
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS168_1
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS168_1.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    A       3      N       5           -
LGA    M       4      L       6           -
LGA    N       5      K       7           -
LGA    L       6      R       8           -
LGA    -       -      E       9           -
LGA    -       -      Q      10           -
LGA    -       -      E      11           -
LGA    -       -      F      12           -
LGA    -       -      V      13           -
LGA    K       7      S      14           #
LGA    R       8      Q      15          0.504
LGA    E       9      -       -           -
LGA    Q      10      -       -           -
LGA    E      11      -       -           -
LGA    F      12      -       -           -
LGA    V      13      -       -           -
LGA    S      14      -       -           -
LGA    Q      15      -       -           -
LGA    Y      16      -       -           -
LGA    H      17      -       -           -
LGA    F      18      -       -           -
LGA    D      19      -       -           -
LGA    A      20      -       -           -
LGA    R      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      -       -           -
LGA    E      24      -       -           -
LGA    W      25      -       -           -
LGA    E      26      -       -           -
LGA    N      27      -       -           -
LGA    E      28      -       -           -
LGA    N      29      -       -           -
LGA    G      30      -       -           -
LGA    A      31      -       -           -
LGA    P      32      -       -           -
LGA    E      33      -       -           -
LGA    T      34      -       -           -
LGA    K      35      -       -           -
LGA    V      36      -       -           -
LGA    D      37      -       -           -
LGA    V      38      -       -           -
LGA    N      39      Y      16          3.277
LGA    F      40      H      17          5.113
LGA    Q      41      F      18           #
LGA    L      42      D      19           -
LGA    -       -      A      20           -
LGA    -       -      R      21           -
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      E      24           -
LGA    -       -      W      25           -
LGA    -       -      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    -       -      N      29           -
LGA    -       -      G      30           -
LGA    -       -      A      31           -
LGA    L      43      P      32           #
LGA    Q      44      E      33          2.356
LGA    H      45      -       -           -
LGA    D      46      -       -           -
LGA    Q      47      -       -           -
LGA    E      48      -       -           -
LGA    N      49      -       -           -
LGA    Q      50      -       -           -
LGA    V      51      T      34          4.044
LGA    T      52      K      35          1.546
LGA    S      53      V      36          2.395
LGA    L      54      D      37           #
LGA    -       -      V      38           -
LGA    -       -      N      39           -
LGA    -       -      F      40           -
LGA    -       -      Q      41           -
LGA    -       -      L      42           -
LGA    -       -      L      43           -
LGA    -       -      Q      44           -
LGA    -       -      H      45           -
LGA    -       -      D      46           -
LGA    -       -      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    -       -      Q      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    -       -      S      53           -
LGA    -       -      L      54           -
LGA    -       -      I      55           -
LGA    -       -      V      56           -
LGA    -       -      I      57           -
LGA    -       -      L      58           -
LGA    I      55      S      59          1.678
LGA    -       -      F      60           -
LGA    -       -      M      61           -
LGA    -       -      I      62           -
LGA    -       -      V      63           -
LGA    -       -      F      64           -
LGA    -       -      D      65           -
LGA    -       -      K      66           -
LGA    -       -      F      67           -
LGA    -       -      V      68           -
LGA    -       -      I      69           -
LGA    -       -      S      70           -
LGA    -       -      G      71           -
LGA    V      56      T      72          2.529
LGA    I      57      I      73          2.348
LGA    L      58      S      74          2.250
LGA    S      59      Q      75           #
LGA    F      60      V      76           -
