
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  159 ( 1235),  selected  159 , name T0332.pdb
# PARAMETERS: T0332TS393_4.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           #
LGA    K       3      K       3           #
LGA    S       4      S       4          1.908
LGA    I       5      I       5          3.254
LGA    S       6      S       6          2.169
LGA    R       7      R       7          1.066
LGA    L       8      L       8          2.028
LGA    I       9      I       9          3.729
LGA    V      10      V      10          2.643
LGA    V      11      V      11          2.821
LGA    A      12      A      12          2.344
LGA    S      13      S      13          4.058
LGA    L      14      L      14          1.263
LGA    I      15      I      15          2.379
LGA    D      16      D      16          2.441
LGA    K      17      K      17          2.206
LGA    P      18      P      18          1.993
LGA    T      19      T      19          1.418
LGA    N      20      N      20          0.906
LGA    L      21      L      21          1.293
LGA    G      22      G      22          1.250
LGA    G      23      G      23          1.063
LGA    L      24      L      24          0.935
LGA    C      25      C      25          0.864
LGA    R      26      R      26          0.931
LGA    T      27      T      27          0.568
LGA    C      28      C      28          0.431
LGA    E      29      E      29          1.011
LGA    V      30      V      30          1.343
LGA    F      31      F      31          2.234
LGA    G      32      G      32          2.432
LGA    A      33      A      33          1.303
LGA    S      34      S      34          1.949
LGA    V      35      V      35          2.026
LGA    L      36      L      36          0.420
LGA    V      37      V      37          2.325
LGA    V      38      V      38          2.731
LGA    G      39      -       -           -
LGA    S      40      G      39          1.008
LGA    L      41      -       -           -
LGA    Q      42      -       -           -
LGA    C      43      S      40          3.997
LGA    I      44      L      41          2.703
LGA    S      45      Q      42          2.884
LGA    D      46      C      43          4.614
LGA    K      47      I      44          3.345
LGA    Q      48      S      45          3.885
LGA    -       -      D      46           -
LGA    -       -      K      47           -
LGA    F      49      Q      48           #
LGA    Q      50      F      49           #
LGA    H      51      Q      50          2.535
LGA    -       -      H      51           -
LGA    L      52      L      52          3.648
LGA    S      53      S      53          2.475
LGA    V      54      V      54          3.312
LGA    S      55      S      55          4.356
LGA    A      56      A      56          4.182
LGA    E      57      E      57          4.300
LGA    Q      58      Q      58          3.877
LGA    W      59      W      59          2.322
LGA    L      60      L      60          1.899
LGA    P      61      P      61          2.154
LGA    L      62      L      62          1.817
LGA    V      63      V      63          1.402
LGA    E      64      E      64          0.233
LGA    V      65      V      65          0.638
LGA    K      66      K      66          2.162
LGA    P      67      P      67           #
LGA    P      68      P      68          4.744
LGA    Q      69      Q      69          3.613
LGA    L      70      L      70          1.956
LGA    I      71      I      71          1.890
LGA    D      72      D      72          1.291
LGA    Y      73      Y      73          0.972
LGA    L      74      L      74          1.141
LGA    Q      75      Q      75          2.411
LGA    Q      76      Q      76          2.656
LGA    K      77      K      77          2.323
LGA    K      78      K      78          2.912
LGA    T      79      T      79          3.878
LGA    E      80      E      80          1.656
LGA    G      81      G      81          0.684
LGA    Y      82      Y      82          0.458
LGA    T      83      T      83           #
LGA    I      84      I      84          5.164
LGA    I      85      I      85           #
LGA    G      86      G      86           #
