
#######################################################
#                                                     #
#                        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  160 (  160),  selected  160 , name T0374TS393_1
# Molecule2: number of CA atoms  160 ( 2486),  selected  160 , name T0374.pdb
# PARAMETERS: T0374TS393_1.T0374.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1          5.923
LGA    Q       2      Q       2          2.310
LGA    L       3      L       3          1.776
LGA    S       4      S       4          2.565
LGA    H       5      H       5          1.490
LGA    R       6      R       6          1.849
LGA    P       7      P       7          1.851
LGA    A       8      A       8          3.029
LGA    E       9      E       9           #
LGA    T      10      T      10           #
LGA    G      11      G      11          1.333
LGA    D      12      D      12          1.260
LGA    L      13      L      13          1.421
LGA    E      14      E      14          1.026
LGA    T      15      T      15          2.002
LGA    V      16      V      16          2.507
LGA    A      17      A      17          1.462
LGA    G      18      G      18          2.142
LGA    F      19      F      19          2.938
LGA    P      20      -       -           -
LGA    Q      21      P      20          0.824
LGA    D      22      Q      21          2.150
LGA    R      23      D      22          5.114
LGA    D      24      R      23          5.038
LGA    E      25      D      24          5.477
LGA    L      26      -       -           -
LGA    F      27      E      25          0.941
LGA    Y      28      L      26          4.915
LGA    C      29      F      27          1.637
LGA    -       -      Y      28           -
LGA    -       -      C      29           -
LGA    -       -      Y      30           -
LGA    -       -      P      31           -
LGA    Y      30      K      32           #
LGA    -       -      A      33           -
LGA    P      31      I      34           #
LGA    K      32      W      35          2.750
LGA    A      33      P      36          4.834
LGA    I      34      F      37           #
LGA    W      35      -       -           -
LGA    P      36      -       -           -
LGA    F      37      -       -           -
LGA    S      38      S      38           #
LGA    V      39      V      39          5.505
LGA    -       -      A      40           -
LGA    -       -      Q      41           -
LGA    -       -      L      42           -
LGA    A      40      A      43          4.326
LGA    Q      41      A      44          2.717
LGA    L      42      A      45          2.157
LGA    A      43      I      46          3.350
LGA    A      44      A      47          2.057
LGA    A      45      E      48          1.905
LGA    I      46      R      49          3.824
LGA    A      47      -       -           -
LGA    E      48      -       -           -
LGA    R      49      -       -           -
LGA    R      50      R      50          2.773
LGA    G      51      G      51          1.673
LGA    S      52      S      52          1.883
LGA    T      53      T      53          1.360
LGA    V      54      V      54          0.950
LGA    A      55      A      55          1.533
LGA    V      56      V      56          1.365
LGA    H      57      H      57          0.992
LGA    D      58      D      58          1.788
LGA    G      59      G      59          1.378
LGA    Q      60      Q      60          1.504
LGA    V      61      V      61          2.581
LGA    L      62      L      62          1.323
LGA    G      63      G      63          0.922
