
#######################################################
#                                                     #
#                        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  135 (  135),  selected  135 , name T0319TS168_5
# Molecule2: number of CA atoms  135 ( 1055),  selected  135 , name T0319.pdb
# PARAMETERS: T0319TS168_5.T0319.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    K       2      -       -           -
LGA    F       3      -       -           -
LGA    L       4      -       -           -
LGA    T       5      -       -           -
LGA    T       6      -       -           -
LGA    N       7      -       -           -
LGA    F       8      -       -           -
LGA    L       9      -       -           -
LGA    K      10      -       -           -
LGA    C      11      -       -           -
LGA    S      12      -       -           -
LGA    V      13      -       -           -
LGA    K      14      -       -           -
LGA    A      15      -       -           -
LGA    C      16      -       -           -
LGA    D      17      -       -           -
LGA    T      18      -       -           -
LGA    S      19      -       -           -
LGA    N      20      -       -           -
LGA    D      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      -       -           -
LGA    P      24      -       -           -
LGA    L      25      -       -           -
LGA    Q      26      M       1          3.173
LGA    Y      27      K       2          2.967
LGA    D      28      -       -           -
LGA    G      29      -       -           -
LGA    S      30      -       -           -
LGA    K      31      F       3           #
LGA    C      32      L       4          1.871
LGA    Q      33      T       5          1.878
LGA    L      34      T       6          1.175
LGA    V      35      N       7          3.884
LGA    -       -      F       8           -
LGA    Q      36      L       9          1.805
LGA    D      37      K      10          2.006
LGA    E      38      C      11          2.351
LGA    -       -      S      12           -
LGA    -       -      V      13           -
LGA    -       -      K      14           -
LGA    -       -      A      15           -
LGA    S      39      C      16          1.596
LGA    I      40      D      17          1.464
LGA    E      41      T      18          1.357
LGA    F      42      S      19          3.603
LGA    N      43      N      20          2.124
LGA    -       -      D      21           -
LGA    P      44      N      22          4.459
LGA    E      45      F      23           #
LGA    F      46      -       -           -
LGA    L      47      P      24          3.544
LGA    L      48      L      25           -
LGA    -       -      Q      26           -
LGA    -       -      Y      27           -
LGA    -       -      D      28           -
LGA    -       -      G      29           -
LGA    -       -      S      30           -
LGA    -       -      K      31           -
LGA    -       -      C      32           -
LGA    -       -      Q      33           -
LGA    -       -      L      34           -
LGA    -       -      V      35           -
LGA    -       -      Q      36           -
LGA    -       -      D      37           -
LGA    -       -      E      38           -
LGA    -       -      S      39           -
LGA    -       -      I      40           -
LGA    -       -      E      41           -
LGA    -       -      F      42           -
LGA    -       -      N      43           -
LGA    -       -      P      44           -
LGA    -       -      E      45           -
LGA    -       -      F      46           -
LGA    -       -      L      47           -
LGA    -       -      L      48           -
LGA    -       -      N      49           -
LGA    -       -      I      50           -
LGA    -       -      V      51           -
LGA    -       -      D      52           -
LGA    -       -      R      53           -
LGA    -       -      V      54           -
LGA    N      49      D      55          4.465
LGA    I      50      -       -           -
LGA    V      51      -       -           -
LGA    D      52      -       -           -
