
#######################################################
#                                                     #
#                        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 T0332TS393_5
# Molecule2: number of CA atoms  159 ( 1235),  selected  159 , name T0332.pdb
# PARAMETERS: T0332TS393_5.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          2.445
LGA    K       3      K       3          4.988
LGA    S       4      S       4          1.878
LGA    I       5      I       5          3.311
LGA    S       6      S       6          1.775
LGA    R       7      R       7          0.755
LGA    L       8      L       8          3.928
LGA    I       9      -       -           -
LGA    V      10      -       -           -
LGA    V      11      -       -           -
LGA    A      12      -       -           -
LGA    S      13      -       -           -
LGA    L      14      -       -           -
LGA    I      15      -       -           -
LGA    D      16      -       -           -
LGA    K      17      -       -           -
LGA    P      18      -       -           -
LGA    T      19      -       -           -
LGA    N      20      -       -           -
LGA    L      21      -       -           -
LGA    G      22      -       -           -
LGA    G      23      -       -           -
LGA    L      24      -       -           -
LGA    C      25      -       -           -
LGA    R      26      -       -           -
LGA    T      27      -       -           -
LGA    C      28      -       -           -
LGA    E      29      -       -           -
LGA    V      30      -       -           -
LGA    F      31      -       -           -
LGA    G      32      -       -           -
LGA    A      33      -       -           -
LGA    S      34      I       9          4.394
LGA    V      35      V      10          2.785
LGA    L      36      V      11          3.930
LGA    -       -      A      12           -
LGA    -       -      S      13           -
LGA    -       -      L      14           -
LGA    -       -      I      15           -
LGA    -       -      D      16           -
LGA    -       -      K      17           -
LGA    -       -      P      18           -
LGA    -       -      T      19           -
LGA    -       -      N      20           -
LGA    -       -      L      21           -
LGA    -       -      G      22           -
LGA    -       -      G      23           -
LGA    -       -      L      24           -
LGA    -       -      C      25           -
LGA    -       -      R      26           -
LGA    -       -      T      27           -
LGA    -       -      C      28           -
LGA    -       -      E      29           -
LGA    -       -      V      30           -
LGA    -       -      F      31           -
LGA    -       -      G      32           -
LGA    -       -      A      33           -
LGA    -       -      S      34           -
LGA    -       -      V      35           -
LGA    V      37      L      36          4.756
LGA    V      38      V      37          3.632
LGA    G      39      V      38          3.676
LGA    S      40      G      39          2.785
LGA    L      41      -       -           -
LGA    Q      42      S      40           #
LGA    C      43      L      41           #
LGA    I      44      Q      42          2.631
LGA    S      45      C      43           #
LGA    D      46      I      44          5.214
LGA    K      47      S      45          1.188
LGA    Q      48      D      46          1.069
LGA    F      49      K      47           #
LGA    Q      50      Q      48           #
LGA    -       -      F      49           -
LGA    H      51      Q      50          1.975
LGA    -       -      H      51           -