LGA    F      64      F      64          2.239
LGA    A      65      A      65          1.144
LGA    N      66      N      66          2.620
LGA    F      67      F      67          1.667
LGA    Y      68      Y      68          2.704
LGA    Q      69      Q      69          1.626
LGA    -       -      W      70           -
LGA    W      70      Q      71          5.199
LGA    Q      71      H      72           #
LGA    H      72      -       -           -
LGA    G      73      G      73           #
LGA    D      74      D      74          3.797
LGA    F      75      F      75          3.217
LGA    C      76      C      76          1.159
LGA    A      77      A      77          1.615
LGA    L      78      L      78          1.270
LGA    G      79      G      79          1.805
LGA    N      80      N      80          2.101
LGA    M      81      M      81          2.329
LGA    M      82      M      82          2.281
LGA    V      83      V      83          2.288
LGA    A      84      A      84          3.316
LGA    P      85      P      85          1.287
LGA    A      86      A      86          0.809
LGA    A      87      A      87          0.864
LGA    R      88      R      88          3.029
LGA    G      89      G      89          1.525
LGA    L      90      L      90          1.821
LGA    G      91      G      91          2.934
LGA    V      92      V      92          2.539
LGA    A      93      A      93          1.721
LGA    R      94      R      94          0.679
LGA    Y      95      Y      95          1.458
LGA    L      96      L      96          1.648
LGA    I      97      I      97          1.203
LGA    G      98      G      98          1.008
LGA    V      99      V      99          1.390
LGA    M     100      M     100          1.551
LGA    E     101      E     101          1.168
LGA    N     102      N     102          0.968
LGA    L     103      L     103          1.637
LGA    A     104      A     104          1.813
LGA    R     105      R     105          1.002
LGA    E     106      E     106          1.010
LGA    Q     107      Q     107          0.654
LGA    Y     108      Y     108          0.506
LGA    K     109      K     109          2.462
LGA    A     110      A     110          1.548
LGA    R     111      R     111          3.627
LGA    L     112      L     112          1.304
LGA    M     113      M     113          1.387
LGA    K     114      K     114          1.573
LGA    I     115      I     115          3.764
LGA    S     116      S     116          1.922
LGA    C     117      C     117          1.937
LGA    F     118      F     118          1.992
LGA    N     119      N     119          2.235
LGA    A     120      A     120          3.157
LGA    N     121      N     121          0.987
LGA    A     122      A     122          0.990
LGA    A     123      A     123          0.931
LGA    G     124      G     124          0.290
LGA    L     125      L     125          0.365
LGA    L     126      L     126          1.045
LGA    L     127      L     127          1.453
LGA    Y     128      Y     128          1.239
LGA    T     129      T     129          0.435
LGA    Q     130      Q     130          1.500
LGA    L     131      L     131          1.743
LGA    G     132      G     132          1.139
LGA    Y     133      Y     133          4.258
LGA    Q     134      Q     134          0.753
LGA    P     135      P     135          1.045
LGA    R     136      R     136          1.007
LGA    A     137      A     137          2.934
LGA    I     138      I     138          2.015
LGA    A     139      A     139          0.860
LGA    E     140      E     140          1.881
LGA    R     141      R     141          1.828
