
#######################################################
#                                                     #
#                        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  157 (  157),  selected  157 , name T0322TS168_4
# Molecule2: number of CA atoms  142 ( 1089),  selected  142 , name T0322.pdb
# PARAMETERS: T0322TS168_4.T0322.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      A      12           -
LGA    S       2      I      13           -
LGA    D       3      P      14           -
LGA    D       4      E      15           -
LGA    L       5      G      16           -
LGA    T       6      F      17           -
LGA    D       7      S      18           -
LGA    A       8      Q      19           -
LGA    Q       9      L      20           -
LGA    T      10      -       -           -
LGA    A      11      -       -           -
LGA    A      12      -       -           -
LGA    I      13      -       -           -
LGA    P      14      -       -           -
LGA    E      15      -       -           -
LGA    G      16      -       -           -
LGA    F      17      -       -           -
LGA    S      18      -       -           -
LGA    Q      19      -       -           -
LGA    L      20      -       -           -
LGA    N      21      -       -           -
LGA    W      22      -       -           -
LGA    S      23      N      21           #
LGA    R      24      W      22          3.840
LGA    -       -      S      23           -
LGA    -       -      R      24           -
LGA    G      25      G      25          2.594
LGA    F      26      F      26          3.319
LGA    G      27      G      27          2.698
LGA    R      28      R      28          2.878
LGA    Q      29      Q      29          2.693
LGA    I      30      I      30          1.656
LGA    G      31      G      31          1.664
LGA    -       -      P      32           -
LGA    P      32      L      33          0.768
LGA    L      33      F      34          3.870
LGA    F      34      E      35          1.322
LGA    E      35      H      36          1.982
LGA    -       -      R      37           -
LGA    -       -      E      38           -
LGA    -       -      G      39           -
LGA    H      36      P      40           #
LGA    R      37      G      41          2.714
LGA    E      38      -       -           -
LGA    G      39      -       -           -
LGA    P      40      -       -           -
LGA    G      41      -       -           -
LGA    Q      42      Q      42           #
LGA    A      43      A      43          2.693
LGA    R      44      R      44          2.993
LGA    L      45      L      45          2.041
LGA    A      46      A      46          1.808
LGA    F      47      F      47          1.719
LGA    R      48      R      48          1.829
LGA    V      49      V      49          1.475
LGA    E      50      E      50          0.834
LGA    E      51      E      51          1.638
LGA    H      52      H      52          2.135
LGA    H      53      H      53          1.315
LGA    T      54      T      54          0.685
LGA    N      55      N      55          0.664
LGA    G      56      G      56          4.560
LGA    L      57      L      57          3.783
LGA    G      58      G      58          2.181
LGA    N      59      N      59          0.668
LGA    C      60      C      60          0.847
LGA    H      61      H      61          1.328
LGA    G      62      G      62          1.674
LGA    G      63      -       -           -
LGA    M      64      G      63          1.640
