.211  52.460   9.030  1.00 25.00           C
ATOM     33  CA  CYS    33      41.223  50.070   8.841  1.00 25.00           C
ATOM     34  CA  HIS    34      43.595  47.106   8.339  1.00 25.00           C
ATOM     35  CA  GLU    35      45.666  48.219  11.361  1.00 25.00           C
ATOM     36  CA  SER    36      42.483  48.491  13.473  1.00 25.00           C
ATOM     37  CA  TRP    37      41.424  44.978  12.377  1.00 25.00           C
ATOM     38  CA  GLU    38      44.883  43.620  13.305  1.00 25.00           C
ATOM     39  CA  GLU    39      44.648  45.299  16.738  1.00 25.00           C
ATOM     40  CA  SER    40      41.179  43.769  17.277  1.00 25.00           C
ATOM     41  CA  LEU    41      42.527  40.315  16.316  1.00 25.00           C
ATOM     42  CA  GLU    42      45.436  40.740  18.771  1.00 25.00           C
ATOM     43  CA  SER    43      42.985  41.740  21.540  1.00 25.00           C
ATOM     44  CA  TYR    44      40.835  38.662  20.782  1.00 25.00           C
ATOM     45  CA  GLY    45      43.610  36.061  20.681  1.00 25.00           C
ATOM     46  CA  LEU    46      42.158  33.708  18.152  1.00 25.00           C
ATOM     47  CA  ASN    47      45.094  34.149  15.803  1.00 25.00           C
ATOM     48  CA  PRO    48      47.498  37.129  15.698  1.00 25.00           C
ATOM     49  CA  ALA    49      50.238  34.985  14.098  1.00 25.00           C
ATOM     50  CA  ASP    50      51.889  34.497  17.520  1.00 25.00           C
ATOM     51  CA  ILE    51      49.813  31.316  17.941  1.00 25.00           C
ATOM     52  CA  PHE    52      46.834  31.844  20.341  1.00 25.00           C
ATOM     53  CA  PRO    53      46.414  28.065  20.622  1.00 25.00           C
ATOM     54  CA  GLY    54      43.712  25.397  20.380  1.00 25.00           C
ATOM     55  CA  SER    55      42.115  25.257  16.954  1.00 25.00           C
ATOM     56  CA  ARG    56      45.312  26.525  15.295  1.00 25.00           C
ATOM     57  CA  LYS    57      47.935  24.292  16.871  1.00 25.00           C
ATOM     58  CA  SER    58      46.955  22.023  13.957  1.00 25.00           C
ATOM     59  CA  GLU    59      43.693  22.464  11.956  1.00 25.00           C
ATOM     60  CA  VAL    60      45.939  24.619   9.709  1.00 25.00           C
ATOM     61  CA  THR    61      43.041  25.370   7.348  1.00 25.00           C
ATOM     62  CA  PRO    62      41.906  28.569   9.149  1.00 25.00           C
ATOM     63  CA  GLU    63      43.680  30.296   6.262  1.00 25.00           C
ATOM     64  CA  VAL    64      44.154  33.130   8.766  1.00 25.00           C
ATOM     65  CA  ALA    65      44.953  36.818   8.670  1.00 25.00           C
ATOM     66  CA  LEU    66      43.470  39.878   7.059  1.00 25.00           C
ATOM     67  CA  PRO    67      42.550  40.767   3.492  1.00 25.00           C
ATOM     68  CA  ILE    68      39.452  42.698   2.546  1.00 25.00           C
ATOM     69  CA  ILE    69      36.548  44.242   0.557  1.00 25.00           C
ATOM     70  CA  HIS    70      33.027  45.261   1.698  1.00 25.00           C
ATOM     71  CA  CYS    71      33.308  48.829   2.987  1.00 25.00           C
ATOM     72  CA  GLN    72      30.353  51.267   3.002  1.00 25.00           C
ATOM     73  CA  ALA    73      32.780  54.077   3.859  1.00 25.00           C
ATOM     74  CA  ASP    74      34.117  57.608   3.922  1.00 25.00           C
ATOM     75  CA  PHE    75      36.965  59.924   5.094  1.00 25.00           C
ATOM     76  CA  ARG    76      34.660  62.884   5.686  1.00 25.00           C
ATOM     77  CA  ARG    77      37.388  65.127   7.110  1.00 25.00           C
ATOM     78  CA  PRO    78      40.768  66.013   5.481  1.00 25.00           C
ATOM     79  CA  ILE    79      42.836  64.027   7.991  1.00 25.00           C
ATOM     80  CA  HIS    80      43.046  66.466  10.879  1.00 25.00           C
ATOM     81  CA  THR    81      45.990  68.554   9.723  1.00 25.00           C
ATOM     82  CA  GLY    82      48.717  65.951  10.128  1.00 25.00           C
ATOM     83  CA  ASP    83      47.445  62.683  11.543  1.00 25.00           C
ATOM     84  CA  ALA    84      47.323  62.214  15.326  1.00 25.00           C
ATOM     85  CA  LEU    85      44.706  59.562  14.707  1.00 25.00           C
ATOM     86  CA  ALA    86      42.763  56.774  16.519  1.00 25.00           C
ATOM     87  CA  MET    87      40.724  53.584  16.316  1.00 25.00           C
ATOM     88  CA  GLU    88      37.690  51.517  17.450  1.00 25.00           C
ATOM     89  CA  LEU    89      37.901  48.010  15.888  1.00 25.00           C
ATOM     90  CA  ARG    90      35.378  45.821  17.639  1.00 25.00           C
ATOM     91  CA  PRO    91      32.702  43.250  16.684  1.00 25.00           C
