
#######################################################
#                                                     #
#                        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  159 (  159),  selected  159 , name T0332TS168_3
# Molecule2: number of CA atoms  159 ( 1235),  selected  159 , name T0332.pdb
# PARAMETERS: T0332TS168_3.T0332.pdb  -4  -ie  -o1  -sia  -d:55A/  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L       1      L       1           -
LGA    G       2      G       2          2.527
LGA    K       3      K       3          4.765
LGA    S       4      S       4          1.499
LGA    I       5      I       5          4.294
LGA    S       6      S       6          2.622
LGA    R       7      R       7          1.066
LGA    L       8      L       8          1.391
LGA    I       9      I       9          1.974
LGA    V      10      V      10          1.829
LGA    V      11      V      11          2.943
LGA    A      12      A      12          1.339
LGA    S      13      S      13          2.981
LGA    L      14      L      14          1.747
LGA    I      15      I      15          1.163
LGA    D      16      D      16          0.742
LGA    K      17      K      17          2.278
LGA    P      18      P      18          2.865
LGA    T      19      T      19          0.735
LGA    N      20      N      20          2.487
LGA    L      21      L      21          2.633
LGA    G      22      G      22          1.355
LGA    G      23      G      23          0.582
LGA    L      24      L      24          1.192
LGA    C      25      C      25          1.715
LGA    R      26      R      26          1.573
LGA    T      27      T      27          0.964
LGA    C      28      C      28          0.359
LGA    E      29      E      29          1.718
LGA    V      30      V      30          2.166
LGA    F      31      F      31          1.560
LGA    G      32      G      32          2.368
LGA    A      33      A      33          1.370
LGA    S      34      S      34          2.641
LGA    V      35      V      35          0.664
LGA    L      36      L      36          0.432
LGA    V      37      V      37          1.023
LGA    V      38      V      38          1.016
LGA    G      39      G      39          1.540
LGA    S      40      -       -           -
LGA    L      41      -       -           -
LGA    Q      42      S      40          4.494
LGA    C      43      L      41          5.401
LGA    I      44      Q      42          0.628
LGA    S      45      C      43           #
LGA    D      46      I      44           #
LGA    K      47      S      45          2.074
LGA    Q      48      D      46          2.584
LGA    -       -      K      47           -
LGA    F      49      Q      48           #
LGA    Q      50      F      49           #
LGA    H      51      Q      50          1.110
LGA    -       -      H      51           -
LGA    L      52      L      52          3.333
LGA    S      53      S      53          2.907
LGA    V      54      V      54          2.663
LGA    S      55      S      55          3.003
LGA    A      56      A      56          4.011
LGA    E      57      E      57          3.909
LGA    Q      58      Q      58          3.974
LGA    W      59      W      59          1.227
LGA    L      60      L      60          1.594
LGA    P      61      P      61          4.820
LGA    L      62      L      62          0.133
LGA    V      63      V      63          1.032
LGA    E      64      E      64          1.034
LGA    V      65      V      65          0.401
LGA    K      66      K      66          1.681
LGA    P      67      P      67           #
LGA    P      68      P      68          3.433
LGA    Q      69      Q      69          3.740
LGA    L      70      L      70          1.360
LGA    I      71      I      71          2.025
LGA    D      72      D      72          1.688
LGA    Y      73      Y      73          0.953
LGA    L      74      L      74          1.684
LGA    Q      75      Q      75          2.621
LGA    Q      76      Q      76          2.234
LGA    K      77      K      77          1.512
LGA    K      78      K      78          2.574
LGA    T      79      T      79          3.034
LGA    E      80      E      80          2.178
LGA    G      81      G      81          1.431
LGA    Y      82      Y      82          0.985