LGA    H     142      H     142          3.330
LGA    D     143      D     143           #
LGA    P     144      P     144          4.098
LGA    D     145      D     145          4.734
LGA    -       -      G     146           -
LGA    G     146      R     147          1.185
LGA    R     147      R     148          2.162
LGA    R     148      V     149          2.601
LGA    -       -      A     150           -
LGA    V     149      L     151          3.199
LGA    A     150      I     152           #
LGA    L     151      -       -           -
LGA    I     152      Q     153           #
LGA    Q     153      M     154          3.648
LGA    M     154      D     155          2.709
LGA    D     155      K     156          0.863
LGA    K     156      P     157          1.532
LGA    P     157      L     158          4.888
LGA    L     158      E     159          2.134
LGA    E     159      P     160          4.269
LGA    P     160      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  160  160    5.0    138    2.44    81.16     57.256     5.426

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.962555 * X  +  -0.111531 * Y  +   0.247080 * Z  +  16.338362
  Y_new =   0.269198 * X  +   0.285863 * Y  +  -0.919682 * Z  +  12.188945
  Z_new =   0.031943 * X  +   0.951758 * Y  +   0.305183 * Z  +   9.289124 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.260502   -1.881090  [ DEG:    72.2215   -107.7785 ]
  Theta =  -0.031948   -3.109645  [ DEG:    -1.8305   -178.1695 ]
  Phi   =   0.272703   -2.868890  [ DEG:    15.6247   -164.3753 ]
 
# 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: T0374TS393_1                                  
REMARK     2: T0374.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0374TS393_1.T0374.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  160  160   5.0  138   2.44   81.16  57.256
REMARK  ---------------------------------------------------------- 
MOLECULE T0374TS393_1
PFRMAT TS
TARGET T0374
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      23.992  33.607   2.719  1.00 25.00           C
ATOM      2  CA  GLN     2      23.170  30.506   4.810  1.00 25.00           C
ATOM      3  CA  LEU     3      22.365  27.846   7.404  1.00 25.00           C
ATOM      4  CA  SER     4      18.828  26.840   8.414  1.00 25.00           C
ATOM      5  CA  HIS     5      15.819  25.401  10.208  1.00 25.00           C
ATOM      6  CA  ARG     6      12.100  24.622  10.030  1.00 25.00           C
ATOM      7  CA  PRO     7       8.421  24.712   9.219  1.00 25.00           C
ATOM      8  CA  ALA     8       6.615  24.272   5.920  1.00 25.00           C
ATOM      9  CA  GLU     9       5.194  27.441   4.440  1.00 25.00           C
ATOM     10  CA  THR    10       2.540  27.597   1.671  1.00 25.00           C
ATOM     11  CA  GLY    11       4.091  24.966  -0.688  1.00 25.00           C
ATOM     12  CA  ASP    12       6.814  22.450   0.326  1.00 25.00           C
ATOM     13  CA  LEU    13       5.688  18.814  -0.094  1.00 25.00           C
ATOM     14  CA  GLU    14       7.653  18.559  -3.371  1.00 25.00           C
ATOM     15  CA  THR    15      10.761  19.987  -1.648  1.00 25.00           C
ATOM     16  CA  VAL    16      10.380  17.450   1.195  1.00 25.00           C
ATOM     17  CA  ALA    17      10.070  14.606  -1.350  1.00 25.00           C
ATOM     18  CA  GLY    18      13.221  15.835  -3.146  1.00 25.00           C
ATOM     19  CA  PHE    19      15.533  15.857  -0.088  1.00 25.00           C
ATOM     20  CA  PRO    20      15.090  12.103  -0.238  1.00 25.00           C
ATOM     21  CA  GLN    21      16.589  11.521  -3.691  1.00 25.00           C