ATOM     92  CA  GLU    92      29.464  43.172  14.753  1.00 25.00           C
ATOM     93  CA  ARG    93      27.928  41.045  12.023  1.00 25.00           C
ATOM     94  CA  LEU    94      28.224  37.510  10.601  1.00 25.00           C
ATOM     95  CA  ASN    95      25.550  35.012   9.452  1.00 25.00           C
ATOM     96  CA  PRO    96      27.687  32.322   7.761  1.00 25.00           C
ATOM     97  CA  ASN    97      30.331  34.583   6.211  1.00 25.00           C
ATOM     98  CA  SER    98      32.968  36.937   7.657  1.00 25.00           C
ATOM     99  CA  PHE    99      33.276  40.339   9.457  1.00 25.00           C
ATOM    100  CA  GLN   100      35.779  42.347  11.528  1.00 25.00           C
ATOM    101  CA  VAL   101      34.530  45.873  12.316  1.00 25.00           C
ATOM    102  CA  HIS   102      34.427  49.673  12.453  1.00 25.00           C
ATOM    103  CA  PHE   103      33.904  53.046  14.133  1.00 25.00           C
ATOM    104  CA  GLU   104      36.849  55.349  13.622  1.00 25.00           C
ATOM    105  CA  PHE   105      37.706  57.606  16.504  1.00 25.00           C
ATOM    106  CA  ARG   106      39.391  61.061  16.256  1.00 25.00           C
ATOM    107  CA  CYS   107      40.480  64.405  17.589  1.00 25.00           C
ATOM    108  CA  GLU   108      40.280  68.078  18.543  1.00 25.00           C
ATOM    109  CA  GLU   109      36.694  69.381  18.701  1.00 25.00           C
ATOM    110  CA  GLN   110      35.512  67.320  15.817  1.00 25.00           C
ATOM    111  CA  ILE   111      33.990  65.153  13.120  1.00 25.00           C
ATOM    112  CA  ALA   112      36.648  62.628  12.194  1.00 25.00           C
ATOM    113  CA  ALA   113      38.100  59.602  10.340  1.00 25.00           C
ATOM    114  CA  HIS   114      35.878  56.866   8.942  1.00 25.00           C
ATOM    115  CA  ALA   115      36.583  53.266   7.937  1.00 25.00           C
ATOM    116  CA  LEU   116      33.857  50.716   7.589  1.00 25.00           C
ATOM    117  CA  ILE   117      36.466  48.025   7.837  1.00 25.00           C
ATOM    118  CA  ARG   118      33.610  45.698   6.901  1.00 25.00           C
ATOM    119  CA  HIS   119      36.312  43.066   6.430  1.00 25.00           C
ATOM    120  CA  LEU   120      37.484  39.485   5.838  1.00 25.00           C
ATOM    121  CA  ALA   121      39.225  36.851   7.857  1.00 25.00           C
ATOM    122  CA  ILE   122      39.862  35.162   4.518  1.00 25.00           C
ATOM    123  CA  ASN   123      43.521  34.873   3.389  1.00 25.00           C
ATOM    124  CA  ALA   124      46.244  33.718   0.929  1.00 25.00           C
ATOM    125  CA  GLN   125      46.177  32.414  -2.641  1.00 25.00           C
ATOM    126  CA  THR   126      43.095  30.240  -3.104  1.00 25.00           C
ATOM    127  CA  ARG   127      39.833  28.957  -1.706  1.00 25.00           C
ATOM    128  CA  HIS   128      36.382  27.888  -0.541  1.00 25.00           C
ATOM    129  CA  ARG   129      33.370  29.343   1.265  1.00 25.00           C
ATOM    130  CA  CYS   130      33.386  29.841   5.023  1.00 25.00           C
ATOM    131  CA  ALA   131      31.730  28.624   8.212  1.00 25.00           C
ATOM    132  CA  LEU   132      33.063  31.277  10.660  1.00 25.00           C
ATOM    133  CA  PRO   133      36.231  29.297  11.368  1.00 25.00           C
ATOM    134  CA  GLU   134      35.428  29.909  15.047  1.00 25.00           C
ATOM    135  CA  GLY   135      37.469  33.029  15.696  1.00 25.00           C
ATOM    136  CA  ILE   136      35.345  36.155  15.069  1.00 25.00           C
ATOM    137  CA  ASP   137      31.858  34.818  15.921  1.00 25.00           C
ATOM    138  CA  ARG   138      33.297  32.906  18.912  1.00 25.00           C
ATOM    139  CA  TRP   139      35.077  36.078  20.114  1.00 25.00           C
ATOM    140  CA  LEU   140      31.814  38.057  19.800  1.00 25.00           C
ATOM    141  CA  GLU   141      29.960  35.368  21.801  1.00 25.00           C
ATOM    142  CA  ALA   142      32.660  35.492  24.514  1.00 25.00           C
ATOM    143  CA  SER   143      32.368  39.307  24.665  1.00 25.00           C
ATOM    144  CA  GLY   144      29.936  38.894  27.560  1.00 25.00           C
ATOM    145  CA  VAL   145      26.943  36.845  28.672  1.00 25.00           C
ATOM    146  CA  GLY   146      24.369  34.552  30.125  1.00 25.00           C
ATOM    147  CA  LYS   147      26.832  33.144  32.638  1.00 25.00           C
ATOM    148  CA  ILE   148      30.088  34.498  33.961  1.00 25.00           C
ATOM    149  CA  GLY   149      28.402  35.935  37.130  1.00 25.00           C
ATOM    150  CA  SER   150      28.881  39.246  38.872  1.00 25.00           C
ATOM    151  CA  ILE   151      26.679  42.378  38.897  1.00 25.00           C
TER
END