LGA    T      83      T      83           #
LGA    I      84      I      84           #
LGA    I      85      I      85           #
LGA    G      86      G      86          4.023
LGA    V      87      V      87          2.296
LGA    E      88      E      88          3.095
LGA    Q      89      Q      89           #
LGA    T      90      T      90           #
LGA    A      91      -       -           -
LGA    K      92      A      91           #
LGA    -       -      K      92           -
LGA    S      93      S      93          2.174
LGA    L      94      L      94          1.988
LGA    D      95      D      95          1.761
LGA    L      96      L      96          2.956
LGA    T      97      T      97          3.860
LGA    Q      98      Q      98          2.765
LGA    Y      99      Y      99          2.819
LGA    C     100      C     100          2.663
LGA    F     101      F     101          1.720
LGA    P     102      P     102          3.737
LGA    E     103      E     103          2.508
LGA    K     104      K     104          3.981
LGA    S     105      S     105          5.036
LGA    L     106      L     106          4.551
LGA    L     107      L     107          4.503
LGA    L     108      L     108          0.989
LGA    L     109      L     109          2.318
LGA    G     110      G     110          2.814
LGA    N     111      N     111          1.670
LGA    E     112      E     112          1.328
LGA    R     113      R     113          0.966
LGA    E     114      E     114          2.511
LGA    G     115      G     115          0.817
LGA    I     116      I     116          0.340
LGA    P     117      P     117          0.879
LGA    A     118      A     118          0.972
LGA    N     119      N     119          1.760
LGA    L     120      L     120          1.626
LGA    I     121      I     121          1.680
LGA    Q     122      Q     122          1.852
LGA    Q     123      Q     123          1.322
LGA    L     124      L     124          1.612
LGA    D     125      D     125          0.579
LGA    V     126      V     126          0.776
LGA    C     127      C     127          1.871
LGA    V     128      V     128          1.903
LGA    E     129      E     129          4.279
LGA    I     130      I     130           #
LGA    P     131      P     131          4.977
LGA    Q     132      Q     132          0.867
LGA    Q     133      Q     133          2.368
LGA    G     134      G     134          1.431
LGA    I     135      I     135          1.820
LGA    I     136      I     136          2.958
LGA    R     137      R     137          3.348
LGA    S     138      S     138          1.165
LGA    L     139      L     139          1.691
LGA    N     140      N     140          1.695
LGA    V     141      V     141          0.936
LGA    H     142      H     142          1.354
LGA    V     143      V     143          1.201
LGA    S     144      S     144          1.003
LGA    G     145      G     145          1.506
LGA    A     146      A     146          1.690
LGA    L     147      L     147          1.420
LGA    L     148      L     148          1.425
LGA    I     149      I     149          2.180
LGA    W     150      W     150          2.234
LGA    E     151      E     151          1.475
LGA    Y     152      Y     152          1.936
LGA    T     153      T     153          2.772
LGA    R     154      R     154          2.380
LGA    Q     155      Q     155          1.393
LGA    Q     156      Q     156          2.556
LGA    L     157      L     157          3.792
LGA    L     158      L     158          2.799
LGA    S     159      S     159          3.692

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  159  159    5.0    143    2.41    95.80     58.525     5.705

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.537663 * X  +   0.793329 * Y  +   0.285567 * Z  +  27.195841
  Y_new =  -0.255688 * X  +   0.476148 * Y  +  -0.841372 * Z  +  42.895599
  Z_new =  -0.803456 * X  +   0.379358 * Y  +   0.458852 * Z  +  30.918238 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.690844   -2.450749  [ DEG:    39.5824   -140.4176 ]
  Theta =   0.933078    2.208514  [ DEG:    53.4614    126.5386 ]
  Phi   =  -0.443901    2.697692  [ DEG:   -25.4337    154.5663 ]
 