LGA    R      53      -       -           -
LGA    V      54      W      56          2.885
LGA    D      55      P      57          2.366
LGA    W      56      A      58           #
LGA    P      57      V      59          2.465
LGA    A      58      L      60           #
LGA    V      59      -       -           -
LGA    L      60      T      61          3.813
LGA    T      61      V      62          1.528
LGA    V      62      A      63          2.633
LGA    A      63      A      64          3.289
LGA    A      64      E      65          2.173
LGA    E      65      L      66          0.214
LGA    L      66      G      67          1.565
LGA    G      67      N      68           #
LGA    N      68      -       -           -
LGA    N      69      -       -           -
LGA    A      70      -       -           -
LGA    L      71      N      69           #
LGA    P      72      A      70           -
LGA    P      73      L      71           -
LGA    T      74      P      72           -
LGA    K      75      P      73           -
LGA    P      76      T      74           -
LGA    S      77      K      75           -
LGA    F      78      P      76           -
LGA    P      79      S      77           -
LGA    S      80      F      78           -
LGA    S      81      P      79           -
LGA    I      82      S      80           -
LGA    Q      83      S      81           -
LGA    -       -      I      82           -
LGA    -       -      Q      83           -
LGA    -       -      E      84           -
LGA    -       -      L      85           -
LGA    E      84      T      86          5.371
LGA    L      85      D      87          3.305
LGA    T      86      D      88          4.148
LGA    D      87      D      89          2.041
LGA    D      88      M      90          3.211
LGA    -       -      A      91           -
LGA    -       -      I      92           -
LGA    D      89      L      93          0.947
LGA    -       -      N      94           -
LGA    -       -      D      95           -
LGA    M      90      L      96          4.782
LGA    A      91      H      97           -
LGA    -       -      T      98           -
LGA    I      92      L      99           #
LGA    L      93      -       -           -
LGA    N      94      -       -           -
LGA    D      95      -       -           -
LGA    L      96      L     100          5.374
LGA    H      97      L     101           -
LGA    T      98      Q     102           -
LGA    L      99      T     103           -
LGA    L     100      S     104           -
LGA    L     101      I     105           -
LGA    Q     102      A     106           -
LGA    T     103      E     107           -
LGA    -       -      G     108           -
LGA    -       -      E     109           -
LGA    -       -      M     110           -
LGA    -       -      K     111           -
LGA    -       -      C     112           -
LGA    -       -      R     113           -
LGA    -       -      N     114           -
LGA    -       -      C     115           -
LGA    -       -      G     116           -
LGA    -       -      H     117           -
LGA    -       -      I     118           -
LGA    -       -      Y     119           -
LGA    -       -      Y     120           -
LGA    -       -      I     121           -
LGA    -       -      K     122           -
LGA    -       -      N     123           -
LGA    -       -      G     124           -
LGA    -       -      I     125           -
LGA    -       -      P     126           -
LGA    -       -      N     127           -
LGA    -       -      L     128           -
LGA    S     104      L     129           #
LGA    I     105      L     130          1.940
LGA    A     106      P     131          3.684
LGA    E     107      -       -           -
LGA    G     108      -       -           -
LGA    E     109      -       -           -
LGA    M     110      -       -           -
LGA    K     111      -       -           -
LGA    C     112      -       -           -
LGA    R     113      -       -           -
LGA    N     114      -       -           -
LGA    C     115      -       -           -
LGA    G     116      -       -           -
