
#######################################################
#                                                     #
#                        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  141 (  141),  selected  141 , name T0357TS393_3
# Molecule2: number of CA atoms  132 ( 2030),  selected  132 , name T0357.pdb
# PARAMETERS: T0357TS393_3.T0357.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      V       2           -
LGA    V       2      K       3           -
LGA    K       3      F       4           -
LGA    F       4      A       5           -
LGA    A       5      C       6           -
LGA    C       6      R       7           -
LGA    R       7      A       8           -
LGA    -       -      I       9           -
LGA    -       -      T      10           -
LGA    -       -      R      11           -
LGA    -       -      G      12           -
LGA    A       8      R      13           #
LGA    I       9      A      14           #
LGA    T      10      -       -           -
LGA    R      11      -       -           -
LGA    G      12      -       -           -
LGA    R      13      E      15           #
LGA    A      14      G      16          3.005
LGA    E      15      E      17           #
LGA    G      16      A      18           -
LGA    E      17      L      19           #
LGA    A      18      V      20           -
LGA    L      19      T      21           -
LGA    -       -      K      22           -
LGA    -       -      E      23           -
LGA    -       -      Y      24           -
LGA    -       -      I      25           -
LGA    V      20      S      26           #
LGA    T      21      F      27          1.182
LGA    K      22      L      28          3.219
LGA    E      23      G      29          2.768
LGA    Y      24      G      30          3.471
LGA    I      25      I      31          4.927
LGA    S      26      D      32           #
LGA    F      27      -       -           -
LGA    L      28      -       -           -
LGA    G      29      -       -           -
LGA    G      30      K      33          3.229
LGA    I      31      E      34          2.293
LGA    D      32      T      35          1.169
LGA    K      33      G      36          4.564
LGA    E      34      I      37          4.672
LGA    T      35      -       -           -
LGA    G      36      -       -           -
LGA    I      37      V      38          3.967
LGA    V      38      K      39           #
LGA    K      39      E      40           #
LGA    E      40      D      41          4.622
LGA    D      41      C      42          0.955
LGA    C      42      E      43          2.936
LGA    E      43      -       -           -
LGA    I      44      I      44          3.866
LGA    K      45      K      45           -
LGA    G      46      G      46           -
LGA    E      47      E      47           -
LGA    S      48      S      48           -
LGA    V      49      V      49           -
LGA    A      50      A      50           -
LGA    G      51      G      51           -
LGA    -       -      R      52           -
LGA    -       -      I      53           -
LGA    R      52      L      54           #
LGA    I      53      V      55          3.222
LGA    L      54      F      56          4.066
LGA    V      55      P      57           -
LGA    F      56      G      58          4.990
LGA    P      57      G      59           #
LGA    -       -      K      60           -
LGA    -       -      G      61           -
LGA    -       -      S      62           -
LGA    -       -      T      63           -
LGA    G      58      V      64           #
LGA    G      59      G      65          4.878
LGA    K      60      S      66          4.196
LGA    G      61      Y      67          1.898
LGA    S      62      V      68          2.484
LGA    T      63      L      69          1.358
LGA    V      64      L      70          2.575
LGA    -       -      N      71           -
LGA    -       -      L      72           -
LGA    -       -      R      73           -