ATOM     22  CA  ASP    22      17.687  11.968  -7.331  1.00 25.00           C
ATOM     23  CA  ARG    23      21.294  10.929  -6.744  1.00 25.00           C
ATOM     24  CA  ASP    24      19.918   7.496  -5.707  1.00 25.00           C
ATOM     25  CA  GLU    25      23.447   6.286  -4.841  1.00 25.00           C
ATOM     26  CA  LEU    26      23.281   8.126  -1.487  1.00 25.00           C
ATOM     27  CA  PHE    27      19.882   6.524  -0.749  1.00 25.00           C
ATOM     28  CA  TYR    28      18.742   3.316   0.980  1.00 25.00           C
ATOM     29  CA  CYS    29      15.229   4.484   0.123  1.00 25.00           C
ATOM     30  CA  TYR    30      14.515   2.090  -2.684  1.00 25.00           C
ATOM     31  CA  PRO    31      14.749   1.020  -6.288  1.00 25.00           C
ATOM     32  CA  LYS    32      11.538   2.348  -7.840  1.00 25.00           C
ATOM     33  CA  ALA    33       7.734   2.360  -7.916  1.00 25.00           C
ATOM     34  CA  ILE    34       5.805   2.208  -4.696  1.00 25.00           C
ATOM     35  CA  TRP    35       7.514   2.256  -1.251  1.00 25.00           C
ATOM     36  CA  PRO    36       3.915   2.915  -0.117  1.00 25.00           C
ATOM     37  CA  PHE    37       4.758   6.644  -0.550  1.00 25.00           C
ATOM     38  CA  SER    38       1.109   7.355   0.113  1.00 25.00           C
ATOM     39  CA  VAL    39       2.306  10.945   0.873  1.00 25.00           C
ATOM     40  CA  ALA    40      -0.998  11.783   2.619  1.00 25.00           C
ATOM     41  CA  GLN    41      -0.294   9.122   5.281  1.00 25.00           C
ATOM     42  CA  LEU    42       3.212  10.563   5.829  1.00 25.00           C
ATOM     43  CA  ALA    43       1.737  14.078   6.195  1.00 25.00           C
ATOM     44  CA  ALA    44      -0.810  12.771   8.740  1.00 25.00           C
ATOM     45  CA  ALA    45       1.998  11.065  10.709  1.00 25.00           C
ATOM     46  CA  ILE    46       4.016  14.319  10.700  1.00 25.00           C
ATOM     47  CA  ALA    47       0.955  16.249  11.953  1.00 25.00           C
ATOM     48  CA  GLU    48       0.447  13.679  14.746  1.00 25.00           C
ATOM     49  CA  ARG    49       2.220  15.875  17.342  1.00 25.00           C
ATOM     50  CA  ARG    50       5.380  13.918  16.861  1.00 25.00           C
ATOM     51  CA  GLY    51       7.607  16.698  15.408  1.00 25.00           C
ATOM     52  CA  SER    52       8.824  17.913  12.017  1.00 25.00           C
ATOM     53  CA  THR    53      11.529  18.937   9.546  1.00 25.00           C
ATOM     54  CA  VAL    54      13.145  20.923   6.811  1.00 25.00           C
ATOM     55  CA  ALA    55      15.623  23.436   5.441  1.00 25.00           C
ATOM     56  CA  VAL    56      15.267  27.116   4.437  1.00 25.00           C
ATOM     57  CA  HIS    57      18.737  28.118   3.189  1.00 25.00           C
ATOM     58  CA  ASP    58      18.084  31.693   1.883  1.00 25.00           C
ATOM     59  CA  GLY    59      15.980  30.255  -0.952  1.00 25.00           C
ATOM     60  CA  GLN    60      16.647  26.642  -1.945  1.00 25.00           C
ATOM     61  CA  VAL    61      15.497  23.143  -1.081  1.00 25.00           C
ATOM     62  CA  LEU    62      17.711  20.957   1.133  1.00 25.00           C
ATOM     63  CA  GLY    63      17.716  18.844   4.279  1.00 25.00           C
ATOM     64  CA  PHE    64      15.841  16.103   6.169  1.00 25.00           C
ATOM     65  CA  ALA    65      14.627  14.873   9.612  1.00 25.00           C
ATOM     66  CA  ASN    66      11.274  13.111   8.984  1.00 25.00           C
ATOM     67  CA  PHE    67      10.935  12.493  12.733  1.00 25.00           C