LGA    L      52      L      52          3.989
LGA    S      53      S      53          1.605
LGA    V      54      V      54          2.703
LGA    S      55      S      55          4.250
LGA    A      56      A      56          2.523
LGA    E      57      E      57          1.935
LGA    Q      58      Q      58          1.244
LGA    W      59      W      59          2.033
LGA    L      60      L      60          1.714
LGA    P      61      P      61          1.066
LGA    L      62      L      62          2.698
LGA    V      63      V      63          2.597
LGA    E      64      E      64          0.922
LGA    V      65      V      65          1.378
LGA    K      66      K      66          2.326
LGA    P      67      P      67           #
LGA    P      68      P      68          4.182
LGA    Q      69      Q      69          3.822
LGA    L      70      L      70          1.611
LGA    I      71      I      71          2.709
LGA    D      72      D      72          2.301
LGA    Y      73      Y      73          0.941
LGA    L      74      L      74          2.223
LGA    Q      75      Q      75          3.126
LGA    Q      76      Q      76          2.121
LGA    K      77      K      77          0.896
LGA    K      78      K      78          2.697
LGA    T      79      T      79          2.882
LGA    E      80      E      80          1.511
LGA    G      81      G      81          0.505
LGA    Y      82      Y      82          0.786
LGA    T      83      T      83           #
LGA    I      84      -       -           -
LGA    I      85      I      84           #
LGA    G      86      I      85          3.247
LGA    V      87      G      86          1.808
LGA    E      88      V      87          3.785
LGA    Q      89      E      88          3.186
LGA    T      90      Q      89          4.938
LGA    A      91      T      90           -
LGA    K      92      -       -           -
LGA    S      93      A      91           #
LGA    -       -      K      92           -
LGA    -       -      S      93           -
LGA    L      94      L      94          2.265
LGA    D      95      D      95          1.155
LGA    L      96      L      96          0.423
LGA    T      97      T      97          1.658
LGA    Q      98      Q      98          2.069
LGA    Y      99      Y      99          1.607
LGA    C     100      C     100          1.845
LGA    F     101      F     101          2.032
LGA    P     102      P     102          3.370
LGA    E     103      E     103          2.258
LGA    K     104      K     104          0.936
LGA    S     105      S     105          1.648
LGA    L     106      L     106          2.537
LGA    L     107      L     107          2.075
LGA    L     108      L     108          4.047
LGA    L     109      L     109          1.117
LGA    G     110      G     110          1.872
LGA    N     111      N     111          1.827
LGA    E     112      E     112          1.668
LGA    R     113      R     113          1.029
LGA    E     114      E     114          1.369
LGA    G     115      G     115          1.044
LGA    I     116      I     116          1.026
LGA    P     117      P     117          1.612
LGA    A     118      A     118          2.102
LGA    N     119      N     119          2.210
LGA    L     120      L     120          2.092
LGA    I     121      I     121          2.148
LGA    Q     122      Q     122          2.267
LGA    Q     123      Q     123          1.996
LGA    L     124      L     124          2.005
LGA    D     125      D     125          1.543
LGA    V     126      V     126          1.232
LGA    C     127      C     127          0.914
LGA    V     128      V     128          1.782
LGA    E     129      E     129          4.270
LGA    I     130      -       -           -