LGA    G      65      K      74          2.552
LGA    -       -      N      75           -
LGA    S      66      G      76           #
LGA    -       -      V      77           -
LGA    Y      67      A      78           #
LGA    V      68      P      79           -
LGA    L      69      -       -           -
LGA    L      70      K      80           #
LGA    N      71      -       -           -
LGA    L      72      -       -           -
LGA    R      73      -       -           -
LGA    K      74      -       -           -
LGA    N      75      -       -           -
LGA    G      76      -       -           -
LGA    V      77      -       -           -
LGA    A      78      -       -           -
LGA    P      79      -       -           -
LGA    K      80      -       -           -
LGA    A      81      A      81           #
LGA    I      82      I      82          4.401
LGA    I      83      I      83          3.837
LGA    N      84      N      84          3.472
LGA    -       -      K      85           -
LGA    K      85      K      86          3.320
LGA    K      86      T      87          1.083
LGA    T      87      E      88          2.010
LGA    E      88      T      89          1.760
LGA    -       -      I      90           -
LGA    -       -      I      91           -
LGA    T      89      A      92          2.247
LGA    I      90      V      93          3.993
LGA    -       -      G      94           -
LGA    I      91      A      95          2.853
LGA    A      92      A      96           #
LGA    -       -      M      97           -
LGA    -       -      A      98           -
LGA    V      93      E      99           #
LGA    G      94      I     100          1.201
LGA    A      95      -       -           -
LGA    A      96      P     101          2.999
LGA    M      97      -       -           -
LGA    A      98      -       -           -
LGA    E      99      -       -           -
LGA    I     100      -       -           -
LGA    P     101      L     102           #
LGA    L     102      -       -           -
LGA    V     103      -       -           -
LGA    E     104      V     103           #
LGA    V     105      E     104          2.579
LGA    R     106      V     105          4.785
LGA    D     107      R     106          3.541
LGA    E     108      D     107          2.101
LGA    K     109      E     108          2.786
LGA    -       -      K     109           -
LGA    F     110      F     110          2.520
LGA    F     111      F     111          2.986
LGA    E     112      E     112          2.447
LGA    A     113      A     113          2.260
LGA    V     114      V     114          2.353
LGA    K     115      K     115          2.680
LGA    T     116      T     116          4.187
LGA    G     117      G     117          3.240
LGA    D     118      D     118           -
LGA    R     119      -       -           -
LGA    V     120      -       -           -
LGA    V     121      -       -           -
LGA    V     122      -       -           -
LGA    N     123      -       -           -
LGA    A     124      -       -           -
LGA    D     125      -       -           -
LGA    E     126      R     119          2.411
LGA    G     127      V     120          2.607
LGA    Y     128      V     121           -
LGA    V     129      V     122           -
LGA    E     130      N     123           -
LGA    L     131      A     124           -
LGA    I     132      D     125           -
LGA    E     133      E     126           -
LGA    L     134      G     127           -
LGA    E     135      Y     128           -
LGA    H     136      V     129           -
LGA    H     137      E     130           -
LGA    H     138      L     131           -
LGA    H     139      I     132           -
LGA    H     140      E     133           -
LGA    H     141      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  132    5.0     53    3.20    28.30     22.697     1.606