LGA    M      61      N      77           -
LGA    I      62      H      78           -
LGA    V      63      I      79           -
LGA    F      64      D      80           -
LGA    D      65      G      81           -
LGA    K      66      R      82           -
LGA    F      67      I      83           -
LGA    V      68      -       -           -
LGA    I      69      -       -           -
LGA    S      70      -       -           -
LGA    G      71      -       -           -
LGA    T      72      -       -           -
LGA    I      73      -       -           -
LGA    S      74      -       -           -
LGA    Q      75      -       -           -
LGA    V      76      -       -           -
LGA    N      77      -       -           -
LGA    H      78      -       -           -
LGA    I      79      -       -           -
LGA    D      80      -       -           -
LGA    G      81      -       -           -
LGA    R      82      -       -           -
LGA    I      83      -       -           -
LGA    V      84      V      84           #
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    N      85      P      87          2.763
LGA    E      86      S      88          2.782
LGA    P      87      E      89          3.175
LGA    S      88      L      90          4.124
LGA    E      89      N      91          1.415
LGA    L      90      Q      92          4.611
LGA    N      91      E      93           #
LGA    Q      92      E      94          4.079
LGA    E      93      -       -           -
LGA    E      94      -       -           -
LGA    V      95      V      95           #
LGA    E      96      E      96          3.275
LGA    T      97      T      97          2.391
LGA    L      98      L      98          3.820
LGA    A      99      A      99          0.789
LGA    R     100      R     100          1.572
LGA    P     101      P     101          1.977
LGA    C     102      C     102          1.266
LGA    L     103      L     103          0.859
LGA    N     104      N     104          1.474
LGA    M     105      M     105          1.561
LGA    L     106      L     106          0.949
LGA    N     107      N     107          0.860
LGA    R     108      R     108          0.918
LGA    L     109      L     109          0.697
LGA    T     110      T     110          0.768
LGA    Y     111      Y     111          0.877
LGA    E     112      E     112          0.570
LGA    V     113      V     113          0.658
LGA    T     114      T     114          1.592
LGA    E     115      E     115          1.861
LGA    I     116      I     116          1.236
LGA    A     117      A     117          1.715
LGA    L     118      L     118          1.086
LGA    D     119      D     119          2.169
LGA    L     120      L     120          3.729
LGA    P     121      P     121           -
LGA    G     122      G     122           -
LGA    I     123      I     123           -
LGA    N     124      N     124           -
LGA    L     125      L     125           -
LGA    E     126      E     126           -
LGA    F     127      F     127           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     43    2.41    60.47     25.387     1.714

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.491331 * X  +  -0.194433 * Y  +   0.848994 * Z  +  12.070236
  Y_new =  -0.506914 * X  +   0.856498 * Y  +  -0.097211 * Z  +  26.608021
  Z_new =  -0.708260 * X  +  -0.478130 * Y  +  -0.519384 * Z  +   7.122766 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.397528    0.744064  [ DEG:  -137.3683     42.6317 ]
  Theta =   0.787030    2.354562  [ DEG:    45.0935    134.9065 ]
  Phi   =  -2.340585    0.801008  [ DEG:  -134.1056     45.8944 ]
 
# 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: T0383TS168_1                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS168_1.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   43   2.41   60.47  25.387
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS168_1
PFRMAT TS
TARGET T0383
MODEL 1
PARENT N/A
ATOM      1  CA  SER     1       3.455  12.004 -10.855  1.00 25.00           C
ATOM      2  CA  ASN     2       2.059  15.513 -10.171  1.00 25.00           C
ATOM      3  CA  ALA     3       1.746  15.551  -6.409  1.00 25.00           C
ATOM      4  CA  MET     4       3.907  16.646  -3.431  1.00 25.00           C
ATOM      5  CA  ASN     5       3.690  18.719  -0.182  1.00 25.00           C
ATOM      6  CA  LEU     6       6.877  20.848  -0.449  1.00 25.00           C
ATOM      7  CA  LYS     7       6.223  21.969   3.158  1.00 25.00           C
ATOM      8  CA  ARG     8       6.518  23.343   6.669  1.00 25.00           C