LGA    L      65      M      64          1.881
LGA    M      66      L      65          2.417
LGA    S      67      M      66          1.880
LGA    F      68      S      67          1.097
LGA    A      69      F      68          1.460
LGA    D      70      A      69          2.263
LGA    M      71      D      70          2.186
LGA    A      72      M      71          1.519
LGA    W      73      A      72          2.452
LGA    G      74      W      73          4.551
LGA    R      75      G      74          4.736
LGA    I      76      R      75          2.992
LGA    I      77      I      76          2.984
LGA    S      78      I      77          3.387
LGA    L      79      S      78          2.953
LGA    -       -      L      79           -
LGA    -       -      Q      80           -
LGA    Q      80      K      81           #
LGA    K      81      S      82          2.914
LGA    S      82      Y      83          3.831
LGA    Y      83      -       -           -
LGA    S      84      S      84          2.030
LGA    W      85      W      85          0.539
LGA    V      86      V      86          0.762
LGA    T      87      T      87          1.162
LGA    V      88      V      88          1.428
LGA    R      89      R      89          2.067
LGA    L      90      L      90          1.773
LGA    M      91      M      91          1.744
LGA    C      92      C      92          2.246
LGA    D      93      D      93          0.919
LGA    F      94      F      94          0.839
LGA    L      95      L      95          1.880
LGA    S      96      S      96          1.770
LGA    G      97      G      97          1.410
LGA    A      98      A      98          0.839
LGA    K      99      K      99          2.480
LGA    L     100      L     100          2.046
LGA    G     101      G     101          1.818
LGA    D     102      D     102          1.050
LGA    W     103      W     103          0.956
LGA    V     104      V     104          1.915
LGA    E     105      E     105          1.633
LGA    G     106      G     106          1.657
LGA    E     107      E     107          1.085
LGA    G     108      G     108          2.350
LGA    E     109      E     109          2.109
LGA    L     110      L     110          1.376
LGA    I     111      I     111          1.614
LGA    S     112      S     112          1.354
LGA    E     113      E     113          1.947
LGA    E     114      E     114          3.502
LGA    D     115      D     115          4.889
LGA    -       -      M     116           -
LGA    M     116      L     117          2.409
LGA    L     117      F     118          0.664
LGA    F     118      T     119          2.530
LGA    T     119      V     120          1.883
LGA    V     120      R     121          3.348
LGA    R     121      G     122          0.928
LGA    G     122      R     123          3.284
LGA    R     123      I     124          2.220
LGA    I     124      W     125          1.322
LGA    W     125      A     126          3.944
LGA    A     126      G     127          1.596
LGA    G     127      -       -           -
LGA    E     128      E     128          1.382
LGA    R     129      R     129          1.440
LGA    T     130      T     130          1.438
LGA    L     131      L     131          1.743
LGA    I     132      I     132          1.257
LGA    T     133      T     133          1.211
LGA    G     134      G     134          2.977
LGA    T     135      T     135          2.499
LGA    G     136      G     136          1.346
LGA    V     137      V     137          4.190
LGA    F     138      F     138          2.018