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.786633 * X  +  -0.257590 * Y  +   0.561120 * Z  +   0.212075
  Y_new =   0.336030 * X  +   0.583810 * Y  +   0.739087 * Z  +  -3.042146
  Z_new =  -0.517969 * X  +   0.769943 * Y  +  -0.372686 * Z  +  -5.047786 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.021598   -1.119995  [ DEG:   115.8290    -64.1710 ]
  Theta =   0.544475    2.597117  [ DEG:    31.1961    148.8039 ]
  Phi   =   2.737881   -0.403711  [ DEG:   156.8690    -23.1310 ]
 
# 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: T0357TS393_3                                  
REMARK     2: T0357.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0357TS393_3.T0357.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  132   5.0   53   3.20   28.30  22.697
REMARK  ---------------------------------------------------------- 
MOLECULE T0357TS393_3
PFRMAT TS
TARGET T0357
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      10.972 -19.306 -15.503  1.00 25.00           C
ATOM      2  CA  VAL     2       9.330 -16.241 -13.983  1.00 25.00           C
ATOM      3  CA  LYS     3       6.900 -13.560 -12.871  1.00 25.00           C
ATOM      4  CA  PHE     4       7.116 -11.576  -9.601  1.00 25.00           C
ATOM      5  CA  ALA     5       4.274  -9.460  -8.169  1.00 25.00           C
ATOM      6  CA  CYS     6       1.433 -10.016  -5.613  1.00 25.00           C
ATOM      7  CA  ARG     7       2.837  -6.926  -3.878  1.00 25.00           C
ATOM      8  CA  ALA     8       6.308  -5.415  -4.275  1.00 25.00           C
ATOM      9  CA  ILE     9       8.117  -6.246  -7.492  1.00 25.00           C
ATOM     10  CA  THR    10      11.046  -5.403  -9.793  1.00 25.00           C
ATOM     11  CA  ARG    11      11.843  -8.582 -11.694  1.00 25.00           C
ATOM     12  CA  GLY    12      11.081  -6.816 -14.996  1.00 25.00           C
ATOM     13  CA  ARG    13      10.222  -3.147 -14.197  1.00 25.00           C
ATOM     14  CA  ALA    14       7.196  -2.490 -11.928  1.00 25.00           C
ATOM     15  CA  GLU    15       4.491  -5.079 -11.202  1.00 25.00           C
ATOM     16  CA  GLY    16       3.109  -3.777  -7.861  1.00 25.00           C
ATOM     17  CA  GLU    17       0.294  -3.848  -5.304  1.00 25.00           C
ATOM     18  CA  ALA    18       0.531  -2.844  -1.635  1.00 25.00           C
ATOM     19  CA  LEU    19      -1.629  -5.905  -1.168  1.00 25.00           C
ATOM     20  CA  VAL    20      -5.318  -5.800  -0.433  1.00 25.00           C
ATOM     21  CA  THR    21      -5.997  -6.073   3.286  1.00 25.00           C
ATOM     22  CA  LYS    22      -9.648  -6.390   4.172  1.00 25.00           C
ATOM     23  CA  GLU    23      -9.750 -10.132   5.045  1.00 25.00           C
ATOM     24  CA  TYR    24     -11.693 -10.486   1.754  1.00 25.00           C
ATOM     25  CA  ILE    25     -10.302 -13.385  -0.279  1.00 25.00           C
ATOM     26  CA  SER    26      -9.494 -14.838   3.174  1.00 25.00           C
ATOM     27  CA  PHE    27      -5.979 -13.606   2.376  1.00 25.00           C
ATOM     28  CA  LEU    28      -4.321 -16.177   4.590  1.00 25.00           C
ATOM     29  CA  GLY    29      -3.138 -18.489   1.743  1.00 25.00           C
ATOM     30  CA  GLY    30      -4.910 -18.935  -1.585  1.00 25.00           C
ATOM     31  CA  ILE    31      -3.200 -16.051  -3.387  1.00 25.00           C
ATOM     32  CA  ASP    32      -4.793 -15.971  -6.898  1.00 25.00           C
ATOM     33  CA  LYS    33      -7.891 -13.809  -6.401  1.00 25.00           C
ATOM     34  CA  GLU    34      -6.523 -11.864  -3.454  1.00 25.00           C
ATOM     35  CA  THR    35      -3.312  -9.887  -3.831  1.00 25.00           C
ATOM     36  CA  GLY    36      -4.668  -6.744  -5.463  1.00 25.00           C
ATOM     37  CA  ILE    37      -6.569  -6.951  -8.727  1.00 25.00           C
ATOM     38  CA  VAL    38      -9.225  -4.352  -7.870  1.00 25.00           C
ATOM     39  CA  LYS    39      -8.682  -3.265  -4.294  1.00 25.00           C
ATOM     40  CA  GLU    40     -12.229  -3.154  -2.799  1.00 25.00           C