LGA    H     117      -       -           -
LGA    I     118      -       -           -
LGA    Y     119      -       -           -
LGA    Y     120      P     132          1.483
LGA    I     121      H     133          1.945
LGA    K     122      L     134           -
LGA    N     123      V     135           -
LGA    G     124      -       -           -
LGA    I     125      -       -           -
LGA    P     126      -       -           -
LGA    N     127      -       -           -
LGA    L     128      -       -           -
LGA    L     129      -       -           -
LGA    L     130      -       -           -
LGA    P     131      -       -           -
LGA    P     132      -       -           -
LGA    H     133      -       -           -
LGA    L     134      -       -           -
LGA    V     135      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  135  135    5.0     39    2.96    10.26     17.218     1.276

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.635980 * X  +  -0.677393 * Y  +   0.369687 * Z  +  18.711988
  Y_new =  -0.136211 * X  +  -0.372995 * Y  +  -0.917781 * Z  +  -0.957906
  Z_new =   0.759589 * X  +  -0.634046 * Y  +   0.144949 * Z  +  14.512192 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.346048    1.795544  [ DEG:   -77.1229    102.8771 ]
  Theta =  -0.862681   -2.278911  [ DEG:   -49.4280   -130.5720 ]
  Phi   =  -2.930606    0.210987  [ DEG:  -167.9113     12.0886 ]
 
# 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: T0319TS168_5                                  
REMARK     2: T0319.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0319TS168_5.T0319.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  135  135   5.0   39   2.96   10.26  17.218
REMARK  ---------------------------------------------------------- 
MOLECULE T0319TS168_5
PFRMAT TS
TARGET T0319
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1       9.277  10.709  12.761  1.00 25.00           C
ATOM      2  CA  LYS     2      11.231   7.826  11.300  1.00 25.00           C
ATOM      3  CA  PHE     3      10.761   4.625  13.187  1.00 25.00           C
ATOM      4  CA  LEU     4      13.125   4.693  16.143  1.00 25.00           C
ATOM      5  CA  THR     5      14.521   1.658  18.019  1.00 25.00           C
ATOM      6  CA  THR     6      16.356   0.512  21.169  1.00 25.00           C
ATOM      7  CA  ASN     7      20.088   0.727  20.200  1.00 25.00           C
ATOM      8  CA  PHE     8      18.803   4.159  19.153  1.00 25.00           C
ATOM      9  CA  LEU     9      22.355   5.255  19.971  1.00 25.00           C
ATOM     10  CA  LYS    10      24.796   7.376  21.933  1.00 25.00           C
ATOM     11  CA  CYS    11      26.195   8.202  18.477  1.00 25.00           C
ATOM     12  CA  SER    12      29.001  10.746  18.397  1.00 25.00           C
ATOM     13  CA  VAL    13      27.717  11.554  21.903  1.00 25.00           C
ATOM     14  CA  LYS    14      25.900  14.712  20.652  1.00 25.00           C
ATOM     15  CA  ALA    15      24.673  13.071  17.406  1.00 25.00           C
ATOM     16  CA  CYS    16      21.728  10.679  17.016  1.00 25.00           C
ATOM     17  CA  ASP    17      19.775  13.966  16.628  1.00 25.00           C
ATOM     18  CA  THR    18      20.362  15.531  20.045  1.00 25.00           C
ATOM     19  CA  SER    19      17.434  14.145  22.052  1.00 25.00           C
ATOM     20  CA  ASN    20      15.348  15.530  19.226  1.00 25.00           C
ATOM     21  CA  ASP    21      13.516  12.757  17.463  1.00 25.00           C
ATOM     22  CA  ASN    22      12.159  10.978  20.522  1.00 25.00           C
ATOM     23  CA  PHE    23      13.525   7.512  21.108  1.00 25.00           C
ATOM     24  CA  PRO    24      17.148   8.612  20.448  1.00 25.00           C
ATOM     25  CA  LEU    25      16.410   8.556  16.683  1.00 25.00           C
ATOM     26  CA  GLN    26      19.100   6.627  14.808  1.00 25.00           C
ATOM     27  CA  TYR    27      22.306   4.677  14.036  1.00 25.00           C
ATOM     28  CA  ASP    28      25.845   3.410  14.670  1.00 25.00           C
ATOM     29  CA  GLY    29      28.761   1.053  15.108  1.00 25.00           C