LGA    V      87      V      87          2.085
LGA    E      88      E      88          3.467
LGA    Q      89      Q      89          4.582
LGA    T      90      T      90           #
LGA    A      91      A      91           -
LGA    K      92      K      92           -
LGA    S      93      S      93          4.364
LGA    L      94      L      94          1.933
LGA    D      95      D      95          1.533
LGA    L      96      L      96          1.024
LGA    T      97      T      97          2.488
LGA    Q      98      Q      98          2.849
LGA    Y      99      Y      99          2.747
LGA    C     100      C     100          1.671
LGA    F     101      F     101          2.070
LGA    P     102      P     102          4.070
LGA    E     103      E     103          1.499
LGA    K     104      K     104          1.689
LGA    S     105      S     105          1.939
LGA    L     106      L     106          3.572
LGA    L     107      L     107          4.176
LGA    L     108      L     108          0.704
LGA    L     109      L     109          0.575
LGA    G     110      G     110          1.717
LGA    N     111      N     111          1.760
LGA    E     112      E     112          0.758
LGA    R     113      R     113          0.456
LGA    E     114      E     114          2.196
LGA    G     115      G     115          1.368
LGA    I     116      I     116          1.420
LGA    P     117      P     117          2.332
LGA    A     118      A     118          1.865
LGA    N     119      N     119          1.953
LGA    L     120      L     120          1.921
LGA    I     121      I     121          1.790
LGA    Q     122      Q     122          1.953
LGA    Q     123      Q     123          1.445
LGA    L     124      L     124          1.900
LGA    D     125      D     125          1.641
LGA    V     126      V     126          1.361
LGA    C     127      C     127          1.473
LGA    V     128      V     128          2.801
LGA    E     129      E     129          4.985
LGA    I     130      I     130           #
LGA    P     131      P     131          5.228
LGA    Q     132      Q     132          2.563
LGA    Q     133      Q     133          3.701
LGA    G     134      G     134          3.057
LGA    I     135      I     135          3.513
LGA    I     136      I     136          4.377
LGA    R     137      R     137          3.536
LGA    S     138      S     138          1.159
LGA    L     139      L     139          2.125
LGA    N     140      N     140          1.991
LGA    V     141      V     141          0.587
LGA    H     142      H     142          0.209
LGA    V     143      V     143          0.676
LGA    S     144      S     144          0.542
LGA    G     145      G     145          0.218
LGA    A     146      A     146          0.362
LGA    L     147      L     147          0.546
LGA    L     148      L     148          0.349
LGA    I     149      I     149          0.676
LGA    W     150      W     150          1.076
LGA    E     151      E     151          0.800
LGA    Y     152      Y     152          0.268
LGA    T     153      T     153          1.283
LGA    R     154      R     154          1.684
LGA    Q     155      Q     155          1.014
LGA    Q     156      Q     156          0.776
LGA    L     157      L     157          1.502
LGA    L     158      L     158          1.637
LGA    S     159      S     159          4.293

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  159  159    5.0    143    2.44    94.41     56.836     5.632

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.389132 * X  +   0.164881 * Y  +   0.906306 * Z  +  27.260090
  Y_new =  -0.471092 * X  +   0.809847 * Y  +  -0.349601 * Z  +  42.814880
  Z_new =  -0.791611 * X  +  -0.562994 * Y  +  -0.237463 * Z  +  31.021633 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.969942    1.171651  [ DEG:  -112.8694     67.1306 ]
  Theta =   0.913442    2.228151  [ DEG:    52.3364    127.6636 ]
  Phi   =  -2.261204    0.880388  [ DEG:  -129.5575     50.4425 ]
 
# 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_4                                  
REMARK     2: T0332.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0332TS393_4.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   2.44   94.41  56.836