# 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: T0332TS168_3                                  
REMARK     2: T0332.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0332TS168_3.T0332.pdb -4 -ie -o1 -sia -d:55A/ 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  159  159   5.0  143   2.41   95.80  58.525
REMARK  ---------------------------------------------------------- 
MOLECULE T0332TS168_3
PFRMAT TS
TARGET T0332
MODEL 3
PARENT N/A
ATOM      1  CA  LEU     1       8.559  36.463  42.630  1.00 25.00           C
ATOM      2  CA  GLY     2       8.807  33.084  44.473  1.00 25.00           C
ATOM      3  CA  LYS     3      12.355  31.996  45.211  1.00 25.00           C
ATOM      4  CA  SER     4      14.489  34.613  43.446  1.00 25.00           C
ATOM      5  CA  ILE     5      17.571  33.384  41.538  1.00 25.00           C
ATOM      6  CA  SER     6      19.006  36.807  42.348  1.00 25.00           C
ATOM      7  CA  ARG     7      21.808  37.829  39.929  1.00 25.00           C
ATOM      8  CA  LEU     8      23.283  37.731  36.410  1.00 25.00           C
ATOM      9  CA  ILE     9      22.835  41.495  36.682  1.00 25.00           C
ATOM     10  CA  VAL    10      24.211  42.221  33.263  1.00 25.00           C
ATOM     11  CA  VAL    11      26.482  44.660  31.508  1.00 25.00           C
ATOM     12  CA  ALA    12      28.843  47.477  30.522  1.00 25.00           C
ATOM     13  CA  SER    13      31.953  49.668  30.393  1.00 25.00           C
ATOM     14  CA  LEU    14      33.271  52.391  28.167  1.00 25.00           C
ATOM     15  CA  ILE    15      29.864  51.951  26.439  1.00 25.00           C
ATOM     16  CA  ASP    16      29.346  54.234  23.408  1.00 25.00           C
ATOM     17  CA  LYS    17      26.898  56.014  21.033  1.00 25.00           C
ATOM     18  CA  PRO    18      25.003  52.749  21.020  1.00 25.00           C
ATOM     19  CA  THR    19      21.728  51.308  19.653  1.00 25.00           C
ATOM     20  CA  ASN    20      23.074  47.752  20.109  1.00 25.00           C
ATOM     21  CA  LEU    21      24.087  48.570  23.710  1.00 25.00           C
ATOM     22  CA  GLY    22      20.595  49.985  24.397  1.00 25.00           C
ATOM     23  CA  GLY    23      19.001  46.817  22.950  1.00 25.00           C
ATOM     24  CA  LEU    24      21.252  44.645  25.159  1.00 25.00           C
ATOM     25  CA  CYS    25      20.270  46.709  28.231  1.00 25.00           C
ATOM     26  CA  ARG    26      16.565  46.307  27.348  1.00 25.00           C
ATOM     27  CA  THR    27      17.039  42.524  26.976  1.00 25.00           C
ATOM     28  CA  CYS    28      18.784  42.383  30.381  1.00 25.00           C
ATOM     29  CA  GLU    29      15.910  44.356  31.964  1.00 25.00           C
ATOM     30  CA  VAL    30      13.368  41.955  30.402  1.00 25.00           C
ATOM     31  CA  PHE    31      15.251  38.654  29.723  1.00 25.00           C
ATOM     32  CA  GLY    32      15.853  37.350  33.280  1.00 25.00           C
ATOM     33  CA  ALA    33      17.843  40.003  35.026  1.00 25.00           C
ATOM     34  CA  SER    34      17.697  43.506  36.611  1.00 25.00           C
ATOM     35  CA  VAL    35      20.440  46.129  36.840  1.00 25.00           C
ATOM     36  CA  LEU    36      22.545  47.141  33.837  1.00 25.00           C
ATOM     37  CA  VAL    37      25.820  48.816  34.543  1.00 25.00           C
ATOM     38  CA  VAL    38      26.509  51.697  32.188  1.00 25.00           C
ATOM     39  CA  GLY    39      29.611  53.936  31.976  1.00 25.00           C
ATOM     40  CA  SER    40      31.675  57.085  31.315  1.00 25.00           C
ATOM     41  CA  LEU    41      29.986  56.836  27.851  1.00 25.00           C
ATOM     42  CA  GLN    42      28.164  59.983  28.997  1.00 25.00           C
ATOM     43  CA  CYS    43      24.768  58.555  28.040  1.00 25.00           C
ATOM     44  CA  ILE    44      22.589  60.358  30.552  1.00 25.00           C
ATOM     45  CA  SER    45      20.706  63.093  28.666  1.00 25.00           C
ATOM     46  CA  ASP    46      21.586  61.895  25.180  1.00 25.00           C
ATOM     47  CA  LYS    47      18.321  59.933  25.487  1.00 25.00           C
ATOM     48  CA  GLN    48      18.799  57.237  22.809  1.00 25.00           C
ATOM     49  CA  PHE    49      19.562  54.643  25.522  1.00 25.00           C
ATOM     50  CA  GLN    50      16.410  55.678  27.433  1.00 25.00           C
