
#######################################################
#                                                     #
#                        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  147 (  147),  selected  147 , name T0373TS168_1
# Molecule2: number of CA atoms  140 ( 1047),  selected  140 , name T0373.pdb
# PARAMETERS: T0373TS168_1.T0373.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      P       2           -
LGA    P       2      T       3           -
LGA    T       3      N       4           -
LGA    N       4      Q       5           -
LGA    Q       5      D       6           -
LGA    D       6      L       7           -
LGA    L       7      Q       8           -
LGA    Q       8      L       9           -
LGA    L       9      A      10           -
LGA    A      10      A      11           -
LGA    A      11      H      12           -
LGA    H      12      L      13           -
LGA    L      13      -       -           -
LGA    R      14      -       -           -
LGA    S      15      -       -           -
LGA    Q      16      -       -           -
LGA    V      17      -       -           -
LGA    T      18      -       -           -
LGA    T      19      -       -           -
LGA    L      20      -       -           -
LGA    T      21      -       -           -
LGA    R      22      -       -           -
LGA    R      23      R      14          4.868
LGA    L      24      S      15           #
LGA    R      25      Q      16           -
LGA    -       -      V      17           -
LGA    R      26      T      18          4.369
LGA    E      27      T      19          2.103
LGA    -       -      L      20           -
LGA    -       -      T      21           -
LGA    -       -      R      22           -
LGA    -       -      R      23           -
LGA    A      28      L      24           #
LGA    Q      29      R      25           -
LGA    A      30      R      26           -
LGA    D      31      E      27           -
LGA    -       -      A      28           -
LGA    -       -      Q      29           -
LGA    -       -      A      30           -
LGA    P      32      D      31          5.186
LGA    V      33      P      32          3.847
LGA    Q      34      V      33           #
LGA    -       -      Q      34           -
LGA    -       -      F      35           -
LGA    F      35      S      36           #
LGA    S      36      Q      37          4.920
LGA    Q      37      L      38          4.724
LGA    L      38      V      39          4.602
LGA    V      39      V      40          4.318
LGA    V      40      L      41          4.272
LGA    L      41      G      42          4.134
LGA    G      42      A      43          4.117
LGA    A      43      -       -           -
LGA    I      44      I      44          1.775
LGA    D      45      D      45           -
LGA    -       -      R      46           -
LGA    R      46      L      47          4.356
LGA    L      47      -       -           -
LGA    G      48      -       -           -
LGA    G      49      -       -           -
LGA    D      50      G      48           #
LGA    V      51      G      49          2.442
LGA    T      52      D      50          2.598
LGA    P      53      V      51          4.978
LGA    S      54      T      52           #
LGA    E      55      P      53          3.085
LGA    L      56      S      54           #
LGA    A      57      E      55           -
LGA    A      58      L      56           -
LGA    -       -      A      57           -
LGA    -       -      A      58           -
LGA    -       -      A      59           -
LGA    -       -      E      60           -
LGA    -       -      R      61           -
LGA    -       -      M      62           -
LGA    -       -      R      63           -
LGA    A      59      S      64          3.490
LGA    -       -      S      65           -
LGA    -       -      N      66           -
LGA    E      60      L      67          1.095
LGA    -       -      A      68           -
LGA    R      61      A      69          2.640
LGA    M      62      L      70          1.170
LGA    R      63      L      71          2.677
LGA    S      64      R      72          4.539