LGA    K     139      K     139          1.975
LGA    A     140      A     140          1.700
LGA    L     141      L     141          2.393
LGA    S     142      S     142           #
LGA    A     143      -       -           -
LGA    R     144      -       -           -
LGA    K     145      -       -           -
LGA    P     146      A     143           #
LGA    R     147      R     144           -
LGA    P     148      K     145           -
LGA    G     149      P     146           -
LGA    E     150      R     147           -
LGA    -       -      P     148           -
LGA    -       -      G     149           -
LGA    L     151      E     150          5.270
LGA    A     152      L     151          4.263
LGA    Y     153      A     152           #
LGA    K     154      Y     153          4.278
LGA    E     155      -       -           -
LGA    E     156      -       -           -
LGA    A     157      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  157  142    5.0    111    2.38    66.67     53.364     4.480

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.060098 * X  +  -0.765596 * Y  +  -0.640508 * Z  +  10.436368
  Y_new =  -0.440427 * X  +  -0.555493 * Y  +   0.705303 * Z  +  -5.629489
  Z_new =  -0.895775 * X  +   0.324484 * Y  +  -0.303805 * Z  + -15.313990 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.323292   -0.818300  [ DEG:   133.1148    -46.8852 ]
  Theta =   1.110171    2.031421  [ DEG:    63.6081    116.3919 ]
  Phi   =  -1.706414    1.435179  [ DEG:   -97.7703     82.2297 ]
 
# 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: T0322TS168_4                                  
REMARK     2: T0322.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0322TS168_4.T0322.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  157  142   5.0  111   2.38   66.67  53.364
REMARK  ---------------------------------------------------------- 
MOLECULE T0322TS168_4
PFRMAT TS
TARGET T0322
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      41.454  -1.030 -13.722  1.00 25.00           C
ATOM      2  CA  SER     2      40.786   1.461 -10.907  1.00 25.00           C
ATOM      3  CA  ASP     3      39.594   4.939 -11.672  1.00 25.00           C
ATOM      4  CA  ASP     4      37.646   7.378  -9.424  1.00 25.00           C
ATOM      5  CA  LEU     5      34.183   7.426  -7.789  1.00 25.00           C
ATOM      6  CA  THR     6      36.244   6.905  -4.582  1.00 25.00           C
ATOM      7  CA  ASP     7      35.793   3.391  -3.277  1.00 25.00           C
ATOM      8  CA  ALA     8      34.894   0.979  -0.440  1.00 25.00           C
ATOM      9  CA  GLN     9      35.736   3.673   2.149  1.00 25.00           C
ATOM     10  CA  THR    10      33.543   6.193   0.276  1.00 25.00           C
ATOM     11  CA  ALA    11      32.655   7.967   3.587  1.00 25.00           C
ATOM     12  CA  ALA    12      30.743   4.727   4.333  1.00 25.00           C
ATOM     13  CA  ILE    13      27.348   4.868   2.752  1.00 25.00           C
ATOM     14  CA  PRO    14      26.180   1.801   4.760  1.00 25.00           C
ATOM     15  CA  GLU    15      23.937  -1.245   5.150  1.00 25.00           C
ATOM     16  CA  GLY    16      22.221  -1.441   8.540  1.00 25.00           C
ATOM     17  CA  PHE    17      19.446   1.055   8.214  1.00 25.00           C
ATOM     18  CA  SER    18      17.958   4.375   7.168  1.00 25.00           C
ATOM     19  CA  GLN    19      16.913   6.477   4.141  1.00 25.00           C
ATOM     20  CA  LEU    20      14.225   5.775   1.518  1.00 25.00           C
ATOM     21  CA  ASN    21      11.304   4.284   3.557  1.00 25.00           C