LGA    P     131      I     130           #
LGA    -       -      P     131           -
LGA    Q     132      Q     132          2.819
LGA    Q     133      Q     133          2.395
LGA    G     134      G     134          2.436
LGA    I     135      I     135          1.160
LGA    I     136      I     136          1.860
LGA    R     137      R     137          2.285
LGA    S     138      S     138          1.141
LGA    L     139      L     139          1.067
LGA    N     140      N     140          0.999
LGA    V     141      V     141          1.348
LGA    H     142      H     142          1.546
LGA    V     143      V     143          1.450
LGA    S     144      S     144          1.191
LGA    G     145      G     145          1.127
LGA    A     146      A     146          1.291
LGA    L     147      L     147          1.008
LGA    L     148      L     148          0.485
LGA    I     149      I     149          1.215
LGA    W     150      W     150          1.438
LGA    E     151      E     151          0.863
LGA    Y     152      Y     152          0.485
LGA    T     153      T     153          1.382
LGA    R     154      R     154          1.886
LGA    Q     155      Q     155          1.416
LGA    Q     156      Q     156          0.606
LGA    L     157      L     157          2.805
LGA    L     158      L     158          3.203
LGA    S     159      S     159          3.996

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  159  159    5.0    118    2.40    87.29     50.227     4.723

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.798098 * X  +   0.175182 * Y  +   0.576498 * Z  +  27.472097
  Y_new =   0.508304 * X  +   0.317987 * Y  +  -0.800319 * Z  +  42.943184
  Z_new =  -0.323521 * X  +   0.931770 * Y  +   0.164739 * Z  +  30.785002 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.395802   -1.745791  [ DEG:    79.9736   -100.0264 ]
  Theta =   0.329448    2.812145  [ DEG:    18.8760    161.1240 ]
  Phi   =   0.567107   -2.574486  [ DEG:    32.4928   -147.5072 ]
 
# 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: T0332TS393_5                                  
REMARK     2: T0332.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0332TS393_5.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  118   2.40   87.29  50.227
REMARK  ---------------------------------------------------------- 
MOLECULE T0332TS393_5
PFRMAT TS
TARGET T0332
MODEL 5
PARENT N/A
ATOM      1  CA  LEU     1       7.269  35.829  41.199  1.00 25.00           C
ATOM      2  CA  GLY     2       8.218  33.417  43.965  1.00 25.00           C
ATOM      3  CA  LYS     3      11.232  34.597  46.014  1.00 25.00           C
ATOM      4  CA  SER     4      14.188  35.115  43.607  1.00 25.00           C
ATOM      5  CA  ILE     5      17.633  34.383  42.247  1.00 25.00           C
ATOM      6  CA  SER     6      18.387  38.145  41.830  1.00 25.00           C
ATOM      7  CA  ARG     7      21.976  38.268  40.483  1.00 25.00           C
ATOM      8  CA  LEU     8      20.958  41.572  39.035  1.00 25.00           C
ATOM      9  CA  ILE     9      20.606  44.732  36.870  1.00 25.00           C
ATOM     10  CA  VAL    10      21.891  45.423  33.359  1.00 25.00           C
ATOM     11  CA  VAL    11      25.201  44.862  31.569  1.00 25.00           C
ATOM     12  CA  ALA    12      28.353  46.733  30.792  1.00 25.00           C
ATOM     13  CA  SER    13      31.050  49.146  29.685  1.00 25.00           C
ATOM     14  CA  LEU    14      32.948  51.766  27.632  1.00 25.00           C
ATOM     15  CA  ILE    15      30.524  53.293  25.103  1.00 25.00           C
ATOM     16  CA  ASP    16      30.324  54.765  21.538  1.00 25.00           C
ATOM     17  CA  LYS    17      27.393  57.153  21.057  1.00 25.00           C