LGA    S      65      E      73          4.465
LGA    N      66      L      74          4.308
LGA    L      67      -       -           -
LGA    A      68      E      75           #
LGA    A      69      R      76           -
LGA    L      70      G      77           -
LGA    -       -      G      78           -
LGA    L      71      L      79           #
LGA    R      72      I      80           -
LGA    E      73      V      81           -
LGA    L      74      R      82           -
LGA    E      75      H      83           -
LGA    R      76      A      84           -
LGA    G      77      D      85           -
LGA    G      78      P      86           -
LGA    L      79      R      91           -
LGA    I      80      T      92           -
LGA    V      81      R      93           -
LGA    R      82      -       -           -
LGA    H      83      -       -           -
LGA    A      84      -       -           -
LGA    D      85      -       -           -
LGA    P      86      -       -           -
LGA    Q      87      -       -           -
LGA    D      88      -       -           -
LGA    G      89      -       -           -
LGA    R      90      -       -           -
LGA    R      91      -       -           -
LGA    T      92      -       -           -
LGA    R      93      -       -           -
LGA    V      94      -       -           -
LGA    S      95      -       -           -
LGA    L      96      V      94           #
LGA    -       -      S      95           -
LGA    S      97      L      96          3.017
LGA    -       -      S      97           -
LGA    S      98      S      98          0.579
LGA    E      99      E      99          0.647
LGA    G     100      G     100          0.866
LGA    R     101      R     101          0.444
LGA    R     102      R     102          1.126
LGA    N     103      N     103          1.640
LGA    L     104      L     104          1.739
LGA    Y     105      Y     105          2.018
LGA    G     106      G     106          1.536
LGA    N     107      N     107          1.446
LGA    R     108      R     108          1.899
LGA    A     109      A     109          1.731
LGA    K     110      K     110          1.180
LGA    R     111      R     111          1.468
LGA    E     112      E     112          1.672
LGA    E     113      E     113          1.075
LGA    W     114      W     114          0.812
LGA    L     115      L     115          1.421
LGA    V     116      V     116          1.290
LGA    R     117      R     117          0.436
LGA    A     118      A     118          0.835
LGA    M     119      M     119          1.672
LGA    H     120      H     120          1.680
LGA    A     121      A     121          0.512
LGA    C     122      C     122          0.530
LGA    L     123      L     123          3.187
LGA    -       -      D     124           -
LGA    -       -      E     125           -
LGA    -       -      S     126           -
LGA    D     124      E     127          3.718
LGA    -       -      R     128           -
LGA    -       -      A     129           -
LGA    -       -      L     130           -
LGA    E     125      L     131          1.703
LGA    -       -      A     132           -
LGA    -       -      A     133           -
LGA    S     126      A     134          3.631
LGA    E     127      G     135          4.313
LGA    R     128      -       -           -
LGA    A     129      -       -           -
LGA    L     130      P     136           #
LGA    L     131      L     137           -
LGA    A     132      L     138           -
LGA    A     133      T     139           -
LGA    A     134      R     140           -
LGA    G     135      L     141           -
LGA    P     136      A     142           -
LGA    L     137      Q     143           -
LGA    L     138      F     144           -
LGA    T     139      E     145           -
LGA    R     140      -       -           -
LGA    L     141      -       -           -
LGA    A     142      -       -           -
LGA    Q     143      -       -           -
LGA    F     144      -       -           -
LGA    E     145      -       -           -
LGA    E     146      -       -           -