ATOM      9  CA  GLU     9       6.912  20.341   8.983  1.00 25.00           C
ATOM     10  CA  GLN    10       8.596  18.337  11.776  1.00 25.00           C
ATOM     11  CA  GLU    11      10.012  18.365  15.334  1.00 25.00           C
ATOM     12  CA  PHE    12      11.165  21.988  14.874  1.00 25.00           C
ATOM     13  CA  VAL    13       7.686  22.961  13.604  1.00 25.00           C
ATOM     14  CA  SER    14       6.077  21.259  16.634  1.00 25.00           C
ATOM     15  CA  GLN    15       8.452  23.136  18.980  1.00 25.00           C
ATOM     16  CA  TYR    16       9.676  19.746  20.180  1.00 25.00           C
ATOM     17  CA  HIS    17       6.956  19.966  22.882  1.00 25.00           C
ATOM     18  CA  PHE    18       9.524  21.897  24.946  1.00 25.00           C
ATOM     19  CA  ASP    19       8.488  22.961  28.444  1.00 25.00           C
ATOM     20  CA  ALA    20      12.180  23.097  29.123  1.00 25.00           C
ATOM     21  CA  ARG    21      15.661  23.502  27.740  1.00 25.00           C
ATOM     22  CA  ASN    22      14.354  23.746  24.174  1.00 25.00           C
ATOM     23  CA  PHE    23      14.552  21.415  21.173  1.00 25.00           C
ATOM     24  CA  GLU    24      17.797  19.780  22.382  1.00 25.00           C
ATOM     25  CA  TRP    25      19.011  19.457  18.765  1.00 25.00           C
ATOM     26  CA  GLU    26      18.201  23.147  18.137  1.00 25.00           C
ATOM     27  CA  ASN    27      20.126  24.132  21.299  1.00 25.00           C
ATOM     28  CA  GLU    28      23.125  22.042  20.155  1.00 25.00           C
ATOM     29  CA  ASN    29      23.626  18.943  22.215  1.00 25.00           C
ATOM     30  CA  GLY    30      23.634  15.812  19.983  1.00 25.00           C
ATOM     31  CA  ALA    31      22.878  17.064  16.443  1.00 25.00           C
ATOM     32  CA  PRO    32      24.195  17.312  12.836  1.00 25.00           C
ATOM     33  CA  GLU    33      23.240  20.776  11.676  1.00 25.00           C
ATOM     34  CA  THR    34      20.026  19.921   9.717  1.00 25.00           C
ATOM     35  CA  LYS    35      18.441  20.092   6.229  1.00 25.00           C
ATOM     36  CA  VAL    36      18.034  23.786   6.715  1.00 25.00           C
ATOM     37  CA  ASP    37      14.326  24.785   6.487  1.00 25.00           C
ATOM     38  CA  VAL    38      11.086  24.498   8.458  1.00 25.00           C
ATOM     39  CA  ASN    39       9.181  26.186   5.630  1.00 25.00           C
ATOM     40  CA  PHE    40       6.700  27.340   3.070  1.00 25.00           C
ATOM     41  CA  GLN    41       6.292  29.707   0.144  1.00 25.00           C
ATOM     42  CA  LEU    42       3.021  31.586   0.806  1.00 25.00           C
ATOM     43  CA  LEU    43       3.663  33.634  -2.357  1.00 25.00           C
ATOM     44  CA  GLN    44       1.242  34.872  -5.097  1.00 25.00           C
ATOM     45  CA  HIS    45      -1.060  35.908  -7.955  1.00 25.00           C
ATOM     46  CA  ASP    46      -4.034  35.274  -5.668  1.00 25.00           C
ATOM     47  CA  GLN    47      -5.051  35.718  -2.002  1.00 25.00           C
ATOM     48  CA  GLU    48      -1.445  36.629  -1.088  1.00 25.00           C
ATOM     49  CA  ASN    49      -1.343  39.185  -3.939  1.00 25.00           C
ATOM     50  CA  GLN    50       0.643  42.371  -3.477  1.00 25.00           C
ATOM     51  CA  VAL    51       4.156  40.922  -3.104  1.00 25.00           C
ATOM     52  CA  THR    52       4.223  39.060   0.195  1.00 25.00           C
ATOM     53  CA  SER    53       6.311  36.198   1.625  1.00 25.00           C
ATOM     54  CA  LEU    54       6.761  33.223   4.028  1.00 25.00           C
ATOM     55  CA  ILE    55       6.449  30.845   7.026  1.00 25.00           C
ATOM     56  CA  VAL    56       4.438  28.191   8.885  1.00 25.00           C
ATOM     57  CA  ILE    57       7.695  27.814  10.889  1.00 25.00           C
ATOM     58  CA  LEU    58      10.817  27.197  12.973  1.00 25.00           C
ATOM     59  CA  SER    59      14.161  27.310  11.150  1.00 25.00           C
ATOM     60  CA  PHE    60      16.991  24.878  11.723  1.00 25.00           C
ATOM     61  CA  MET    61      14.764  21.921  11.047  1.00 25.00           C
ATOM     62  CA  ILE    62      13.856  18.969   8.851  1.00 25.00           C
ATOM     63  CA  VAL    63      13.965  15.410  10.092  1.00 25.00           C
ATOM     64  CA  PHE    64      11.905  12.668   8.356  1.00 25.00           C
ATOM     65  CA  ASP    65      11.731   8.852   7.996  1.00 25.00           C
ATOM     66  CA  LYS    66      12.898   6.625   5.140  1.00 25.00           C
ATOM     67  CA  PHE    67      15.453   9.168   3.838  1.00 25.00           C
ATOM     68  CA  VAL    68      15.744  12.893   4.585  1.00 25.00           C