ATOM     18  CA  PRO    18      25.841  55.282  23.985  1.00 25.00           C
ATOM     19  CA  THR    19      23.637  53.531  21.387  1.00 25.00           C
ATOM     20  CA  ASN    20      25.669  50.311  21.797  1.00 25.00           C
ATOM     21  CA  LEU    21      25.287  50.525  25.601  1.00 25.00           C
ATOM     22  CA  GLY    22      21.508  51.017  25.220  1.00 25.00           C
ATOM     23  CA  GLY    23      21.323  47.978  22.896  1.00 25.00           C
ATOM     24  CA  LEU    24      23.286  45.887  25.434  1.00 25.00           C
ATOM     25  CA  CYS    25      20.911  46.998  28.224  1.00 25.00           C
ATOM     26  CA  ARG    26      17.892  46.049  26.066  1.00 25.00           C
ATOM     27  CA  THR    27      19.437  42.614  25.374  1.00 25.00           C
ATOM     28  CA  CYS    28      20.039  42.102  29.121  1.00 25.00           C
ATOM     29  CA  GLU    29      16.406  43.062  29.861  1.00 25.00           C
ATOM     30  CA  VAL    30      15.186  40.586  27.206  1.00 25.00           C
ATOM     31  CA  PHE    31      16.884  38.053  29.445  1.00 25.00           C
ATOM     32  CA  GLY    32      15.256  38.321  32.888  1.00 25.00           C
ATOM     33  CA  ALA    33      17.983  40.650  34.115  1.00 25.00           C
ATOM     34  CA  SER    34      21.790  40.341  34.218  1.00 25.00           C
ATOM     35  CA  VAL    35      24.832  42.003  35.900  1.00 25.00           C
ATOM     36  CA  LEU    36      25.699  45.692  36.510  1.00 25.00           C
ATOM     37  CA  VAL    37      26.328  49.274  35.364  1.00 25.00           C
ATOM     38  CA  VAL    38      26.276  51.143  32.006  1.00 25.00           C
ATOM     39  CA  GLY    39      29.361  53.158  32.951  1.00 25.00           C
ATOM     40  CA  SER    40      30.794  56.410  31.575  1.00 25.00           C
ATOM     41  CA  LEU    41      31.563  57.671  28.101  1.00 25.00           C
ATOM     42  CA  GLN    42      28.258  58.825  26.723  1.00 25.00           C
ATOM     43  CA  CYS    43      25.313  59.713  28.939  1.00 25.00           C
ATOM     44  CA  ILE    44      23.291  59.190  32.078  1.00 25.00           C
ATOM     45  CA  SER    45      21.948  62.688  31.221  1.00 25.00           C
ATOM     46  CA  ASP    46      20.062  61.738  28.016  1.00 25.00           C
ATOM     47  CA  LYS    47      16.942  60.407  26.294  1.00 25.00           C
ATOM     48  CA  GLN    48      19.451  58.842  23.860  1.00 25.00           C
ATOM     49  CA  PHE    49      19.583  55.668  25.999  1.00 25.00           C
ATOM     50  CA  GLN    50      15.758  55.500  26.033  1.00 25.00           C
ATOM     51  CA  HIS    51      15.683  55.897  22.225  1.00 25.00           C
ATOM     52  CA  LEU    52      18.264  53.092  21.857  1.00 25.00           C
ATOM     53  CA  SER    53      16.171  50.834  24.136  1.00 25.00           C
ATOM     54  CA  VAL    54      13.412  48.191  23.849  1.00 25.00           C
ATOM     55  CA  SER    55      12.278  47.260  27.366  1.00 25.00           C
ATOM     56  CA  ALA    56      14.396  50.151  28.555  1.00 25.00           C
ATOM     57  CA  GLU    57      15.330  52.860  31.095  1.00 25.00           C
ATOM     58  CA  GLN    58      12.123  52.154  33.066  1.00 25.00           C
ATOM     59  CA  TRP    59      13.033  48.435  33.499  1.00 25.00           C
ATOM     60  CA  LEU    60      15.914  46.006  33.966  1.00 25.00           C
ATOM     61  CA  PRO    61      17.187  48.684  36.354  1.00 25.00           C
ATOM     62  CA  LEU    62      19.466  49.875  33.481  1.00 25.00           C
ATOM     63  CA  VAL    63      22.008  51.928  35.441  1.00 25.00           C
ATOM     64  CA  GLU    64      24.484  54.524  36.651  1.00 25.00           C