ATOM     68  CA  TYR    68       9.076  10.194  15.186  1.00 25.00           C
ATOM     69  CA  GLN    69       8.634   8.077  18.316  1.00 25.00           C
ATOM     70  CA  TRP    70       9.524   4.914  20.245  1.00 25.00           C
ATOM     71  CA  GLN    71       6.331   5.502  22.172  1.00 25.00           C
ATOM     72  CA  HIS    72       7.288   2.517  24.255  1.00 25.00           C
ATOM     73  CA  GLY    73      10.330   2.485  26.515  1.00 25.00           C
ATOM     74  CA  ASP    74      11.277   5.802  24.989  1.00 25.00           C
ATOM     75  CA  PHE    75      14.298   6.071  22.629  1.00 25.00           C
ATOM     76  CA  CYS    76      12.898   9.223  20.943  1.00 25.00           C
ATOM     77  CA  ALA    77      13.694   9.865  17.280  1.00 25.00           C
ATOM     78  CA  LEU    78      15.644  11.286  14.304  1.00 25.00           C
ATOM     79  CA  GLY    79      14.785   9.141  11.273  1.00 25.00           C
ATOM     80  CA  ASN    80      15.650  10.126   7.732  1.00 25.00           C
ATOM     81  CA  MET    81      18.951  11.777   6.627  1.00 25.00           C
ATOM     82  CA  MET    82      19.039  12.892   2.997  1.00 25.00           C
ATOM     83  CA  VAL    83      21.467  15.821   2.832  1.00 25.00           C
ATOM     84  CA  ALA    84      22.106  16.235  -0.946  1.00 25.00           C
ATOM     85  CA  PRO    85      23.289  17.385  -4.381  1.00 25.00           C
ATOM     86  CA  ALA    86      23.928  21.154  -4.172  1.00 25.00           C
ATOM     87  CA  ALA    87      23.267  21.081  -0.400  1.00 25.00           C
ATOM     88  CA  ARG    88      26.819  20.488   0.772  1.00 25.00           C
ATOM     89  CA  GLY    89      29.738  18.985   2.663  1.00 25.00           C
ATOM     90  CA  LEU    90      29.440  22.045   4.880  1.00 25.00           C
ATOM     91  CA  GLY    91      28.414  23.106   8.363  1.00 25.00           C
ATOM     92  CA  VAL    92      24.955  22.025   7.176  1.00 25.00           C
ATOM     93  CA  ALA    93      23.225  18.619   7.456  1.00 25.00           C
ATOM     94  CA  ARG    94      24.901  18.018  10.845  1.00 25.00           C
ATOM     95  CA  TYR    95      23.753  21.466  12.054  1.00 25.00           C
ATOM     96  CA  LEU    96      20.179  20.704  10.908  1.00 25.00           C
ATOM     97  CA  ILE    97      20.273  17.354  12.762  1.00 25.00           C
ATOM     98  CA  GLY    98      21.518  19.113  15.928  1.00 25.00           C
ATOM     99  CA  VAL    99      18.696  21.686  15.639  1.00 25.00           C
ATOM    100  CA  MET   100      16.135  18.867  15.237  1.00 25.00           C
ATOM    101  CA  GLU   101      17.551  17.108  18.330  1.00 25.00           C
ATOM    102  CA  ASN   102      17.324  20.372  20.321  1.00 25.00           C
ATOM    103  CA  LEU   103      13.691  20.831  19.202  1.00 25.00           C
ATOM    104  CA  ALA   104      12.883  17.241  20.264  1.00 25.00           C
ATOM    105  CA  ARG   105      14.502  17.862  23.679  1.00 25.00           C
ATOM    106  CA  GLU   106      12.451  21.070  24.095  1.00 25.00           C
ATOM    107  CA  GLN   107       9.377  18.920  23.665  1.00 25.00           C
ATOM    108  CA  TYR   108       8.880  15.155  24.308  1.00 25.00           C
ATOM    109  CA  LYS   109       9.588  14.344  27.943  1.00 25.00           C
ATOM    110  CA  ALA   110      13.253  14.103  26.819  1.00 25.00           C
ATOM    111  CA  ARG   111      14.008  10.487  25.754  1.00 25.00           C
ATOM    112  CA  LEU   112      17.281  10.569  23.879  1.00 25.00           C
ATOM    113  CA  MET   113      17.929   9.120  20.392  1.00 25.00           C
ATOM    114  CA  LYS   114      17.314   6.262  18.010  1.00 25.00           C