LGA    P     147      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  147  140    5.0     57    2.95    50.88     27.161     1.871

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.846840 * X  +   0.049144 * Y  +   0.529572 * Z  +  45.696320
  Y_new =  -0.345704 * X  +  -0.705815 * Y  +   0.618315 * Z  +  -0.478087
  Z_new =   0.404167 * X  +  -0.706689 * Y  +  -0.580723 * Z  +  55.077072 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.258661    0.882932  [ DEG:  -129.4117     50.5883 ]
  Theta =  -0.416068   -2.725525  [ DEG:   -23.8389   -156.1611 ]
  Phi   =  -0.387579    2.754014  [ DEG:   -22.2067    157.7934 ]
 
# 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: T0373TS168_1                                  
REMARK     2: T0373.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0373TS168_1.T0373.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  147  140   5.0   57   2.95   50.88  27.161
REMARK  ---------------------------------------------------------- 
MOLECULE T0373TS168_1
PFRMAT TS
TARGET T0373
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      46.810 -29.663  57.116  1.00 25.00           C
ATOM      2  CA  PRO     2      50.472 -30.173  57.853  1.00 25.00           C
ATOM      3  CA  THR     3      51.696 -28.567  61.019  1.00 25.00           C
ATOM      4  CA  ASN     4      53.573 -25.374  61.806  1.00 25.00           C
ATOM      5  CA  GLN     5      54.302 -23.277  58.685  1.00 25.00           C
ATOM      6  CA  ASP     6      50.942 -21.483  59.076  1.00 25.00           C
ATOM      7  CA  LEU     7      51.723 -20.768  62.757  1.00 25.00           C
ATOM      8  CA  GLN     8      55.156 -19.377  61.784  1.00 25.00           C
ATOM      9  CA  LEU     9      53.525 -17.139  59.138  1.00 25.00           C
ATOM     10  CA  ALA    10      51.002 -15.874  61.726  1.00 25.00           C
ATOM     11  CA  ALA    11      53.852 -15.116  64.170  1.00 25.00           C
ATOM     12  CA  HIS    12      55.729 -13.210  61.429  1.00 25.00           C
ATOM     13  CA  LEU    13      52.571 -11.196  60.632  1.00 25.00           C
ATOM     14  CA  ARG    14      52.134 -10.367  64.346  1.00 25.00           C
ATOM     15  CA  SER    15      55.787  -9.236  64.548  1.00 25.00           C
ATOM     16  CA  GLN    16      55.298  -7.023  61.461  1.00 25.00           C
ATOM     17  CA  VAL    17      52.158  -5.489  63.027  1.00 25.00           C
ATOM     18  CA  THR    18      54.081  -4.800  66.267  1.00 25.00           C
ATOM     19  CA  THR    19      56.897  -3.139  64.271  1.00 25.00           C
ATOM     20  CA  LEU    20      54.339  -0.971  62.420  1.00 25.00           C
ATOM     21  CA  THR    21      52.755   0.051  65.755  1.00 25.00           C
ATOM     22  CA  ARG    22      56.206   0.961  67.144  1.00 25.00           C
ATOM     23  CA  ARG    23      56.934   3.059  64.023  1.00 25.00           C
ATOM     24  CA  LEU    24      53.574   4.853  64.414  1.00 25.00           C
ATOM     25  CA  ARG    25      54.355   5.568  68.095  1.00 25.00           C
ATOM     26  CA  ARG    26      57.789   6.960  67.122  1.00 25.00           C
ATOM     27  CA  GLU    27      56.158   9.196  64.475  1.00 25.00           C
ATOM     28  CA  ALA    28      54.794  12.271  66.247  1.00 25.00           C
ATOM     29  CA  GLN    29      54.262  13.148  69.922  1.00 25.00           C
ATOM     30  CA  ALA    30      50.569  12.451  70.385  1.00 25.00           C
ATOM     31  CA  ASP    31      48.214   9.466  70.487  1.00 25.00           C
ATOM     32  CA  PRO    32      45.626   8.401  67.963  1.00 25.00           C
ATOM     33  CA  VAL    33      44.856   5.759  65.362  1.00 25.00           C
ATOM     34  CA  GLN    34      45.222   2.451  67.142  1.00 25.00           C
ATOM     35  CA  PHE    35      45.254  -1.389  67.160  1.00 25.00           C
ATOM     36  CA  SER    36      41.688  -0.932  65.842  1.00 25.00           C
ATOM     37  CA  GLN    37      43.058   0.055  62.405  1.00 25.00           C
ATOM     38  CA  LEU    38      45.310  -3.042  62.385  1.00 25.00           C
ATOM     39  CA  VAL    39      42.318  -5.252  63.298  1.00 25.00           C
ATOM     40  CA  VAL    40      40.266  -3.687  60.469  1.00 25.00           C