REMARK  ---------------------------------------------------------- 
MOLECULE T0332TS393_4
PFRMAT TS
TARGET T0332
MODEL 4
PARENT N/A
ATOM      1  CA  LEU     1       7.189  38.782  44.185  1.00 25.00           C
ATOM      2  CA  GLY     2       9.230  36.711  46.574  1.00 25.00           C
ATOM      3  CA  LYS     3      12.504  35.164  47.701  1.00 25.00           C
ATOM      4  CA  SER     4      13.245  34.413  44.057  1.00 25.00           C
ATOM      5  CA  ILE     5      16.821  33.913  42.975  1.00 25.00           C
ATOM      6  CA  SER     6      18.863  36.935  41.933  1.00 25.00           C
ATOM      7  CA  ARG     7      22.031  37.934  39.974  1.00 25.00           C
ATOM      8  CA  LEU     8      24.731  39.641  37.855  1.00 25.00           C
ATOM      9  CA  ILE     9      23.493  39.818  34.301  1.00 25.00           C
ATOM     10  CA  VAL    10      23.857  42.622  31.740  1.00 25.00           C
ATOM     11  CA  VAL    11      27.076  44.599  31.351  1.00 25.00           C
ATOM     12  CA  ALA    12      27.622  47.000  28.421  1.00 25.00           C
ATOM     13  CA  SER    13      30.894  48.794  28.677  1.00 25.00           C
ATOM     14  CA  LEU    14      32.676  52.072  28.270  1.00 25.00           C
ATOM     15  CA  ILE    15      30.621  53.068  25.249  1.00 25.00           C
ATOM     16  CA  ASP    16      30.259  54.477  21.736  1.00 25.00           C
ATOM     17  CA  LYS    17      26.922  55.663  20.318  1.00 25.00           C
ATOM     18  CA  PRO    18      25.079  54.387  23.370  1.00 25.00           C
ATOM     19  CA  THR    19      23.156  52.230  20.857  1.00 25.00           C
ATOM     20  CA  ASN    20      25.028  49.114  22.061  1.00 25.00           C
ATOM     21  CA  LEU    21      24.196  49.987  25.695  1.00 25.00           C
ATOM     22  CA  GLY    22      20.507  50.435  24.769  1.00 25.00           C
ATOM     23  CA  GLY    23      20.515  47.041  22.996  1.00 25.00           C
ATOM     24  CA  LEU    24      22.096  45.407  26.078  1.00 25.00           C
ATOM     25  CA  CYS    25      19.434  47.004  28.320  1.00 25.00           C
ATOM     26  CA  ARG    26      16.672  45.718  25.999  1.00 25.00           C
ATOM     27  CA  THR    27      18.188  42.203  26.102  1.00 25.00           C
ATOM     28  CA  CYS    28      18.318  42.344  29.927  1.00 25.00           C
ATOM     29  CA  GLU    29      14.652  43.445  30.035  1.00 25.00           C
ATOM     30  CA  VAL    30      13.690  40.556  27.713  1.00 25.00           C
ATOM     31  CA  PHE    31      16.226  37.870  28.618  1.00 25.00           C
ATOM     32  CA  GLY    32      15.700  38.002  32.347  1.00 25.00           C
ATOM     33  CA  ALA    33      18.047  40.075  34.476  1.00 25.00           C
ATOM     34  CA  SER    34      17.512  42.369  37.427  1.00 25.00           C
ATOM     35  CA  VAL    35      20.907  43.802  36.353  1.00 25.00           C
ATOM     36  CA  LEU    36      22.026  46.840  34.252  1.00 25.00           C
ATOM     37  CA  VAL    37      25.608  47.231  35.590  1.00 25.00           C
ATOM     38  CA  VAL    38      25.835  49.581  32.570  1.00 25.00           C
ATOM     39  CA  GLY    39      29.002  51.628  32.271  1.00 25.00           C
ATOM     40  CA  SER    40      29.382  55.409  32.008  1.00 25.00           C
ATOM     41  CA  LEU    41      31.891  56.878  29.518  1.00 25.00           C
ATOM     42  CA  GLN    42      28.740  58.002  27.720  1.00 25.00           C
ATOM     43  CA  CYS    43      24.962  57.950  28.412  1.00 25.00           C
ATOM     44  CA  ILE    44      23.310  59.827  31.296  1.00 25.00           C
ATOM     45  CA  SER    45      23.560  62.870  29.031  1.00 25.00           C
ATOM     46  CA  ASP    46      20.226  61.698  27.757  1.00 25.00           C
ATOM     47  CA  LYS    47      16.991  59.771  27.654  1.00 25.00           C
ATOM     48  CA  GLN    48      17.226  58.137  24.198  1.00 25.00           C
ATOM     49  CA  PHE    49      19.058  55.135  25.716  1.00 25.00           C
ATOM     50  CA  GLN    50      16.353  54.815  28.408  1.00 25.00           C
ATOM     51  CA  HIS    51      13.628  54.932  25.719  1.00 25.00           C
ATOM     52  CA  LEU    52      15.446  52.214  23.724  1.00 25.00           C
