
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  144 ( 1169),  selected  144 , name T0362.pdb
# PARAMETERS: T0362TS168_4.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      N       2           #
LGA    N       5      P       3           #
LGA    W       6      E       4          1.153
LGA    -       -      N       5           -
LGA    -       -      W       6           -
LGA    L       7      L       7           #
LGA    L       8      L       8          3.087
LGA    L       9      L       9          2.269
LGA    R      10      R      10          1.861
LGA    R      11      R      11          2.360
LGA    V      12      V      12          3.004
LGA    V      13      V      13          4.317
LGA    R      14      R      14          3.582
LGA    F      15      F      15           #
LGA    G      16      G      16          1.927
LGA    D      17      D      17          3.111
LGA    T      18      T      18          3.043
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           #
LGA    M      24      M      24          2.495
LGA    H      25      H      25          2.072
LGA    F      26      F      26          2.198
LGA    H      27      H      27          2.122
LGA    Q      28      Q      28          1.236
LGA    L      29      L      29          1.164
LGA    F      30      F      30          1.108
LGA    R      31      R      31          1.050
LGA    W      32      W      32          1.077
LGA    C      33      C      33          1.019
LGA    H      34      H      34          1.121
LGA    E      35      E      35          0.920
LGA    S      36      S      36          0.661
LGA    W      37      W      37          0.919
LGA    E      38      E      38          0.936
LGA    E      39      E      39          0.622
LGA    S      40      S      40          0.796
LGA    L      41      L      41          1.412
LGA    E      42      E      42          1.188
LGA    S      43      S      43          1.477
LGA    Y      44      Y      44          2.263
LGA    G      45      G      45          2.082
LGA    L      46      L      46          3.631
LGA    N      47      N      47          4.613
LGA    P      48      P      48          2.536
LGA    A      49      A      49          1.373
LGA    D      50      -       -           -
LGA    I      51      -       -           -
LGA    F      52      -       -           -
LGA    P      53      -       -           -
LGA    G      54      -       -           -
LGA    S      55      -       -           -
LGA    R      56      D      50          4.660
LGA    -       -      I      51           -
LGA    -       -      F      52           -
LGA    -       -      P      53           -
LGA    -       -      G      54           -
LGA    -       -      S      55           -
LGA    -       -      R      56           -
LGA    -       -      K      57           -
LGA    -       -      S      58           -
LGA    K      57      E      59          5.447
LGA    S      58      -       -           -
LGA    E      59      -       -           -
LGA    V      60      -       -           -
LGA    T      61      V      60          5.332
LGA    P      62      T      61          5.262
LGA    E      63      P      62          2.828
LGA    -       -      E      63           -
LGA    V      64      V      64          4.718
LGA    A      65      A      65           #
LGA    L      66      L      66           #
LGA    P      67      P      67          4.588
LGA    I      68      I      68          2.625
LGA    I      69      I      69          3.113
LGA    H      70      H      70          1.387
LGA    C      71      C      71          1.107
LGA    Q      72      Q      72          2.693
LGA    A      73      A      73          1.214
LGA    D      74      D      74          1.703
LGA    F      75      F      75          1.516
LGA    R      76      R      76          0.878
LGA    R      77      R      77          1.432
LGA    P      78      P      78          1.433
LGA    I      79      I      79          1.380