ATOM     30  CA  SER    30      28.588   0.493  18.916  1.00 25.00           C
ATOM     31  CA  LYS    31      24.820   0.102  18.652  1.00 25.00           C
ATOM     32  CA  CYS    32      22.321  -0.017  15.781  1.00 25.00           C
ATOM     33  CA  GLN    33      18.726   1.181  15.077  1.00 25.00           C
ATOM     34  CA  LEU    34      16.062   2.423  12.652  1.00 25.00           C
ATOM     35  CA  VAL    35      13.291  -0.042  13.421  1.00 25.00           C
ATOM     36  CA  GLN    36       9.565  -0.216  14.090  1.00 25.00           C
ATOM     37  CA  ASP    37       5.865  -0.169  13.263  1.00 25.00           C
ATOM     38  CA  GLU    38       3.164   1.267  11.040  1.00 25.00           C
ATOM     39  CA  SER    39      -0.068  -0.681  11.587  1.00 25.00           C
ATOM     40  CA  ILE    40       1.699  -3.782  12.818  1.00 25.00           C
ATOM     41  CA  GLU    41       0.191  -6.282  10.306  1.00 25.00           C
ATOM     42  CA  PHE    42       3.689  -6.372   8.849  1.00 25.00           C
ATOM     43  CA  ASN    43       5.121  -4.612   5.747  1.00 25.00           C
ATOM     44  CA  PRO    44       8.333  -2.500   5.699  1.00 25.00           C
ATOM     45  CA  GLU    45      10.229  -5.115   3.640  1.00 25.00           C
ATOM     46  CA  PHE    46      13.477  -4.233   5.466  1.00 25.00           C
ATOM     47  CA  LEU    47      11.702  -4.576   8.842  1.00 25.00           C
ATOM     48  CA  LEU    48      10.319  -7.990   7.796  1.00 25.00           C
ATOM     49  CA  ASN    49      13.824  -9.112   6.735  1.00 25.00           C
ATOM     50  CA  ILE    50      15.238  -7.959  10.102  1.00 25.00           C
ATOM     51  CA  VAL    51      12.491  -9.888  11.945  1.00 25.00           C
ATOM     52  CA  ASP    52      13.279 -13.022   9.889  1.00 25.00           C
ATOM     53  CA  ARG    53      16.971 -12.643  10.562  1.00 25.00           C
ATOM     54  CA  VAL    54      18.403 -11.031   7.394  1.00 25.00           C
ATOM     55  CA  ASP    55      19.121  -7.902   5.417  1.00 25.00           C
ATOM     56  CA  TRP    56      20.631  -6.788   8.706  1.00 25.00           C
ATOM     57  CA  PRO    57      17.762  -4.253   8.642  1.00 25.00           C
ATOM     58  CA  ALA    58      19.911  -1.736  10.570  1.00 25.00           C
ATOM     59  CA  VAL    59      22.786  -2.258   8.095  1.00 25.00           C
ATOM     60  CA  LEU    60      20.391  -1.705   5.159  1.00 25.00           C
ATOM     61  CA  THR    61      19.099   1.512   6.785  1.00 25.00           C
ATOM     62  CA  VAL    62      22.696   2.730   7.288  1.00 25.00           C
ATOM     63  CA  ALA    63      23.490   1.978   3.618  1.00 25.00           C
ATOM     64  CA  ALA    64      20.370   3.909   2.521  1.00 25.00           C
ATOM     65  CA  GLU    65      21.411   6.878   4.703  1.00 25.00           C
ATOM     66  CA  LEU    66      24.922   6.804   3.174  1.00 25.00           C
ATOM     67  CA  GLY    67      24.610   8.448  -0.260  1.00 25.00           C
ATOM     68  CA  ASN    68      22.621  10.262  -2.993  1.00 25.00           C
ATOM     69  CA  ASN    69      23.163   7.535  -5.627  1.00 25.00           C
ATOM     70  CA  ALA    70      22.593   4.205  -7.382  1.00 25.00           C
ATOM     71  CA  LEU    71      26.264   3.548  -6.553  1.00 25.00           C
ATOM     72  CA  PRO    72      29.683   3.818  -8.327  1.00 25.00           C
ATOM     73  CA  PRO    73      28.941   1.190 -10.999  1.00 25.00           C
ATOM     74  CA  THR    74      32.027  -1.005 -11.511  1.00 25.00           C
ATOM     75  CA  LYS    75      30.037  -4.241 -11.306  1.00 25.00           C
ATOM     76  CA  PRO    76      33.122  -5.452  -9.440  1.00 25.00           C
ATOM     77  CA  SER    77      36.691  -6.231  -8.491  1.00 25.00           C
ATOM     78  CA  PHE    78      36.817  -4.790  -5.020  1.00 25.00           C
ATOM     79  CA  PRO    79      40.102  -3.043  -4.025  1.00 25.00           C
ATOM     80  CA  SER    80      40.352  -2.401  -0.326  1.00 25.00           C
ATOM     81  CA  SER    81      41.532  -5.990   0.092  1.00 25.00           C
ATOM     82  CA  ILE    82      42.415  -5.447   3.767  1.00 25.00           C