ATOM     53  CA  SER    53      15.706  50.045  26.871  1.00 25.00           C
ATOM     54  CA  VAL    54      12.157  48.672  26.835  1.00 25.00           C
ATOM     55  CA  SER    55      11.720  48.451  30.608  1.00 25.00           C
ATOM     56  CA  ALA    56      13.226  51.741  31.618  1.00 25.00           C
ATOM     57  CA  GLU    57      14.449  53.826  34.588  1.00 25.00           C
ATOM     58  CA  GLN    58      11.637  52.414  36.770  1.00 25.00           C
ATOM     59  CA  TRP    59      12.841  48.885  35.830  1.00 25.00           C
ATOM     60  CA  LEU    60      16.396  48.407  34.487  1.00 25.00           C
ATOM     61  CA  PRO    61      17.774  50.889  37.085  1.00 25.00           C
ATOM     62  CA  LEU    62      20.085  51.293  34.127  1.00 25.00           C
ATOM     63  CA  VAL    63      22.947  51.959  36.629  1.00 25.00           C
ATOM     64  CA  GLU    64      25.229  55.013  37.043  1.00 25.00           C
ATOM     65  CA  VAL    65      28.881  54.189  36.882  1.00 25.00           C
ATOM     66  CA  LYS    66      32.601  55.160  36.749  1.00 25.00           C
ATOM     67  CA  PRO    67      31.967  57.220  39.882  1.00 25.00           C
ATOM     68  CA  PRO    68      35.417  56.435  41.280  1.00 25.00           C
ATOM     69  CA  GLN    69      38.160  54.851  39.279  1.00 25.00           C
ATOM     70  CA  LEU    70      36.106  51.685  38.976  1.00 25.00           C
ATOM     71  CA  ILE    71      37.791  49.762  41.828  1.00 25.00           C
ATOM     72  CA  ASP    72      35.374  51.334  44.348  1.00 25.00           C
ATOM     73  CA  TYR    73      32.399  50.356  42.144  1.00 25.00           C
ATOM     74  CA  LEU    74      33.719  46.769  41.910  1.00 25.00           C
ATOM     75  CA  GLN    75      34.106  46.638  45.718  1.00 25.00           C
ATOM     76  CA  GLN    76      30.522  47.915  46.150  1.00 25.00           C
ATOM     77  CA  LYS    77      29.250  45.248  43.714  1.00 25.00           C
ATOM     78  CA  LYS    78      31.147  42.541  45.649  1.00 25.00           C
ATOM     79  CA  THR    79      29.630  43.794  48.935  1.00 25.00           C
ATOM     80  CA  GLU    80      28.032  40.312  48.926  1.00 25.00           C
ATOM     81  CA  GLY    81      29.828  37.501  47.061  1.00 25.00           C
ATOM     82  CA  TYR    82      30.313  38.124  43.281  1.00 25.00           C
ATOM     83  CA  THR    83      28.637  40.741  41.075  1.00 25.00           C
ATOM     84  CA  ILE    84      29.883  42.867  38.174  1.00 25.00           C
ATOM     85  CA  ILE    85      28.559  41.458  34.922  1.00 25.00           C
ATOM     86  CA  GLY    86      29.341  39.800  31.573  1.00 25.00           C
ATOM     87  CA  VAL    87      32.250  38.302  29.661  1.00 25.00           C
ATOM     88  CA  GLU    88      33.070  38.991  25.994  1.00 25.00           C
ATOM     89  CA  GLN    89      34.392  38.563  22.401  1.00 25.00           C
ATOM     90  CA  THR    90      33.960  34.802  23.042  1.00 25.00           C
ATOM     91  CA  ALA    91      33.368  31.664  20.958  1.00 25.00           C
ATOM     92  CA  LYS    92      36.744  30.047  21.829  1.00 25.00           C
ATOM     93  CA  SER    93      38.900  31.515  24.599  1.00 25.00           C
ATOM     94  CA  LEU    94      38.888  29.546  27.862  1.00 25.00           C
ATOM     95  CA  ASP    95      35.310  28.382  27.551  1.00 25.00           C
ATOM     96  CA  LEU    96      32.131  30.381  27.790  1.00 25.00           C
ATOM     97  CA  THR    97      30.293  27.038  28.119  1.00 25.00           C
ATOM     98  CA  GLN    98      32.238  26.256  31.324  1.00 25.00           C
ATOM     99  CA  TYR    99      32.089  29.050  33.881  1.00 25.00           C
ATOM    100  CA  CYS   100      28.921  27.842  35.530  1.00 25.00           C
ATOM    101  CA  PHE   101      26.528  30.845  35.716  1.00 25.00           C
ATOM    102  CA  PRO   102      24.912  29.261  38.817  1.00 25.00           C
ATOM    103  CA  GLU   103      26.515  31.942  40.989  1.00 25.00           C
ATOM    104  CA  LYS   104      27.368  35.570  40.096  1.00 25.00           C
ATOM    105  CA  SER   105      28.055  35.847  36.358  1.00 25.00           C