ATOM     22  CA  TRP    22       9.681   0.905   4.248  1.00 25.00           C
ATOM     23  CA  SER    23      11.196  -0.058   0.893  1.00 25.00           C
ATOM     24  CA  ARG    24       8.637  -1.476  -1.505  1.00 25.00           C
ATOM     25  CA  GLY    25       7.284   1.663  -3.210  1.00 25.00           C
ATOM     26  CA  PHE    26       9.070   0.971  -6.480  1.00 25.00           C
ATOM     27  CA  GLY    27       9.826  -2.283  -8.353  1.00 25.00           C
ATOM     28  CA  ARG    28       7.743  -4.256  -5.817  1.00 25.00           C
ATOM     29  CA  GLN    29       4.844  -1.790  -6.243  1.00 25.00           C
ATOM     30  CA  ILE    30       2.886  -4.928  -7.202  1.00 25.00           C
ATOM     31  CA  GLY    31       3.977  -8.037  -5.207  1.00 25.00           C
ATOM     32  CA  PRO    32       5.974  -9.322  -8.224  1.00 25.00           C
ATOM     33  CA  LEU    33       9.385  -9.262  -9.931  1.00 25.00           C
ATOM     34  CA  PHE    34      10.384 -12.825 -10.968  1.00 25.00           C
ATOM     35  CA  GLU    35      10.856 -16.434 -12.073  1.00 25.00           C
ATOM     36  CA  HIS    36      11.373 -18.017 -15.501  1.00 25.00           C
ATOM     37  CA  ARG    37      12.133 -16.584 -18.909  1.00 25.00           C
ATOM     38  CA  GLU    38      13.082 -19.370 -21.253  1.00 25.00           C
ATOM     39  CA  GLY    39      15.230 -17.681 -23.880  1.00 25.00           C
ATOM     40  CA  PRO    40      18.857 -17.162 -22.989  1.00 25.00           C
ATOM     41  CA  GLY    41      18.227 -13.426 -23.634  1.00 25.00           C
ATOM     42  CA  GLN    42      15.171 -12.696 -21.430  1.00 25.00           C
ATOM     43  CA  ALA    43      15.346 -11.435 -17.845  1.00 25.00           C
ATOM     44  CA  ARG    44      12.230 -12.220 -15.758  1.00 25.00           C
ATOM     45  CA  LEU    45       8.526 -11.321 -15.768  1.00 25.00           C
ATOM     46  CA  ALA    46       5.929 -12.023 -13.119  1.00 25.00           C
ATOM     47  CA  PHE    47       2.605 -11.618 -11.211  1.00 25.00           C
ATOM     48  CA  ARG    48       0.957 -12.373  -7.874  1.00 25.00           C
ATOM     49  CA  VAL    49      -2.421 -10.854  -8.755  1.00 25.00           C
ATOM     50  CA  GLU    50      -4.302 -11.154  -5.403  1.00 25.00           C
ATOM     51  CA  GLU    51      -7.657  -9.842  -4.160  1.00 25.00           C
ATOM     52  CA  HIS    52      -5.629  -6.822  -2.961  1.00 25.00           C
ATOM     53  CA  HIS    53      -4.409  -6.191  -6.534  1.00 25.00           C
ATOM     54  CA  THR    54      -7.880  -6.274  -8.046  1.00 25.00           C
ATOM     55  CA  ASN    55     -10.599  -4.754 -10.205  1.00 25.00           C
ATOM     56  CA  GLY    56     -14.303  -3.980 -10.432  1.00 25.00           C
ATOM     57  CA  LEU    57     -15.045  -7.440 -11.762  1.00 25.00           C
ATOM     58  CA  GLY    58     -13.351 -10.211  -9.765  1.00 25.00           C
ATOM     59  CA  ASN    59     -10.194  -9.665 -11.765  1.00 25.00           C
ATOM     60  CA  CYS    60      -6.421  -9.090 -12.277  1.00 25.00           C
ATOM     61  CA  HIS    61      -6.072  -5.343 -12.739  1.00 25.00           C
ATOM     62  CA  GLY    62      -6.014  -6.171 -16.490  1.00 25.00           C
ATOM     63  CA  GLY    63      -4.427  -4.039 -19.247  1.00 25.00           C
ATOM     64  CA  MET    64      -2.800  -1.792 -16.606  1.00 25.00           C
ATOM     65  CA  LEU    65      -1.435  -4.876 -14.790  1.00 25.00           C
ATOM     66  CA  MET    66      -0.020  -6.222 -18.083  1.00 25.00           C