LGA    H      80      H      80          2.811
LGA    T      81      T      81          2.923
LGA    G      82      G      82          2.130
LGA    D      83      D      83          1.769
LGA    A      84      A      84          1.888
LGA    L      85      L      85          2.414
LGA    A      86      A      86          2.714
LGA    M      87      M      87          3.255
LGA    E      88      E      88          2.449
LGA    L      89      L      89          2.856
LGA    R      90      R      90          4.205
LGA    P      91      P      91          2.024
LGA    E      92      E      92          1.387
LGA    R      93      R      93          1.735
LGA    L      94      L      94          3.061
LGA    N      95      N      95          1.542
LGA    P      96      P      96           #
LGA    N      97      N      97          3.884
LGA    S      98      S      98          2.679
LGA    F      99      F      99          1.512
LGA    Q     100      Q     100          1.984
LGA    V     101      V     101          2.434
LGA    H     102      H     102          2.707
LGA    F     103      F     103          3.338
LGA    E     104      E     104          0.494
LGA    F     105      F     105          2.855
LGA    R     106      R     106          0.834
LGA    C     107      C     107          2.104
LGA    E     108      E     108          2.147
LGA    E     109      E     109          3.575
LGA    Q     110      Q     110          1.532
LGA    I     111      I     111          1.664
LGA    A     112      A     112          1.690
LGA    A     113      A     113          1.188
LGA    H     114      H     114          2.322
LGA    A     115      A     115          2.048
LGA    L     116      L     116          2.116
LGA    I     117      I     117          2.262
LGA    R     118      R     118          3.822
LGA    H     119      H     119           #
LGA    L     120      L     120           #
LGA    A     121      A     121          4.072
LGA    I     122      I     122           #
LGA    N     123      N     123           -
LGA    A     124      A     124          5.243
LGA    Q     125      -       -           -
LGA    T     126      Q     125           #
LGA    R     127      T     126          5.355
LGA    H     128      R     127          1.078
LGA    R     129      H     128          4.439
LGA    C     130      R     129          3.716
LGA    A     131      C     130          1.552
LGA    L     132      A     131          3.071
LGA    P     133      L     132          2.407
LGA    -       -      P     133           -
LGA    E     134      E     134          4.536
LGA    G     135      G     135           #
LGA    I     136      I     136          3.162
LGA    D     137      D     137          2.728
LGA    R     138      R     138          3.197
LGA    W     139      W     139          5.345
LGA    L     140      L     140           #
LGA    E     141      E     141          3.860
LGA    A     142      A     142          3.852
LGA    S     143      S     143           -
LGA    G     144      G     144           -
LGA    V     145      -       -           -
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    110    2.76    88.18     46.886     3.841

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.592432 * X  +  -0.393390 * Y  +  -0.703043 * Z  +  39.532669
  Y_new =  -0.703454 * X  +   0.172733 * Y  +  -0.689432 * Z  +  45.744625
  Z_new =   0.392654 * X  +   0.902999 * Y  +  -0.174399 * Z  +  12.390029 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.761581   -1.380012  [ DEG:   100.9311    -79.0689 ]
  Theta =  -0.403516   -2.738077  [ DEG:   -23.1197   -156.8802 ]
  Phi   =  -0.870862    2.270730  [ DEG:   -49.8967    130.1033 ]
 
# 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_4                                  
REMARK     2: T0362.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0362TS168_4.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  110   2.76   88.18  46.886
REMARK  ---------------------------------------------------------- 