ATOM     83  CA  GLN    83      41.561  -9.025   4.414  1.00 25.00           C
ATOM     84  CA  GLU    84      39.916 -11.014   7.174  1.00 25.00           C
ATOM     85  CA  LEU    85      39.765  -8.492   9.987  1.00 25.00           C
ATOM     86  CA  THR    86      36.281  -7.805   8.539  1.00 25.00           C
ATOM     87  CA  ASP    87      34.406 -10.997   9.521  1.00 25.00           C
ATOM     88  CA  ASP    88      34.348  -9.867  13.180  1.00 25.00           C
ATOM     89  CA  ASP    89      32.993  -6.443  12.127  1.00 25.00           C
ATOM     90  CA  MET    90      30.270  -8.139  10.033  1.00 25.00           C
ATOM     91  CA  ALA    91      29.321 -10.350  13.012  1.00 25.00           C
ATOM     92  CA  ILE    92      29.121  -7.262  15.271  1.00 25.00           C
ATOM     93  CA  LEU    93      26.889  -5.500  12.707  1.00 25.00           C
ATOM     94  CA  ASN    94      24.613  -8.575  12.538  1.00 25.00           C
ATOM     95  CA  ASP    95      24.385  -8.646  16.360  1.00 25.00           C
ATOM     96  CA  LEU    96      23.489  -4.922  16.400  1.00 25.00           C
ATOM     97  CA  HIS    97      20.777  -5.521  13.764  1.00 25.00           C
ATOM     98  CA  THR    98      19.363  -8.413  15.838  1.00 25.00           C
ATOM     99  CA  LEU    99      19.315  -6.186  18.954  1.00 25.00           C
ATOM    100  CA  LEU   100      17.495  -3.444  16.996  1.00 25.00           C
ATOM    101  CA  LEU   101      14.924  -5.999  15.760  1.00 25.00           C
ATOM    102  CA  GLN   102      14.386  -7.230  19.347  1.00 25.00           C
ATOM    103  CA  THR   103      13.598  -3.686  20.442  1.00 25.00           C
ATOM    104  CA  SER   104      10.807  -1.683  18.809  1.00 25.00           C
ATOM    105  CA  ILE   105       9.991   1.480  20.649  1.00 25.00           C
ATOM    106  CA  ALA   106      11.319   1.984  24.126  1.00 25.00           C
ATOM    107  CA  GLU   107      11.187   4.220  27.199  1.00 25.00           C
ATOM    108  CA  GLY   108      13.838   2.017  28.802  1.00 25.00           C
ATOM    109  CA  GLU   109      16.080   2.675  25.787  1.00 25.00           C
ATOM    110  CA  MET   110      19.265   3.863  24.212  1.00 25.00           C
ATOM    111  CA  LYS   111      22.812   3.464  25.501  1.00 25.00           C
ATOM    112  CA  CYS   112      25.210   1.086  23.671  1.00 25.00           C
ATOM    113  CA  ARG   113      27.264  -0.630  26.435  1.00 25.00           C
ATOM    114  CA  ASN   114      29.593  -3.605  26.862  1.00 25.00           C
ATOM    115  CA  CYS   115      27.980  -4.731  23.612  1.00 25.00           C
ATOM    116  CA  GLY   116      25.268  -6.500  25.552  1.00 25.00           C
ATOM    117  CA  HIS   117      22.787  -5.455  22.876  1.00 25.00           C
ATOM    118  CA  ILE   118      21.076  -2.149  23.652  1.00 25.00           C
ATOM    119  CA  TYR   119      17.523  -3.093  24.578  1.00 25.00           C
ATOM    120  CA  TYR   120      13.885  -2.299  25.303  1.00 25.00           C
ATOM    121  CA  ILE   121      13.400  -6.117  25.339  1.00 25.00           C
ATOM    122  CA  LYS   122      13.494  -9.174  27.598  1.00 25.00           C
ATOM    123  CA  ASN   123      11.261 -11.763  29.289  1.00 25.00           C
ATOM    124  CA  GLY   124       8.886 -14.334  30.729  1.00 25.00           C
ATOM    125  CA  ILE   125       5.181 -13.758  31.513  1.00 25.00           C
ATOM    126  CA  PRO   126       2.161 -13.461  29.220  1.00 25.00           C
ATOM    127  CA  ASN   127       0.087 -12.099  32.091  1.00 25.00           C
ATOM    128  CA  LEU   128      -1.489  -8.751  31.541  1.00 25.00           C
ATOM    129  CA  LEU   129      -4.256  -6.166  31.391  1.00 25.00           C
ATOM    130  CA  LEU   130      -3.182  -4.865  34.760  1.00 25.00           C
ATOM    131  CA  PRO   131      -2.106  -3.373  38.160  1.00 25.00           C
ATOM    132  CA  PRO   132      -3.722  -0.187  36.947  1.00 25.00           C
ATOM    133  CA  HIS   133      -5.323   3.030  35.884  1.00 25.00           C
ATOM    134  CA  LEU   134      -6.398   2.604  32.213  1.00 25.00           C
ATOM    135  CA  VAL   135      -9.694   3.995  33.629  1.00 25.00           C
TER
END