ATOM     67  CA  SER    67       1.640  -2.842 -18.779  1.00 25.00           C
ATOM     68  CA  PHE    68       3.166  -2.840 -15.267  1.00 25.00           C
ATOM     69  CA  ALA    69       4.492  -6.391 -15.813  1.00 25.00           C
ATOM     70  CA  ASP    70       6.024  -5.330 -19.160  1.00 25.00           C
ATOM     71  CA  MET    71       7.682  -2.318 -17.473  1.00 25.00           C
ATOM     72  CA  ALA    72       9.091  -4.595 -14.735  1.00 25.00           C
ATOM     73  CA  TRP    73      10.460  -6.987 -17.395  1.00 25.00           C
ATOM     74  CA  GLY    74      12.092  -4.049 -19.232  1.00 25.00           C
ATOM     75  CA  ARG    75      13.673  -2.848 -15.958  1.00 25.00           C
ATOM     76  CA  ILE    76      15.008  -6.373 -15.281  1.00 25.00           C
ATOM     77  CA  ILE    77      16.480  -6.520 -18.814  1.00 25.00           C
ATOM     78  CA  SER    78      18.150  -3.115 -18.286  1.00 25.00           C
ATOM     79  CA  LEU    79      19.615  -4.321 -14.959  1.00 25.00           C
ATOM     80  CA  GLN    80      22.087  -1.431 -15.528  1.00 25.00           C
ATOM     81  CA  LYS    81      25.018  -2.800 -17.464  1.00 25.00           C
ATOM     82  CA  SER    82      24.134  -0.879 -20.659  1.00 25.00           C
ATOM     83  CA  TYR    83      21.460   1.566 -19.615  1.00 25.00           C
ATOM     84  CA  SER    84      18.929   3.671 -17.744  1.00 25.00           C
ATOM     85  CA  TRP    85      16.049   1.753 -19.362  1.00 25.00           C
ATOM     86  CA  VAL    86      12.972   3.703 -20.564  1.00 25.00           C
ATOM     87  CA  THR    87       9.286   2.689 -20.778  1.00 25.00           C
ATOM     88  CA  VAL    88       9.321   3.534 -24.491  1.00 25.00           C
ATOM     89  CA  ARG    89       5.653   2.466 -24.541  1.00 25.00           C
ATOM     90  CA  LEU    90       2.982  -0.163 -23.611  1.00 25.00           C
ATOM     91  CA  MET    91       0.101  -0.761 -26.048  1.00 25.00           C
ATOM     92  CA  CYS    92      -2.081  -3.107 -23.964  1.00 25.00           C
ATOM     93  CA  ASP    93      -3.720  -5.817 -26.071  1.00 25.00           C
ATOM     94  CA  PHE    94      -6.407  -7.415 -23.905  1.00 25.00           C
ATOM     95  CA  LEU    95      -8.601 -10.370 -24.739  1.00 25.00           C
ATOM     96  CA  SER    96     -10.048 -12.433 -21.949  1.00 25.00           C
ATOM     97  CA  GLY    97      -9.219 -13.225 -18.271  1.00 25.00           C
ATOM     98  CA  ALA    98      -7.569 -13.741 -14.930  1.00 25.00           C
ATOM     99  CA  LYS    99      -9.708 -15.848 -12.602  1.00 25.00           C
ATOM    100  CA  LEU   100      -8.447 -15.142  -9.068  1.00 25.00           C
ATOM    101  CA  GLY   101      -5.788 -17.575  -8.084  1.00 25.00           C
ATOM    102  CA  ASP   102      -3.594 -17.609 -11.162  1.00 25.00           C
ATOM    103  CA  TRP   103      -0.020 -16.452 -11.584  1.00 25.00           C
ATOM    104  CA  VAL   104      -1.163 -13.832 -14.141  1.00 25.00           C
ATOM    105  CA  GLU   105       2.226 -14.239 -15.793  1.00 25.00           C
ATOM    106  CA  GLY   106       5.138 -14.097 -18.236  1.00 25.00           C
ATOM    107  CA  GLU   107       7.910 -13.563 -20.704  1.00 25.00           C
ATOM    108  CA  GLY   108       9.820 -10.385 -21.302  1.00 25.00           C
ATOM    109  CA  GLU   109      11.650 -10.914 -24.591  1.00 25.00           C
ATOM    110  CA  LEU   110      14.677  -9.561 -26.449  1.00 25.00           C
ATOM    111  CA  ILE   111      14.246  -9.677 -30.237  1.00 25.00           C
ATOM    112  CA  SER   112      15.975  -7.092 -32.329  1.00 25.00           C