MOLECULE T0362TS168_4
PFRMAT TS
TARGET T0362
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      41.321  45.032  37.849  1.00 25.00           C
ATOM      2  CA  ASN     2      41.411  47.436  34.938  1.00 25.00           C
ATOM      3  CA  PRO     3      41.318  51.162  34.384  1.00 25.00           C
ATOM      4  CA  GLU     4      40.861  50.911  30.606  1.00 25.00           C
ATOM      5  CA  ASN     5      38.533  51.673  27.704  1.00 25.00           C
ATOM      6  CA  TRP     6      38.077  49.861  24.365  1.00 25.00           C
ATOM      7  CA  LEU     7      39.807  52.811  22.850  1.00 25.00           C
ATOM      8  CA  LEU     8      42.340  50.319  21.641  1.00 25.00           C
ATOM      9  CA  LEU     9      43.084  50.763  17.954  1.00 25.00           C
ATOM     10  CA  ARG    10      45.668  53.552  17.990  1.00 25.00           C
ATOM     11  CA  ARG    11      47.118  54.425  14.572  1.00 25.00           C
ATOM     12  CA  VAL    12      48.878  57.219  12.718  1.00 25.00           C
ATOM     13  CA  VAL    13      47.868  56.984   9.060  1.00 25.00           C
ATOM     14  CA  ARG    14      50.264  59.422   7.472  1.00 25.00           C
ATOM     15  CA  PHE    15      52.251  57.241   5.098  1.00 25.00           C
ATOM     16  CA  GLY    16      54.185  59.171   2.493  1.00 25.00           C
ATOM     17  CA  ASP    17      51.438  61.795   3.038  1.00 25.00           C
ATOM     18  CA  THR    18      48.641  63.035   0.686  1.00 25.00           C
ATOM     19  CA  ASP    19      47.531  63.098  -2.993  1.00 25.00           C
ATOM     20  CA  ALA    20      46.572  61.445  -6.316  1.00 25.00           C
ATOM     21  CA  ALA    21      42.935  60.876  -5.449  1.00 25.00           C
ATOM     22  CA  GLY    22      42.395  62.612  -2.100  1.00 25.00           C
ATOM     23  CA  VAL    23      41.807  62.044   1.639  1.00 25.00           C
ATOM     24  CA  MET    24      44.805  60.587   3.461  1.00 25.00           C
ATOM     25  CA  HIS    25      45.765  58.826   0.186  1.00 25.00           C
ATOM     26  CA  PHE    26      42.489  56.891   0.497  1.00 25.00           C
ATOM     27  CA  HIS    27      45.094  54.111   0.111  1.00 25.00           C
ATOM     28  CA  GLN    28      46.938  55.373   3.221  1.00 25.00           C
ATOM     29  CA  LEU    29      43.652  55.407   5.185  1.00 25.00           C
ATOM     30  CA  PHE    30      42.908  51.825   4.052  1.00 25.00           C
ATOM     31  CA  ARG    31      46.412  50.727   5.139  1.00 25.00           C
ATOM     32  CA  TRP    32      45.898  52.383   8.554  1.00 25.00           C
ATOM     33  CA  CYS    33      42.532  50.598   8.941  1.00 25.00           C
ATOM     34  CA  HIS    34      44.174  47.255   8.050  1.00 25.00           C
ATOM     35  CA  GLU    35      46.929  47.893  10.633  1.00 25.00           C
ATOM     36  CA  SER    36      44.288  48.707  13.285  1.00 25.00           C
ATOM     37  CA  TRP    37      42.409  45.479  12.440  1.00 25.00           C
ATOM     38  CA  GLU    38      45.661  43.478  12.741  1.00 25.00           C
ATOM     39  CA  GLU    39      46.370  45.094  16.140  1.00 25.00           C
ATOM     40  CA  SER    40      42.831  44.225  17.318  1.00 25.00           C
ATOM     41  CA  LEU    41      43.311  40.604  16.169  1.00 25.00           C
ATOM     42  CA  GLU    42      46.642  40.422  18.049  1.00 25.00           C
ATOM     43  CA  SER    43      44.964  41.800  21.204  1.00 25.00           C
ATOM     44  CA  TYR    44      42.175  39.195  20.887  1.00 25.00           C
ATOM     45  CA  GLY    45      44.009  36.067  22.024  1.00 25.00           C
ATOM     46  CA  LEU    46      41.281  34.737  19.809  1.00 25.00           C
ATOM     47  CA  ASN    47      43.462  35.265  16.783  1.00 25.00           C
ATOM     48  CA  PRO    48      46.774  34.610  15.027  1.00 25.00           C
ATOM     49  CA  ALA    49      50.358  33.844  13.915  1.00 25.00           C
ATOM     50  CA  ASP    50      51.622  34.474  17.475  1.00 25.00           C