ATOM     65  CA  VAL    65      27.815  53.362  38.037  1.00 25.00           C
ATOM     66  CA  LYS    66      29.798  56.521  37.360  1.00 25.00           C
ATOM     67  CA  PRO    67      32.801  56.968  39.615  1.00 25.00           C
ATOM     68  CA  PRO    68      36.197  55.737  40.834  1.00 25.00           C
ATOM     69  CA  GLN    69      37.984  53.339  38.527  1.00 25.00           C
ATOM     70  CA  LEU    70      35.129  50.917  39.433  1.00 25.00           C
ATOM     71  CA  ILE    71      37.144  50.259  42.623  1.00 25.00           C
ATOM     72  CA  ASP    72      34.119  51.228  44.763  1.00 25.00           C
ATOM     73  CA  TYR    73      31.893  48.867  42.729  1.00 25.00           C
ATOM     74  CA  LEU    74      34.429  46.035  43.195  1.00 25.00           C
ATOM     75  CA  GLN    75      34.512  46.697  46.966  1.00 25.00           C
ATOM     76  CA  GLN    76      30.685  46.616  47.090  1.00 25.00           C
ATOM     77  CA  LYS    77      30.669  43.300  45.175  1.00 25.00           C
ATOM     78  CA  LYS    78      33.240  41.849  47.616  1.00 25.00           C
ATOM     79  CA  THR    79      31.102  42.987  50.582  1.00 25.00           C
ATOM     80  CA  GLU    80      28.794  40.243  49.352  1.00 25.00           C
ATOM     81  CA  GLY    81      30.382  37.501  47.177  1.00 25.00           C
ATOM     82  CA  TYR    82      29.703  38.444  43.512  1.00 25.00           C
ATOM     83  CA  THR    83      28.059  40.755  41.026  1.00 25.00           C
ATOM     84  CA  ILE    84      29.507  42.815  38.138  1.00 25.00           C
ATOM     85  CA  ILE    85      31.068  43.630  34.803  1.00 25.00           C
ATOM     86  CA  GLY    86      33.713  41.177  33.654  1.00 25.00           C
ATOM     87  CA  VAL    87      35.260  40.879  30.173  1.00 25.00           C
ATOM     88  CA  GLU    88      35.968  41.506  26.455  1.00 25.00           C
ATOM     89  CA  GLN    89      34.010  39.239  24.068  1.00 25.00           C
ATOM     90  CA  THR    90      34.261  35.544  23.185  1.00 25.00           C
ATOM     91  CA  ALA    91      34.817  32.299  21.248  1.00 25.00           C
ATOM     92  CA  LYS    92      37.641  29.668  21.277  1.00 25.00           C
ATOM     93  CA  SER    93      39.527  31.569  24.001  1.00 25.00           C
ATOM     94  CA  LEU    94      39.210  29.931  27.440  1.00 25.00           C
ATOM     95  CA  ASP    95      35.667  28.559  27.260  1.00 25.00           C
ATOM     96  CA  LEU    96      32.080  29.822  27.279  1.00 25.00           C
ATOM     97  CA  THR    97      29.766  26.829  26.675  1.00 25.00           C
ATOM     98  CA  GLN    98      31.255  25.034  29.713  1.00 25.00           C
ATOM     99  CA  TYR    99      30.796  27.987  32.018  1.00 25.00           C
ATOM    100  CA  CYS   100      29.240  28.561  35.392  1.00 25.00           C
ATOM    101  CA  PHE   101      26.911  31.481  36.335  1.00 25.00           C
ATOM    102  CA  PRO   102      25.655  29.315  39.142  1.00 25.00           C
ATOM    103  CA  GLU   103      27.244  32.002  41.309  1.00 25.00           C
ATOM    104  CA  LYS   104      26.424  35.662  40.591  1.00 25.00           C
ATOM    105  CA  SER   105      26.736  37.417  37.307  1.00 25.00           C
ATOM    106  CA  LEU   106      29.519  38.681  35.086  1.00 25.00           C
ATOM    107  CA  LEU   107      27.802  40.401  32.189  1.00 25.00           C
ATOM    108  CA  LEU   108      30.219  41.174  29.315  1.00 25.00           C
ATOM    109  CA  LEU   109      31.651  44.148  27.447  1.00 25.00           C
ATOM    110  CA  GLY   110      33.142  46.976  25.386  1.00 25.00           C
ATOM    111  CA  ASN   111      33.597  49.861  23.035  1.00 25.00           C
ATOM    112  CA  GLU   112      33.584  47.603  20.033  1.00 25.00           C