ATOM     41  CA  LEU    41      43.130  -4.319  58.007  1.00 25.00           C
ATOM     42  CA  GLY    42      43.349  -7.964  59.160  1.00 25.00           C
ATOM     43  CA  ALA    43      39.569  -8.364  58.690  1.00 25.00           C
ATOM     44  CA  ILE    44      39.824  -6.878  55.170  1.00 25.00           C
ATOM     45  CA  ASP    45      42.676  -9.294  54.331  1.00 25.00           C
ATOM     46  CA  ARG    46      40.591 -12.239  55.611  1.00 25.00           C
ATOM     47  CA  LEU    47      36.824 -12.599  56.375  1.00 25.00           C
ATOM     48  CA  GLY    48      33.803 -14.649  55.179  1.00 25.00           C
ATOM     49  CA  GLY    49      31.933 -13.953  51.906  1.00 25.00           C
ATOM     50  CA  ASP    50      34.678 -12.219  49.965  1.00 25.00           C
ATOM     51  CA  VAL    51      37.362 -10.089  51.631  1.00 25.00           C
ATOM     52  CA  THR    52      34.513  -8.704  53.781  1.00 25.00           C
ATOM     53  CA  PRO    53      34.815  -7.297  57.297  1.00 25.00           C
ATOM     54  CA  SER    54      31.919  -7.017  59.788  1.00 25.00           C
ATOM     55  CA  GLU    55      33.046 -10.252  61.501  1.00 25.00           C
ATOM     56  CA  LEU    56      36.625  -8.911  61.731  1.00 25.00           C
ATOM     57  CA  ALA    57      35.331  -5.645  63.254  1.00 25.00           C
ATOM     58  CA  ALA    58      33.276  -7.621  65.810  1.00 25.00           C
ATOM     59  CA  ALA    59      36.359  -9.703  66.715  1.00 25.00           C
ATOM     60  CA  GLU    60      38.418  -6.506  67.160  1.00 25.00           C
ATOM     61  CA  ARG    61      35.803  -4.783  69.383  1.00 25.00           C
ATOM     62  CA  MET    62      34.001  -2.204  67.219  1.00 25.00           C
ATOM     63  CA  ARG    63      30.555  -2.930  65.791  1.00 25.00           C
ATOM     64  CA  SER    64      30.126  -0.446  63.003  1.00 25.00           C
ATOM     65  CA  SER    65      30.606   3.347  63.218  1.00 25.00           C
ATOM     66  CA  ASN    66      33.714   2.856  65.400  1.00 25.00           C
ATOM     67  CA  LEU    67      35.117   0.337  62.878  1.00 25.00           C
ATOM     68  CA  ALA    68      34.483   2.809  60.021  1.00 25.00           C
ATOM     69  CA  ALA    69      36.262   5.574  61.985  1.00 25.00           C
ATOM     70  CA  LEU    70      39.240   3.248  62.609  1.00 25.00           C
ATOM     71  CA  LEU    71      39.388   2.397  58.878  1.00 25.00           C
ATOM     72  CA  ARG    72      39.321   6.123  58.000  1.00 25.00           C
ATOM     73  CA  GLU    73      42.158   6.786  60.485  1.00 25.00           C
ATOM     74  CA  LEU    74      44.202   3.934  58.949  1.00 25.00           C
ATOM     75  CA  GLU    75      43.616   5.367  55.447  1.00 25.00           C
ATOM     76  CA  ARG    76      44.738   8.826  56.649  1.00 25.00           C
ATOM     77  CA  GLY    77      47.798   7.381  58.301  1.00 25.00           C
ATOM     78  CA  GLY    78      48.607   4.319  56.191  1.00 25.00           C
ATOM     79  CA  LEU    79      48.042   1.104  58.147  1.00 25.00           C
ATOM     80  CA  ILE    80      45.605  -0.108  55.558  1.00 25.00           C
ATOM     81  CA  VAL    81      47.159  -3.578  54.984  1.00 25.00           C
ATOM     82  CA  ARG    82      47.158  -7.032  53.329  1.00 25.00           C
ATOM     83  CA  HIS    83      45.398  -8.408  50.197  1.00 25.00           C
ATOM     84  CA  ALA    84      47.401 -11.245  48.717  1.00 25.00           C
ATOM     85  CA  ASP    85      48.728 -13.868  46.216  1.00 25.00           C
ATOM     86  CA  PRO    86      51.221 -16.348  44.682  1.00 25.00           C
ATOM     87  CA  GLN    87      54.056 -13.899  44.779  1.00 25.00           C
ATOM     88  CA  ASP    88      55.714 -10.600  45.859  1.00 25.00           C
ATOM     89  CA  GLY    89      53.400  -8.394  47.918  1.00 25.00           C
ATOM     90  CA  ARG    90      51.266  -5.759  49.643  1.00 25.00           C
ATOM     91  CA  ARG    91      50.747  -2.366  51.145  1.00 25.00           C
ATOM     92  CA  THR    92      47.083  -2.235  50.201  1.00 25.00           C
ATOM     93  CA  ARG    93      43.610  -3.248  51.458  1.00 25.00           C
ATOM     94  CA  VAL    94      41.386  -1.635  54.115  1.00 25.00           C