ATOM     51  CA  ILE    51      48.841  32.771  19.435  1.00 25.00           C
ATOM     52  CA  PHE    52      45.268  31.691  19.859  1.00 25.00           C
ATOM     53  CA  PRO    53      44.845  27.955  20.668  1.00 25.00           C
ATOM     54  CA  GLY    54      41.770  25.673  20.677  1.00 25.00           C
ATOM     55  CA  SER    55      42.039  25.977  16.851  1.00 25.00           C
ATOM     56  CA  ARG    56      45.465  27.042  15.674  1.00 25.00           C
ATOM     57  CA  LYS    57      48.055  24.275  14.947  1.00 25.00           C
ATOM     58  CA  SER    58      45.007  21.956  15.157  1.00 25.00           C
ATOM     59  CA  GLU    59      42.838  23.465  12.500  1.00 25.00           C
ATOM     60  CA  VAL    60      42.989  23.346   8.658  1.00 25.00           C
ATOM     61  CA  THR    61      45.410  26.242   9.127  1.00 25.00           C
ATOM     62  CA  PRO    62      45.941  29.697  10.629  1.00 25.00           C
ATOM     63  CA  GLU    63      45.829  31.690   7.459  1.00 25.00           C
ATOM     64  CA  VAL    64      42.679  33.422   8.642  1.00 25.00           C
ATOM     65  CA  ALA    65      44.319  36.851   8.166  1.00 25.00           C
ATOM     66  CA  LEU    66      43.459  40.560   7.831  1.00 25.00           C
ATOM     67  CA  PRO    67      42.081  40.713   4.228  1.00 25.00           C
ATOM     68  CA  ILE    68      39.556  43.116   2.685  1.00 25.00           C
ATOM     69  CA  ILE    69      36.373  43.871   0.738  1.00 25.00           C
ATOM     70  CA  HIS    70      33.164  45.714   1.517  1.00 25.00           C
ATOM     71  CA  CYS    71      34.621  49.044   2.690  1.00 25.00           C
ATOM     72  CA  GLN    72      31.702  51.337   3.448  1.00 25.00           C
ATOM     73  CA  ALA    73      34.308  54.111   3.789  1.00 25.00           C
ATOM     74  CA  ASP    74      32.735  57.401   5.027  1.00 25.00           C
ATOM     75  CA  PHE    75      35.311  60.245   5.135  1.00 25.00           C
ATOM     76  CA  ARG    76      34.109  63.616   6.451  1.00 25.00           C
ATOM     77  CA  ARG    77      37.447  65.246   7.432  1.00 25.00           C
ATOM     78  CA  PRO    78      40.876  66.693   8.214  1.00 25.00           C
ATOM     79  CA  ILE    79      43.554  64.562   9.891  1.00 25.00           C
ATOM     80  CA  HIS    80      45.523  67.645  10.819  1.00 25.00           C
ATOM     81  CA  THR    81      48.309  66.475   8.577  1.00 25.00           C
ATOM     82  CA  GLY    82      50.295  65.524  11.662  1.00 25.00           C
ATOM     83  CA  ASP    83      47.603  63.171  12.860  1.00 25.00           C
ATOM     84  CA  ALA    84      46.603  60.703  15.632  1.00 25.00           C
ATOM     85  CA  LEU    85      43.815  58.803  13.802  1.00 25.00           C
ATOM     86  CA  ALA    86      41.714  56.582  16.065  1.00 25.00           C
ATOM     87  CA  MET    87      41.111  53.574  13.769  1.00 25.00           C
ATOM     88  CA  GLU    88      38.559  52.097  16.184  1.00 25.00           C
ATOM     89  CA  LEU    89      38.557  48.345  16.600  1.00 25.00           C
ATOM     90  CA  ARG    90      35.898  45.567  16.344  1.00 25.00           C
ATOM     91  CA  PRO    91      33.075  43.059  15.949  1.00 25.00           C
ATOM     92  CA  GLU    92      29.432  43.461  14.916  1.00 25.00           C
ATOM     93  CA  ARG    93      28.886  40.778  12.201  1.00 25.00           C
ATOM     94  CA  LEU    94      28.931  37.257  10.747  1.00 25.00           C
ATOM     95  CA  ASN    95      26.558  35.829   8.165  1.00 25.00           C
ATOM     96  CA  PRO    96      27.806  34.679   4.776  1.00 25.00           C
ATOM     97  CA  ASN    97      31.562  34.902   4.311  1.00 25.00           C
ATOM     98  CA  SER    98      32.641  38.119   5.981  1.00 25.00           C
ATOM     99  CA  PHE    99      32.955  40.133   9.204  1.00 25.00           C
ATOM    100  CA  GLN   100      33.018  43.510  10.890  1.00 25.00           C