ATOM    113  CA  ARG   113      36.473  49.803  18.908  1.00 25.00           C
ATOM    114  CA  GLU   114      38.810  48.744  21.713  1.00 25.00           C
ATOM    115  CA  GLY   115      38.539  46.606  24.860  1.00 25.00           C
ATOM    116  CA  ILE   116      37.477  46.592  28.454  1.00 25.00           C
ATOM    117  CA  PRO   117      39.998  49.409  28.785  1.00 25.00           C
ATOM    118  CA  ALA   118      42.487  47.984  31.340  1.00 25.00           C
ATOM    119  CA  ASN   119      41.645  47.707  35.065  1.00 25.00           C
ATOM    120  CA  LEU   120      38.239  46.180  34.208  1.00 25.00           C
ATOM    121  CA  ILE   121      39.929  43.658  31.875  1.00 25.00           C
ATOM    122  CA  GLN   122      42.414  42.730  34.637  1.00 25.00           C
ATOM    123  CA  GLN   123      39.526  42.245  37.105  1.00 25.00           C
ATOM    124  CA  LEU   124      37.510  38.977  36.869  1.00 25.00           C
ATOM    125  CA  ASP   125      39.350  35.934  38.216  1.00 25.00           C
ATOM    126  CA  VAL   126      39.001  34.633  34.662  1.00 25.00           C
ATOM    127  CA  CYS   127      37.806  36.932  31.917  1.00 25.00           C
ATOM    128  CA  VAL   128      36.144  35.911  28.662  1.00 25.00           C
ATOM    129  CA  GLU   129      38.662  36.775  25.948  1.00 25.00           C
ATOM    130  CA  ILE   130      38.756  37.822  22.306  1.00 25.00           C
ATOM    131  CA  PRO   131      38.083  36.060  19.014  1.00 25.00           C
ATOM    132  CA  GLN   132      36.072  34.168  16.334  1.00 25.00           C
ATOM    133  CA  GLN   133      34.768  32.576  13.136  1.00 25.00           C
ATOM    134  CA  GLY   134      36.820  32.515   9.922  1.00 25.00           C
ATOM    135  CA  ILE   135      35.711  36.078   9.287  1.00 25.00           C
ATOM    136  CA  ILE   136      33.470  38.872  10.645  1.00 25.00           C
ATOM    137  CA  ARG   137      36.227  40.608  12.608  1.00 25.00           C
ATOM    138  CA  SER   138      34.302  40.579  15.877  1.00 25.00           C
ATOM    139  CA  LEU   139      30.770  40.985  17.039  1.00 25.00           C
ATOM    140  CA  ASN   140      28.276  43.771  17.662  1.00 25.00           C
ATOM    141  CA  VAL   141      28.498  43.023  21.347  1.00 25.00           C
ATOM    142  CA  HIS   142      24.711  42.728  21.841  1.00 25.00           C
ATOM    143  CA  VAL   143      24.760  39.218  20.309  1.00 25.00           C
ATOM    144  CA  SER   144      27.630  38.215  22.638  1.00 25.00           C
ATOM    145  CA  GLY   145      25.684  39.556  25.652  1.00 25.00           C
ATOM    146  CA  ALA   146      22.590  37.577  24.568  1.00 25.00           C
ATOM    147  CA  LEU   147      24.710  34.406  24.222  1.00 25.00           C
ATOM    148  CA  LEU   148      26.167  34.970  27.718  1.00 25.00           C
ATOM    149  CA  ILE   149      22.641  35.428  29.141  1.00 25.00           C
ATOM    150  CA  TRP   150      21.508  32.188  27.442  1.00 25.00           C
ATOM    151  CA  GLU   151      24.528  30.337  28.901  1.00 25.00           C
ATOM    152  CA  TYR   152      23.712  31.703  32.385  1.00 25.00           C
ATOM    153  CA  THR   153      20.076  30.561  32.007  1.00 25.00           C
ATOM    154  CA  ARG   154      21.254  27.076  30.946  1.00 25.00           C
ATOM    155  CA  GLN   155      23.581  26.910  33.983  1.00 25.00           C
ATOM    156  CA  GLN   156      20.694  27.936  36.281  1.00 25.00           C
ATOM    157  CA  LEU   157      18.737  24.757  35.282  1.00 25.00           C
ATOM    158  CA  LEU   158      21.249  21.962  35.624  1.00 25.00           C
ATOM    159  CA  SER   159      23.572  22.990  38.473  1.00 25.00           C
TER
END