ATOM     41  CA  ASP    41     -14.033  -1.268  -5.548  1.00 25.00           C
ATOM     42  CA  CYS    42     -12.481   0.688  -8.467  1.00 25.00           C
ATOM     43  CA  GLU    43     -15.519  -0.559 -10.465  1.00 25.00           C
ATOM     44  CA  ILE    44     -13.107  -0.600 -13.364  1.00 25.00           C
ATOM     45  CA  LYS    45     -15.338   1.450 -15.709  1.00 25.00           C
ATOM     46  CA  GLY    46     -17.205   4.231 -13.975  1.00 25.00           C
ATOM     47  CA  GLU    47     -14.094   5.560 -12.272  1.00 25.00           C
ATOM     48  CA  SER    48     -10.373   4.716 -12.473  1.00 25.00           C
ATOM     49  CA  VAL    49      -6.702   3.746 -13.012  1.00 25.00           C
ATOM     50  CA  ALA    50      -6.249   5.480  -9.628  1.00 25.00           C
ATOM     51  CA  GLY    51      -8.395   4.877  -6.541  1.00 25.00           C
ATOM     52  CA  ARG    52      -6.938   1.349  -6.677  1.00 25.00           C
ATOM     53  CA  ILE    53      -5.533   1.839  -3.115  1.00 25.00           C
ATOM     54  CA  LEU    54      -4.193  -0.927  -0.847  1.00 25.00           C
ATOM     55  CA  VAL    55      -2.961  -2.108   2.574  1.00 25.00           C
ATOM     56  CA  PHE    56      -5.520  -1.281   5.264  1.00 25.00           C
ATOM     57  CA  PRO    57      -3.540  -2.878   8.094  1.00 25.00           C
ATOM     58  CA  GLY    58      -0.843  -5.035   6.575  1.00 25.00           C
ATOM     59  CA  GLY    59       1.553  -7.686   5.404  1.00 25.00           C
ATOM     60  CA  LYS    60       3.140 -11.196   5.451  1.00 25.00           C
ATOM     61  CA  GLY    61      -0.211 -12.888   5.222  1.00 25.00           C
ATOM     62  CA  SER    62      -2.239 -10.309   3.306  1.00 25.00           C
ATOM     63  CA  THR    63       0.774 -10.341   0.960  1.00 25.00           C
ATOM     64  CA  VAL    64       3.720 -12.389  -0.083  1.00 25.00           C
ATOM     65  CA  GLY    65       6.946 -13.428  -1.866  1.00 25.00           C
ATOM     66  CA  SER    66       6.971 -10.122  -3.800  1.00 25.00           C
ATOM     67  CA  TYR    67       6.482  -8.180  -0.535  1.00 25.00           C
ATOM     68  CA  VAL    68       9.372 -10.109   1.074  1.00 25.00           C
ATOM     69  CA  LEU    69      11.603  -9.330  -1.940  1.00 25.00           C
ATOM     70  CA  LEU    70      10.683  -5.621  -1.693  1.00 25.00           C
ATOM     71  CA  ASN    71      11.517  -5.638   2.046  1.00 25.00           C
ATOM     72  CA  LEU    72      14.893  -7.291   1.310  1.00 25.00           C
ATOM     73  CA  ARG    73      15.631  -4.649  -1.363  1.00 25.00           C
ATOM     74  CA  LYS    74      14.745  -1.863   1.110  1.00 25.00           C
ATOM     75  CA  ASN    75      17.137   0.727   2.470  1.00 25.00           C
ATOM     76  CA  GLY    76      16.118   3.969   0.812  1.00 25.00           C
ATOM     77  CA  VAL    77      12.474   2.791   1.004  1.00 25.00           C
ATOM     78  CA  ALA    78      12.161   4.303  -2.460  1.00 25.00           C
ATOM     79  CA  PRO    79       9.600   5.370  -5.062  1.00 25.00           C
ATOM     80  CA  LYS    80       8.296   7.490  -2.257  1.00 25.00           C
ATOM     81  CA  ALA    81       5.250   5.319  -1.908  1.00 25.00           C
ATOM     82  CA  ILE    82       2.758   3.943   0.612  1.00 25.00           C
ATOM     83  CA  ILE    83      -0.124   2.154   2.328  1.00 25.00           C
ATOM     84  CA  ASN    84      -3.866   2.809   2.661  1.00 25.00           C
ATOM     85  CA  LYS    85      -4.914   3.775   6.127  1.00 25.00           C
ATOM     86  CA  LYS    86      -1.257   3.902   7.133  1.00 25.00           C
ATOM     87  CA  THR    87       0.118   0.535   8.369  1.00 25.00           C
ATOM     88  CA  GLU    88       2.433  -1.856  10.298  1.00 25.00           C
ATOM     89  CA  THR    89       5.021  -0.426   7.906  1.00 25.00           C
ATOM     90  CA  ILE    90       6.348  -3.585   6.195  1.00 25.00           C