ATOM     69  CA  ILE    69      13.564  15.966   4.343  1.00 25.00           C
ATOM     70  CA  SER    70      10.142  16.696   5.957  1.00 25.00           C
ATOM     71  CA  GLY    71      10.489  20.429   5.354  1.00 25.00           C
ATOM     72  CA  THR    72      13.654  20.839   3.276  1.00 25.00           C
ATOM     73  CA  ILE    73      11.555  23.530   1.484  1.00 25.00           C
ATOM     74  CA  SER    74      12.043  27.304   1.676  1.00 25.00           C
ATOM     75  CA  GLN    75      11.257  30.303   3.851  1.00 25.00           C
ATOM     76  CA  VAL    76      11.582  29.863   7.602  1.00 25.00           C
ATOM     77  CA  ASN    77      10.730  32.977   9.591  1.00 25.00           C
ATOM     78  CA  HIS    78       7.592  33.122  11.698  1.00 25.00           C
ATOM     79  CA  ILE    79       4.087  33.815  13.027  1.00 25.00           C
ATOM     80  CA  ASP    80       0.987  32.634  14.833  1.00 25.00           C
ATOM     81  CA  GLY    81      -1.361  35.349  16.233  1.00 25.00           C
ATOM     82  CA  ARG    82       1.287  37.503  17.880  1.00 25.00           C
ATOM     83  CA  ILE    83       5.012  37.793  16.985  1.00 25.00           C
ATOM     84  CA  VAL    84       4.908  40.409  19.801  1.00 25.00           C
ATOM     85  CA  ASN    85       2.354  43.035  20.694  1.00 25.00           C
ATOM     86  CA  GLU    86       2.419  46.665  19.469  1.00 25.00           C
ATOM     87  CA  PRO    87       4.697  49.667  19.606  1.00 25.00           C
ATOM     88  CA  SER    88       8.400  49.289  20.302  1.00 25.00           C
ATOM     89  CA  GLU    89      10.061  48.744  16.905  1.00 25.00           C
ATOM     90  CA  LEU    90       9.695  44.928  16.765  1.00 25.00           C
ATOM     91  CA  ASN    91       9.812  42.453  19.684  1.00 25.00           C
ATOM     92  CA  GLN    92      13.360  42.353  21.063  1.00 25.00           C
ATOM     93  CA  GLU    93      16.953  42.392  19.738  1.00 25.00           C
ATOM     94  CA  GLU    94      17.295  38.651  20.488  1.00 25.00           C
ATOM     95  CA  VAL    95      14.006  37.957  18.654  1.00 25.00           C
ATOM     96  CA  GLU    96      15.228  39.984  15.643  1.00 25.00           C
ATOM     97  CA  THR    97      18.516  38.020  15.625  1.00 25.00           C
ATOM     98  CA  LEU    98      16.574  34.721  15.744  1.00 25.00           C
ATOM     99  CA  ALA    99      14.383  35.877  12.823  1.00 25.00           C
ATOM    100  CA  ARG   100      17.508  36.820  10.819  1.00 25.00           C
ATOM    101  CA  PRO   101      19.036  33.382  11.538  1.00 25.00           C
ATOM    102  CA  CYS   102      15.803  31.679  10.393  1.00 25.00           C
ATOM    103  CA  LEU   103      15.820  33.753   7.175  1.00 25.00           C
ATOM    104  CA  ASN   104      19.469  32.782   6.538  1.00 25.00           C
ATOM    105  CA  MET   105      18.607  29.091   7.080  1.00 25.00           C
ATOM    106  CA  LEU   106      15.679  29.390   4.629  1.00 25.00           C
ATOM    107  CA  ASN   107      17.981  31.023   2.041  1.00 25.00           C
ATOM    108  CA  ARG   108      20.531  28.202   2.493  1.00 25.00           C
ATOM    109  CA  LEU   109      17.766  25.594   2.026  1.00 25.00           C
ATOM    110  CA  THR   110      16.598  27.366  -1.162  1.00 25.00           C
ATOM    111  CA  TYR   111      20.190  27.405  -2.486  1.00 25.00           C
ATOM    112  CA  GLU   112      20.533  23.664  -1.736  1.00 25.00           C
ATOM    113  CA  VAL   113      17.243  22.971  -3.571  1.00 25.00           C
ATOM    114  CA  THR   114      18.466  24.997  -6.581  1.00 25.00           C
ATOM    115  CA  GLU   115      21.753  23.033  -6.599  1.00 25.00           C
ATOM    116  CA  ILE   116      19.811  19.734  -6.481  1.00 25.00           C
ATOM    117  CA  ALA   117      17.620  20.890  -9.401  1.00 25.00           C
ATOM    118  CA  LEU   118      17.630  23.482 -12.208  1.00 25.00           C
ATOM    119  CA  ASP   119      20.399  21.352 -13.852  1.00 25.00           C
ATOM    120  CA  LEU   120      22.934  24.046 -14.806  1.00 25.00           C
ATOM    121  CA  PRO   121      25.103  22.492 -17.543  1.00 25.00           C
ATOM    122  CA  GLY   122      24.912  18.948 -18.912  1.00 25.00           C
ATOM    123  CA  ILE   123      22.019  16.860 -17.593  1.00 25.00           C
ATOM    124  CA  ASN   124      21.091  13.337 -18.571  1.00 25.00           C
ATOM    125  CA  LEU   125      20.396  11.742 -15.236  1.00 25.00           C
ATOM    126  CA  GLU   126      23.236   9.140 -15.280  1.00 25.00           C
ATOM    127  CA  PHE   127      22.445   8.436 -11.578  1.00 25.00           C
TER
END