ATOM     51  CA  HIS    51      14.332  55.351  24.232  1.00 25.00           C
ATOM     52  CA  LEU    52      15.797  51.868  23.607  1.00 25.00           C
ATOM     53  CA  SER    53      14.956  50.843  27.201  1.00 25.00           C
ATOM     54  CA  VAL    54      12.265  48.420  25.891  1.00 25.00           C
ATOM     55  CA  SER    55      10.873  48.958  29.428  1.00 25.00           C
ATOM     56  CA  ALA    56      12.573  51.647  31.531  1.00 25.00           C
ATOM     57  CA  GLU    57      14.301  52.735  34.772  1.00 25.00           C
ATOM     58  CA  GLN    58      11.749  50.752  36.828  1.00 25.00           C
ATOM     59  CA  TRP    59      12.293  47.579  34.730  1.00 25.00           C
ATOM     60  CA  LEU    60      15.998  48.062  35.442  1.00 25.00           C
ATOM     61  CA  PRO    61      18.037  49.847  32.763  1.00 25.00           C
ATOM     62  CA  LEU    62      19.829  51.089  35.845  1.00 25.00           C
ATOM     63  CA  VAL    63      23.145  52.425  37.018  1.00 25.00           C
ATOM     64  CA  GLU    64      25.721  54.973  35.906  1.00 25.00           C
ATOM     65  CA  VAL    65      29.160  54.144  37.212  1.00 25.00           C
ATOM     66  CA  LYS    66      32.480  55.976  36.584  1.00 25.00           C
ATOM     67  CA  PRO    67      32.354  56.784  40.334  1.00 25.00           C
ATOM     68  CA  PRO    68      36.109  56.228  40.096  1.00 25.00           C
ATOM     69  CA  GLN    69      37.760  53.395  38.112  1.00 25.00           C
ATOM     70  CA  LEU    70      34.970  51.059  39.247  1.00 25.00           C
ATOM     71  CA  ILE    71      37.199  49.557  41.975  1.00 25.00           C
ATOM     72  CA  ASP    72      34.892  50.984  44.678  1.00 25.00           C
ATOM     73  CA  TYR    73      31.844  49.498  42.898  1.00 25.00           C
ATOM     74  CA  LEU    74      33.590  46.095  42.699  1.00 25.00           C
ATOM     75  CA  GLN    75      34.411  46.271  46.436  1.00 25.00           C
ATOM     76  CA  GLN    76      30.761  47.120  47.223  1.00 25.00           C
ATOM     77  CA  LYS    77      29.587  44.157  45.100  1.00 25.00           C
ATOM     78  CA  LYS    78      32.025  41.844  46.937  1.00 25.00           C
ATOM     79  CA  THR    79      30.732  43.118  50.309  1.00 25.00           C
ATOM     80  CA  GLU    80      28.321  40.239  49.915  1.00 25.00           C
ATOM     81  CA  GLY    81      29.112  37.505  47.318  1.00 25.00           C
ATOM     82  CA  TYR    82      29.644  38.563  43.710  1.00 25.00           C
ATOM     83  CA  THR    83      27.375  40.981  41.837  1.00 25.00           C
ATOM     84  CA  ILE    84      27.682  41.690  38.060  1.00 25.00           C
ATOM     85  CA  ILE    85      28.652  39.910  34.834  1.00 25.00           C
ATOM     86  CA  GLY    86      32.269  38.997  34.185  1.00 25.00           C
ATOM     87  CA  VAL    87      32.402  39.185  30.403  1.00 25.00           C
ATOM     88  CA  GLU    88      33.690  40.286  27.010  1.00 25.00           C
ATOM     89  CA  GLN    89      33.007  38.250  23.898  1.00 25.00           C
ATOM     90  CA  THR    90      33.427  34.504  24.479  1.00 25.00           C
ATOM     91  CA  ALA    91      34.930  31.814  22.294  1.00 25.00           C
ATOM     92  CA  LYS    92      38.428  30.668  23.434  1.00 25.00           C
ATOM     93  CA  SER    93      39.229  32.174  26.819  1.00 25.00           C
ATOM     94  CA  LEU    94      38.225  28.785  28.324  1.00 25.00           C
ATOM     95  CA  ASP    95      34.498  29.422  27.633  1.00 25.00           C
ATOM     96  CA  LEU    96      31.806  31.258  29.531  1.00 25.00           C
ATOM     97  CA  THR    97      29.937  27.934  29.184  1.00 25.00           C
ATOM     98  CA  GLN    98      32.571  26.199  31.356  1.00 25.00           C
ATOM     99  CA  TYR    99      32.009  28.880  34.035  1.00 25.00           C
ATOM    100  CA  CYS   100      29.650  28.151  36.887  1.00 25.00           C
ATOM    101  CA  PHE   101      26.967  30.757  36.302  1.00 25.00           C
ATOM    102  CA  PRO   102      24.727  30.901  39.393  1.00 25.00           C
ATOM    103  CA  GLU   103      27.151  33.717  40.346  1.00 25.00           C
ATOM    104  CA  LYS   104      29.622  36.387  39.151  1.00 25.00           C