ATOM    101  CA  VAL   101      32.209  46.889  12.554  1.00 25.00           C
ATOM    102  CA  HIS   102      34.781  49.520  13.466  1.00 25.00           C
ATOM    103  CA  PHE   103      33.028  52.938  13.540  1.00 25.00           C
ATOM    104  CA  GLU   104      35.874  55.522  13.502  1.00 25.00           C
ATOM    105  CA  PHE   105      36.971  58.201  15.920  1.00 25.00           C
ATOM    106  CA  ARG   106      38.865  61.515  16.243  1.00 25.00           C
ATOM    107  CA  CYS   107      39.665  64.875  17.757  1.00 25.00           C
ATOM    108  CA  GLU   108      38.882  68.195  19.402  1.00 25.00           C
ATOM    109  CA  GLU   109      35.082  67.812  19.490  1.00 25.00           C
ATOM    110  CA  GLN   110      34.248  66.323  16.055  1.00 25.00           C
ATOM    111  CA  ILE   111      33.929  62.616  15.149  1.00 25.00           C
ATOM    112  CA  ALA   112      36.209  62.601  12.100  1.00 25.00           C
ATOM    113  CA  ALA   113      36.454  59.455   9.947  1.00 25.00           C
ATOM    114  CA  HIS   114      36.821  55.880   8.537  1.00 25.00           C
ATOM    115  CA  ALA   115      36.258  52.111   8.266  1.00 25.00           C
ATOM    116  CA  LEU   116      32.889  50.419   8.897  1.00 25.00           C
ATOM    117  CA  ILE   117      34.830  47.276   7.992  1.00 25.00           C
ATOM    118  CA  ARG   118      36.687  44.224   6.685  1.00 25.00           C
ATOM    119  CA  HIS   119      37.758  42.139   9.642  1.00 25.00           C
ATOM    120  CA  LEU   120      38.004  39.382   7.097  1.00 25.00           C
ATOM    121  CA  ALA   121      38.509  35.594   6.619  1.00 25.00           C
ATOM    122  CA  ILE   122      41.096  35.660   3.888  1.00 25.00           C
ATOM    123  CA  ASN   123      44.604  36.595   2.767  1.00 25.00           C
ATOM    124  CA  ALA   124      44.387  33.539   0.487  1.00 25.00           C
ATOM    125  CA  GLN   125      46.891  32.321  -2.003  1.00 25.00           C
ATOM    126  CA  THR   126      44.728  31.518  -4.996  1.00 25.00           C
ATOM    127  CA  ARG   127      41.916  29.959  -3.006  1.00 25.00           C
ATOM    128  CA  HIS   128      38.631  28.933  -1.313  1.00 25.00           C
ATOM    129  CA  ARG   129      36.501  31.228   0.828  1.00 25.00           C
ATOM    130  CA  CYS   130      35.238  30.377   4.313  1.00 25.00           C
ATOM    131  CA  ALA   131      32.343  29.130   6.342  1.00 25.00           C
ATOM    132  CA  LEU   132      33.118  31.969   8.677  1.00 25.00           C
ATOM    133  CA  PRO   133      35.623  29.727  10.452  1.00 25.00           C
ATOM    134  CA  GLU   134      34.092  27.892  13.408  1.00 25.00           C
ATOM    135  CA  GLY   135      33.691  31.144  15.361  1.00 25.00           C
ATOM    136  CA  ILE   136      34.367  34.823  15.141  1.00 25.00           C
ATOM    137  CA  ASP   137      36.056  34.245  18.530  1.00 25.00           C
ATOM    138  CA  ARG   138      34.971  37.729  19.693  1.00 25.00           C
ATOM    139  CA  TRP   139      31.378  37.008  18.580  1.00 25.00           C
ATOM    140  CA  LEU   140      31.428  33.685  20.484  1.00 25.00           C
ATOM    141  CA  GLU   141      32.722  35.470  23.615  1.00 25.00           C
ATOM    142  CA  ALA   142      29.940  38.084  23.304  1.00 25.00           C
ATOM    143  CA  SER   143      27.331  35.302  22.961  1.00 25.00           C
ATOM    144  CA  GLY   144      25.380  33.030  25.293  1.00 25.00           C
ATOM    145  CA  VAL   145      25.315  31.370  28.756  1.00 25.00           C
ATOM    146  CA  GLY   146      23.409  34.250  30.454  1.00 25.00           C
ATOM    147  CA  LYS   147      25.147  36.480  32.996  1.00 25.00           C
ATOM    148  CA  ILE   148      24.853  40.266  32.856  1.00 25.00           C
ATOM    149  CA  GLY   149      21.629  42.189  32.460  1.00 25.00           C
ATOM    150  CA  SER   150      21.209  45.902  31.800  1.00 25.00           C
ATOM    151  CA  ILE   151      22.253  49.394  30.664  1.00 25.00           C
TER
END