ATOM    106  CA  LEU   106      31.305  37.742  36.029  1.00 25.00           C
ATOM    107  CA  LEU   107      33.573  40.368  34.354  1.00 25.00           C
ATOM    108  CA  LEU   108      32.527  43.552  32.569  1.00 25.00           C
ATOM    109  CA  LEU   109      31.980  43.953  28.823  1.00 25.00           C
ATOM    110  CA  GLY   110      33.502  44.983  25.434  1.00 25.00           C
ATOM    111  CA  ASN   111      32.833  48.426  23.943  1.00 25.00           C
ATOM    112  CA  GLU   112      33.135  49.113  20.232  1.00 25.00           C
ATOM    113  CA  ARG   113      36.673  50.171  19.381  1.00 25.00           C
ATOM    114  CA  GLU   114      38.750  47.817  21.507  1.00 25.00           C
ATOM    115  CA  GLY   115      38.306  47.302  25.227  1.00 25.00           C
ATOM    116  CA  ILE   116      37.093  46.467  28.744  1.00 25.00           C
ATOM    117  CA  PRO   117      39.238  49.216  30.193  1.00 25.00           C
ATOM    118  CA  ALA   118      42.433  47.193  30.926  1.00 25.00           C
ATOM    119  CA  ASN   119      42.036  47.412  34.729  1.00 25.00           C
ATOM    120  CA  LEU   120      38.615  45.705  34.494  1.00 25.00           C
ATOM    121  CA  ILE   121      40.124  42.924  32.335  1.00 25.00           C
ATOM    122  CA  GLN   122      42.942  42.443  34.883  1.00 25.00           C
ATOM    123  CA  GLN   123      40.377  42.237  37.719  1.00 25.00           C
ATOM    124  CA  LEU   124      37.525  39.743  37.835  1.00 25.00           C
ATOM    125  CA  ASP   125      39.974  36.818  38.284  1.00 25.00           C
ATOM    126  CA  VAL   126      39.418  35.256  34.815  1.00 25.00           C
ATOM    127  CA  CYS   127      38.274  37.445  31.967  1.00 25.00           C
ATOM    128  CA  VAL   128      37.259  36.253  28.469  1.00 25.00           C
ATOM    129  CA  GLU   129      38.608  38.000  25.412  1.00 25.00           C
ATOM    130  CA  ILE   130      38.888  36.092  22.153  1.00 25.00           C
ATOM    131  CA  PRO   131      37.329  34.937  18.862  1.00 25.00           C
ATOM    132  CA  GLN   132      36.727  31.680  16.927  1.00 25.00           C
ATOM    133  CA  GLN   133      38.066  29.464  14.104  1.00 25.00           C
ATOM    134  CA  GLY   134      35.033  30.145  11.906  1.00 25.00           C
ATOM    135  CA  ILE   135      34.163  33.610  10.552  1.00 25.00           C
ATOM    136  CA  ILE   136      31.504  36.389  10.891  1.00 25.00           C
ATOM    137  CA  ARG   137      34.288  38.119  12.853  1.00 25.00           C
ATOM    138  CA  SER   138      33.902  40.362  15.925  1.00 25.00           C
ATOM    139  CA  LEU   139      31.092  42.140  17.772  1.00 25.00           C
ATOM    140  CA  ASN   140      28.959  45.090  18.873  1.00 25.00           C
ATOM    141  CA  VAL   141      29.340  44.152  22.508  1.00 25.00           C
ATOM    142  CA  HIS   142      25.528  43.803  22.616  1.00 25.00           C
ATOM    143  CA  VAL   143      25.765  40.412  20.851  1.00 25.00           C
ATOM    144  CA  SER   144      28.411  39.259  23.368  1.00 25.00           C
ATOM    145  CA  GLY   145      26.171  40.371  26.269  1.00 25.00           C
ATOM    146  CA  ALA   146      23.219  38.458  24.756  1.00 25.00           C
ATOM    147  CA  LEU   147      25.400  35.332  24.391  1.00 25.00           C
ATOM    148  CA  LEU   148      26.512  35.650  28.042  1.00 25.00           C
ATOM    149  CA  ILE   149      22.861  35.987  29.150  1.00 25.00           C
ATOM    150  CA  TRP   150      21.935  32.872  27.125  1.00 25.00           C
ATOM    151  CA  GLU   151      24.824  30.938  28.732  1.00 25.00           C
ATOM    152  CA  TYR   152      23.663  32.046  32.209  1.00 25.00           C
ATOM    153  CA  THR   153      20.094  30.915  31.406  1.00 25.00           C
ATOM    154  CA  ARG   154      21.410  27.520  30.218  1.00 25.00           C
ATOM    155  CA  GLN   155      23.439  27.150  33.445  1.00 25.00           C
ATOM    156  CA  GLN   156      20.334  27.995  35.523  1.00 25.00           C
ATOM    157  CA  LEU   157      17.697  25.770  34.028  1.00 25.00           C
ATOM    158  CA  LEU   158      20.056  22.740  33.722  1.00 25.00           C
ATOM    159  CA  SER   159      22.310  20.914  36.236  1.00 25.00           C
TER
END