ATOM     91  CA  ILE    91       3.667  -3.272   3.479  1.00 25.00           C
ATOM     92  CA  ALA    92       4.611   0.401   2.937  1.00 25.00           C
ATOM     93  CA  VAL    93       8.305  -0.566   2.646  1.00 25.00           C
ATOM     94  CA  GLY    94       7.418  -3.280   0.093  1.00 25.00           C
ATOM     95  CA  ALA    95       5.372  -0.749  -1.925  1.00 25.00           C
ATOM     96  CA  ALA    96       8.310   1.708  -1.867  1.00 25.00           C
ATOM     97  CA  MET    97      10.676  -1.054  -3.065  1.00 25.00           C
ATOM     98  CA  ALA    98       8.257  -1.930  -5.903  1.00 25.00           C
ATOM     99  CA  GLU    99       8.503   1.006  -8.304  1.00 25.00           C
ATOM    100  CA  ILE   100       5.584   2.233  -6.249  1.00 25.00           C
ATOM    101  CA  PRO   101       2.472   0.681  -4.730  1.00 25.00           C
ATOM    102  CA  LEU   102      -0.477   1.898  -2.660  1.00 25.00           C
ATOM    103  CA  VAL   103      -1.476   5.402  -1.616  1.00 25.00           C
ATOM    104  CA  GLU   104      -1.805   7.607   1.455  1.00 25.00           C
ATOM    105  CA  VAL   105       1.346   8.964   3.197  1.00 25.00           C
ATOM    106  CA  ARG   106      -1.079   9.516   6.074  1.00 25.00           C
ATOM    107  CA  ASP   107      -2.737  12.047   3.750  1.00 25.00           C
ATOM    108  CA  GLU   108      -1.729  13.561   0.432  1.00 25.00           C
ATOM    109  CA  LYS   109      -4.117  12.420  -2.337  1.00 25.00           C
ATOM    110  CA  PHE   110      -1.196  10.120  -3.254  1.00 25.00           C
ATOM    111  CA  PHE   111      -3.486   8.086  -5.553  1.00 25.00           C
ATOM    112  CA  GLU   112      -4.700  11.307  -7.233  1.00 25.00           C
ATOM    113  CA  ALA   113      -1.077  12.436  -7.744  1.00 25.00           C
ATOM    114  CA  VAL   114      -0.208   9.038  -9.282  1.00 25.00           C
ATOM    115  CA  LYS   115      -3.222   9.302 -11.631  1.00 25.00           C
ATOM    116  CA  THR   116      -2.071   6.276 -13.626  1.00 25.00           C
ATOM    117  CA  GLY   117      -1.801   2.638 -12.584  1.00 25.00           C
ATOM    118  CA  ASP   118      -3.880  -0.372 -13.365  1.00 25.00           C
ATOM    119  CA  ARG   119      -4.725  -2.550 -10.381  1.00 25.00           C
ATOM    120  CA  VAL   120      -2.494  -0.664  -8.003  1.00 25.00           C
ATOM    121  CA  VAL   121      -1.115   2.916  -7.529  1.00 25.00           C
ATOM    122  CA  VAL   122       1.605   5.298  -6.454  1.00 25.00           C
ATOM    123  CA  ASN   123       4.038   7.977  -5.477  1.00 25.00           C
ATOM    124  CA  ALA   124       5.960   7.109  -8.696  1.00 25.00           C
ATOM    125  CA  ASP   125       5.989   9.492 -11.679  1.00 25.00           C
ATOM    126  CA  GLU   126       5.202   6.642 -14.137  1.00 25.00           C
ATOM    127  CA  GLY   127       2.837   4.754 -11.904  1.00 25.00           C
ATOM    128  CA  TYR   128       3.043   1.129 -10.935  1.00 25.00           C
ATOM    129  CA  VAL   129       0.709  -1.804 -11.783  1.00 25.00           C
ATOM    130  CA  GLU   130      -0.966  -5.161 -12.466  1.00 25.00           C
ATOM    131  CA  LEU   131      -1.113  -6.704  -8.993  1.00 25.00           C
ATOM    132  CA  ILE   132      -1.441  -9.919 -10.970  1.00 25.00           C
ATOM    133  CA  GLU   133      -2.302 -11.743 -14.201  1.00 25.00           C
ATOM    134  CA  LEU   134      -3.540 -13.861 -17.053  1.00 25.00           C
ATOM    135  CA  GLU   135      -5.469 -15.589 -19.762  1.00 25.00           C
ATOM    136  CA  HIS   136      -6.916 -16.855 -23.036  1.00 25.00           C
ATOM    137  CA  HIS   137      -7.470 -15.609 -26.634  1.00 25.00           C
ATOM    138  CA  HIS   138      -6.348 -12.923 -29.055  1.00 25.00           C
ATOM    139  CA  HIS   139      -2.549 -12.622 -28.891  1.00 25.00           C
ATOM    140  CA  HIS   140      -1.944 -16.118 -30.253  1.00 25.00           C
ATOM    141  CA  HIS   141      -2.332 -14.602 -33.696  1.00 25.00           C
TER
END