ATOM    115  CA  ILE   115      16.872   4.948  14.486  1.00 25.00           C
ATOM    116  CA  SER   116      19.443   2.395  13.274  1.00 25.00           C
ATOM    117  CA  CYS   117      22.351   2.605  10.783  1.00 25.00           C
ATOM    118  CA  PHE   118      24.304   2.267   7.506  1.00 25.00           C
ATOM    119  CA  ASN   119      27.363   0.136   8.280  1.00 25.00           C
ATOM    120  CA  ALA   120      28.781   1.831   5.164  1.00 25.00           C
ATOM    121  CA  ASN   121      26.908   5.076   4.231  1.00 25.00           C
ATOM    122  CA  ALA   122      30.028   6.809   5.589  1.00 25.00           C
ATOM    123  CA  ALA   123      28.922  10.457   5.958  1.00 25.00           C
ATOM    124  CA  GLY   124      25.936   9.362   8.091  1.00 25.00           C
ATOM    125  CA  LEU   125      28.253   7.259  10.300  1.00 25.00           C
ATOM    126  CA  LEU   126      30.609  10.251  10.718  1.00 25.00           C
ATOM    127  CA  LEU   127      27.647  12.480  11.682  1.00 25.00           C
ATOM    128  CA  TYR   128      26.494   9.880  14.247  1.00 25.00           C
ATOM    129  CA  THR   129      30.031   9.720  15.710  1.00 25.00           C
ATOM    130  CA  GLN   130      30.129  13.541  15.954  1.00 25.00           C
ATOM    131  CA  LEU   131      27.314  14.439  18.380  1.00 25.00           C
ATOM    132  CA  GLY   132      28.179  11.278  20.312  1.00 25.00           C
ATOM    133  CA  TYR   133      27.607   8.472  22.815  1.00 25.00           C
ATOM    134  CA  GLN   134      27.453   5.615  20.353  1.00 25.00           C
ATOM    135  CA  PRO   135      27.156   3.246  17.449  1.00 25.00           C
ATOM    136  CA  ARG   136      25.070   0.940  19.722  1.00 25.00           C
ATOM    137  CA  ALA   137      23.087  -0.146  16.715  1.00 25.00           C
ATOM    138  CA  ILE   138      22.655  -2.361  13.659  1.00 25.00           C
ATOM    139  CA  ALA   139      20.442  -5.465  13.884  1.00 25.00           C
ATOM    140  CA  GLU   140      18.393  -5.889  10.788  1.00 25.00           C
ATOM    141  CA  ARG   141      16.097  -6.505   7.852  1.00 25.00           C
ATOM    142  CA  HIS   142      13.882  -7.141   4.853  1.00 25.00           C
ATOM    143  CA  ASP   143      11.265  -7.584   2.084  1.00 25.00           C
ATOM    144  CA  PRO   144      14.243  -6.959  -0.180  1.00 25.00           C
ATOM    145  CA  ASP   145      16.668  -9.733  -1.127  1.00 25.00           C
ATOM    146  CA  GLY   146      19.582  -7.377  -1.018  1.00 25.00           C
ATOM    147  CA  ARG   147      20.900  -6.399   2.360  1.00 25.00           C
ATOM    148  CA  ARG   148      19.855  -3.790   4.922  1.00 25.00           C
ATOM    149  CA  VAL   149      20.093  -0.869   7.342  1.00 25.00           C
ATOM    150  CA  ALA   150      17.538   1.632   8.671  1.00 25.00           C
ATOM    151  CA  LEU   151      17.630   5.304   9.408  1.00 25.00           C
ATOM    152  CA  ILE   152      20.213   7.165  11.474  1.00 25.00           C
ATOM    153  CA  GLN   153      21.804   6.497  14.905  1.00 25.00           C
ATOM    154  CA  MET   154      22.461   8.366  18.203  1.00 25.00           C
ATOM    155  CA  ASP   155      22.754   9.462  21.832  1.00 25.00           C
ATOM    156  CA  LYS   156      22.798   9.694  25.625  1.00 25.00           C
ATOM    157  CA  PRO   157      24.088  12.192  28.143  1.00 25.00           C
ATOM    158  CA  LEU   158      21.070  14.343  28.964  1.00 25.00           C
ATOM    159  CA  GLU   159      21.730  17.645  30.730  1.00 25.00           C
ATOM    160  CA  PRO   160      20.285  21.136  30.674  1.00 25.00           C
TER
END