ATOM    113  CA  GLU   113      17.724  -3.761 -32.822  1.00 25.00           C
ATOM    114  CA  GLU   114      17.306  -1.230 -35.680  1.00 25.00           C
ATOM    115  CA  ASP   115      16.580   1.510 -33.079  1.00 25.00           C
ATOM    116  CA  MET   116      14.649   0.270 -30.048  1.00 25.00           C
ATOM    117  CA  LEU   117      14.950  -2.687 -27.680  1.00 25.00           C
ATOM    118  CA  PHE   118      11.861  -4.767 -27.073  1.00 25.00           C
ATOM    119  CA  THR   119       9.903  -7.691 -28.495  1.00 25.00           C
ATOM    120  CA  VAL   120       7.817  -7.307 -25.340  1.00 25.00           C
ATOM    121  CA  ARG   121       5.304 -10.072 -24.698  1.00 25.00           C
ATOM    122  CA  GLY   122       3.877 -10.230 -21.188  1.00 25.00           C
ATOM    123  CA  ARG   123       2.091 -13.469 -22.252  1.00 25.00           C
ATOM    124  CA  ILE   124      -0.677 -14.609 -19.907  1.00 25.00           C
ATOM    125  CA  TRP   125       1.150 -17.897 -19.276  1.00 25.00           C
ATOM    126  CA  ALA   126      -0.288 -20.202 -16.640  1.00 25.00           C
ATOM    127  CA  GLY   127      -0.896 -23.955 -17.103  1.00 25.00           C
ATOM    128  CA  GLU   128      -3.312 -22.955 -19.866  1.00 25.00           C
ATOM    129  CA  ARG   129      -3.301 -19.637 -21.706  1.00 25.00           C
ATOM    130  CA  THR   130      -3.697 -16.532 -23.754  1.00 25.00           C
ATOM    131  CA  LEU   131      -5.077 -13.331 -22.264  1.00 25.00           C
ATOM    132  CA  ILE   132      -2.672 -10.433 -22.303  1.00 25.00           C
ATOM    133  CA  THR   133      -0.558 -10.534 -25.538  1.00 25.00           C
ATOM    134  CA  GLY   134       1.124  -7.311 -24.530  1.00 25.00           C
ATOM    135  CA  THR   135       3.082  -4.965 -26.699  1.00 25.00           C
ATOM    136  CA  GLY   136       6.194  -2.702 -26.612  1.00 25.00           C
ATOM    137  CA  VAL   137       8.281  -1.760 -23.557  1.00 25.00           C
ATOM    138  CA  PHE   138      12.084  -1.189 -23.569  1.00 25.00           C
ATOM    139  CA  LYS   139      14.603   1.368 -24.694  1.00 25.00           C
ATOM    140  CA  ALA   140      18.282   1.197 -23.949  1.00 25.00           C
ATOM    141  CA  LEU   141      19.607   4.713 -23.135  1.00 25.00           C
ATOM    142  CA  SER   142      20.394   8.420 -22.709  1.00 25.00           C
ATOM    143  CA  ALA   143      22.460  10.219 -20.069  1.00 25.00           C
ATOM    144  CA  ARG   144      24.753  11.517 -22.791  1.00 25.00           C
ATOM    145  CA  LYS   145      25.961   8.175 -24.165  1.00 25.00           C
ATOM    146  CA  PRO   146      27.500   4.852 -25.023  1.00 25.00           C
ATOM    147  CA  ARG   147      27.540   1.446 -26.585  1.00 25.00           C
ATOM    148  CA  PRO   148      27.074  -2.212 -25.678  1.00 25.00           C
ATOM    149  CA  GLY   149      25.458  -5.007 -23.587  1.00 25.00           C
ATOM    150  CA  GLU   150      25.051  -7.186 -20.516  1.00 25.00           C
ATOM    151  CA  LEU   151      21.526  -6.921 -19.087  1.00 25.00           C
ATOM    152  CA  ALA   152      21.259  -9.123 -16.000  1.00 25.00           C
ATOM    153  CA  TYR   153      22.786 -12.241 -14.446  1.00 25.00           C
ATOM    154  CA  LYS   154      26.182 -13.239 -13.210  1.00 25.00           C
ATOM    155  CA  GLU   155      26.604 -14.146  -9.535  1.00 25.00           C
ATOM    156  CA  GLU   156      23.121 -13.307  -8.128  1.00 25.00           C
ATOM    157  CA  ALA   157      22.087  -9.603  -8.227  1.00 25.00           C
TER
END