ATOM     95  CA  SER    95      38.601  -2.712  51.666  1.00 25.00           C
ATOM     96  CA  LEU    96      35.105  -1.767  52.859  1.00 25.00           C
ATOM     97  CA  SER    97      31.719  -1.304  51.183  1.00 25.00           C
ATOM     98  CA  SER    98      29.599   1.723  50.373  1.00 25.00           C
ATOM     99  CA  GLU    99      29.624   4.768  52.695  1.00 25.00           C
ATOM    100  CA  GLY   100      32.742   3.423  54.466  1.00 25.00           C
ATOM    101  CA  ARG   101      34.464   2.893  51.086  1.00 25.00           C
ATOM    102  CA  ARG   102      33.577   6.471  50.046  1.00 25.00           C
ATOM    103  CA  ASN   103      34.993   7.807  53.344  1.00 25.00           C
ATOM    104  CA  LEU   104      38.217   5.813  52.796  1.00 25.00           C
ATOM    105  CA  TYR   105      38.510   7.218  49.245  1.00 25.00           C
ATOM    106  CA  GLY   106      38.013  10.773  50.584  1.00 25.00           C
ATOM    107  CA  ASN   107      40.722  10.182  53.226  1.00 25.00           C
ATOM    108  CA  ARG   108      43.107   8.882  50.526  1.00 25.00           C
ATOM    109  CA  ALA   109      42.399  11.973  48.378  1.00 25.00           C
ATOM    110  CA  LYS   110      43.089  14.248  51.381  1.00 25.00           C
ATOM    111  CA  ARG   111      46.386  12.416  52.043  1.00 25.00           C
ATOM    112  CA  GLU   112      47.380  12.825  48.367  1.00 25.00           C
ATOM    113  CA  GLU   113      46.567  16.564  48.538  1.00 25.00           C
ATOM    114  CA  TRP   114      48.685  16.905  51.712  1.00 25.00           C
ATOM    115  CA  LEU   115      51.591  15.097  49.995  1.00 25.00           C
ATOM    116  CA  VAL   116      51.294  17.432  46.976  1.00 25.00           C
ATOM    117  CA  ARG   117      51.319  20.477  49.297  1.00 25.00           C
ATOM    118  CA  ALA   118      54.437  19.133  51.068  1.00 25.00           C
ATOM    119  CA  MET   119      56.159  18.603  47.688  1.00 25.00           C
ATOM    120  CA  HIS   120      55.272  22.181  46.648  1.00 25.00           C
ATOM    121  CA  ALA   121      56.688  23.517  49.946  1.00 25.00           C
ATOM    122  CA  CYS   122      59.541  21.135  50.820  1.00 25.00           C
ATOM    123  CA  LEU   123      60.327  17.430  50.927  1.00 25.00           C
ATOM    124  CA  ASP   124      61.577  14.408  48.951  1.00 25.00           C
ATOM    125  CA  GLU   125      61.035  10.595  49.017  1.00 25.00           C
ATOM    126  CA  SER   126      60.868   6.833  49.709  1.00 25.00           C
ATOM    127  CA  GLU   127      57.408   7.254  51.297  1.00 25.00           C
ATOM    128  CA  ARG   128      56.226   9.249  48.248  1.00 25.00           C
ATOM    129  CA  ALA   129      57.544   6.512  45.915  1.00 25.00           C
ATOM    130  CA  LEU   130      55.717   3.846  47.969  1.00 25.00           C
ATOM    131  CA  LEU   131      52.481   5.886  47.785  1.00 25.00           C
ATOM    132  CA  ALA   132      52.880   6.221  43.991  1.00 25.00           C
ATOM    133  CA  ALA   133      53.426   2.443  43.689  1.00 25.00           C
ATOM    134  CA  ALA   134      50.285   1.798  45.784  1.00 25.00           C
ATOM    135  CA  GLY   135      48.279   4.179  43.554  1.00 25.00           C
ATOM    136  CA  PRO   136      49.564   2.376  40.430  1.00 25.00           C
ATOM    137  CA  LEU   137      48.573  -1.001  41.940  1.00 25.00           C
ATOM    138  CA  LEU   138      45.079   0.353  42.736  1.00 25.00           C
ATOM    139  CA  THR   139      44.732   1.637  39.144  1.00 25.00           C
ATOM    140  CA  ARG   140      45.795  -1.785  37.792  1.00 25.00           C
ATOM    141  CA  LEU   141      43.220  -3.502  40.049  1.00 25.00           C
ATOM    142  CA  ALA   142      40.501  -1.105  38.813  1.00 25.00           C
ATOM    143  CA  GLN   143      41.467  -1.842  35.181  1.00 25.00           C
ATOM    144  CA  PHE   144      42.454  -4.361  32.457  1.00 25.00           C
ATOM    145  CA  GLU   145      40.844  -2.389  29.618  1.00 25.00           C
ATOM    146  CA  GLU   146      43.119   0.705  29.462  1.00 25.00           C
ATOM    147  CA  PRO   147      40.771   3.642  29.002  1.00 25.00           C
TER
END