ATOM    105  CA  SER   105      32.068  39.302  39.296  1.00 25.00           C
ATOM    106  CA  LEU   106      32.600  42.701  37.637  1.00 25.00           C
ATOM    107  CA  LEU   107      30.484  44.632  35.049  1.00 25.00           C
ATOM    108  CA  LEU   108      32.382  44.087  31.779  1.00 25.00           C
ATOM    109  CA  LEU   109      33.362  45.601  28.409  1.00 25.00           C
ATOM    110  CA  GLY   110      31.948  46.404  24.969  1.00 25.00           C
ATOM    111  CA  ASN   111      33.163  49.646  23.397  1.00 25.00           C
ATOM    112  CA  GLU   112      33.347  48.060  19.978  1.00 25.00           C
ATOM    113  CA  ARG   113      36.891  49.314  20.081  1.00 25.00           C
ATOM    114  CA  GLU   114      39.520  47.270  22.016  1.00 25.00           C
ATOM    115  CA  GLY   115      37.159  46.927  24.924  1.00 25.00           C
ATOM    116  CA  ILE   116      38.358  45.847  28.364  1.00 25.00           C
ATOM    117  CA  PRO   117      40.549  48.644  29.764  1.00 25.00           C
ATOM    118  CA  ALA   118      43.381  46.612  31.109  1.00 25.00           C
ATOM    119  CA  ASN   119      42.342  47.367  34.717  1.00 25.00           C
ATOM    120  CA  LEU   120      38.792  46.137  33.977  1.00 25.00           C
ATOM    121  CA  ILE   121      40.198  42.921  32.446  1.00 25.00           C
ATOM    122  CA  GLN   122      42.395  42.381  35.537  1.00 25.00           C
ATOM    123  CA  GLN   123      39.359  42.896  37.814  1.00 25.00           C
ATOM    124  CA  LEU   124      37.292  40.031  36.475  1.00 25.00           C
ATOM    125  CA  ASP   125      38.373  36.714  37.933  1.00 25.00           C
ATOM    126  CA  VAL   126      38.349  35.545  34.280  1.00 25.00           C
ATOM    127  CA  CYS   127      37.445  38.090  31.618  1.00 25.00           C
ATOM    128  CA  VAL   128      36.074  36.102  28.680  1.00 25.00           C
ATOM    129  CA  GLU   129      38.146  37.421  25.847  1.00 25.00           C
ATOM    130  CA  ILE   130      37.478  36.631  22.236  1.00 25.00           C
ATOM    131  CA  PRO   131      36.559  35.113  18.874  1.00 25.00           C
ATOM    132  CA  GLN   132      34.730  32.756  16.518  1.00 25.00           C
ATOM    133  CA  GLN   133      36.680  31.108  13.686  1.00 25.00           C
ATOM    134  CA  GLY   134      35.384  31.772  10.233  1.00 25.00           C
ATOM    135  CA  ILE   135      34.995  35.508   9.693  1.00 25.00           C
ATOM    136  CA  ILE   136      37.104  36.873  12.599  1.00 25.00           C
ATOM    137  CA  ARG   137      34.433  39.639  12.493  1.00 25.00           C
ATOM    138  CA  SER   138      33.560  40.025  16.175  1.00 25.00           C
ATOM    139  CA  LEU   139      30.257  41.604  17.194  1.00 25.00           C
ATOM    140  CA  ASN   140      27.994  44.574  17.743  1.00 25.00           C
ATOM    141  CA  VAL   141      28.339  44.058  21.487  1.00 25.00           C
ATOM    142  CA  HIS   142      24.531  43.678  21.626  1.00 25.00           C
ATOM    143  CA  VAL   143      24.767  40.357  19.733  1.00 25.00           C
ATOM    144  CA  SER   144      27.452  39.129  22.173  1.00 25.00           C
ATOM    145  CA  GLY   145      25.241  40.117  25.141  1.00 25.00           C
ATOM    146  CA  ALA   146      22.282  38.241  23.591  1.00 25.00           C
ATOM    147  CA  LEU   147      24.479  35.146  23.084  1.00 25.00           C
ATOM    148  CA  LEU   148      25.632  35.336  26.732  1.00 25.00           C
ATOM    149  CA  ILE   149      21.994  35.606  27.894  1.00 25.00           C
ATOM    150  CA  TRP   150      21.062  32.561  25.765  1.00 25.00           C
ATOM    151  CA  GLU   151      23.983  30.589  27.264  1.00 25.00           C
ATOM    152  CA  TYR   152      22.858  31.559  30.794  1.00 25.00           C
ATOM    153  CA  THR   153      19.286  30.434  29.992  1.00 25.00           C
ATOM    154  CA  ARG   154      20.610  27.095  28.662  1.00 25.00           C
ATOM    155  CA  GLN   155      22.680  26.619  31.848  1.00 25.00           C
ATOM    156  CA  GLN   156      19.596  27.363  33.993  1.00 25.00           C
ATOM    157  CA  LEU   157      18.141  24.402  32.102  1.00 25.00           C
ATOM    158  CA  LEU   158      20.256  21.471  33.248  1.00 25.00           C
ATOM    159  CA  SER   159      22.336  21.844  36.377  1.00 25.00           C
TER
END
