
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms  135 ( 1055),  selected  135 , name T0319.pdb
# PARAMETERS: T0319TS168_2.T0319.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    K       2      K       2           -
LGA    F       3      F       3           -
LGA    L       4      L       4           #
LGA    T       5      T       5          4.177
LGA    T       6      T       6          2.247
LGA    -       -      N       7           -
LGA    -       -      F       8           -
LGA    N       7      L       9          2.945
LGA    F       8      K      10           #
LGA    L       9      -       -           -
LGA    K      10      -       -           -
LGA    C      11      -       -           -
LGA    S      12      -       -           -
LGA    V      13      -       -           -
LGA    K      14      -       -           -
LGA    A      15      -       -           -
LGA    C      16      C      11          1.211
LGA    D      17      S      12          4.382
LGA    T      18      V      13          1.015
LGA    S      19      K      14          3.664
LGA    N      20      A      15           -
LGA    -       -      C      16           -
LGA    D      21      D      17          1.703
LGA    -       -      T      18           -
LGA    N      22      S      19           #
LGA    F      23      N      20           -
LGA    -       -      D      21           -
LGA    -       -      N      22           -
LGA    P      24      F      23          4.129
LGA    L      25      P      24          1.957
LGA    Q      26      L      25          1.924
LGA    Y      27      Q      26          3.086
LGA    D      28      Y      27          1.109
LGA    G      29      D      28          3.596
LGA    S      30      G      29          3.888
LGA    -       -      S      30           -
LGA    -       -      K      31           -
LGA    -       -      C      32           -
LGA    -       -      Q      33           -
LGA    K      31      L      34           #
LGA    C      32      V      35           -
LGA    Q      33      Q      36           -
LGA    L      34      D      37           -
LGA    V      35      E      38           -
LGA    Q      36      S      39           -
LGA    D      37      I      40           -
LGA    E      38      E      41           -
LGA    S      39      F      42           -
LGA    I      40      N      43           -
LGA    E      41      P      44           -
LGA    F      42      E      45           -
LGA    -       -      F      46           -
LGA    -       -      L      47           -
LGA    N      43      L      48           #
LGA    P      44      N      49          2.932
LGA    E      45      -       -           -
LGA    F      46      I      50          3.243
LGA    L      47      V      51          2.733
LGA    L      48      D      52          1.529
LGA    N      49      R      53          4.134
LGA    I      50      V      54          5.100
LGA    V      51      -       -           -
LGA    D      52      D      55           #
LGA    R      53      W      56          3.548
LGA    V      54      P      57          3.357
LGA    D      55      A      58          4.285
LGA    W      56      V      59          2.333
LGA    P      57      -       -           -
LGA    A      58      -       -           -
LGA    V      59      L      60          4.889
LGA    L      60      T      61          1.476
LGA    T      61      V      62           #
LGA    V      62      A      63           #
LGA    A      63      A      64          2.776
LGA    A      64      E      65           -
LGA    E      65      L      66           -
LGA    L      66      G      67           -
LGA    G      67      N      68           -
LGA    N      68      N      69           -
LGA    N      69      -       -           -
LGA    A      70      -       -           -
LGA    L      71      -       -           -
LGA    P      72      -       -           -
LGA    P      73      -       -           -
LGA    T      74      -       -           -
LGA    K      75      -       -           -
LGA    P      76      -       -           -
LGA    S      77      -       -           -
LGA    F      78      -       -           -
LGA    P      79      -       -           -
LGA    S      80      -       -           -
LGA    S      81      -       -           -
LGA    I      82      -       -           -
LGA    Q      83      -       -           -
LGA    E      84      -       -           -
LGA    L      85      -       -           -
LGA    T      86      -       -           -
LGA    D      87      -       -           -
LGA    D      88      -       -           -
LGA    D      89      A      70          2.195
LGA    M      90      L      71           #
LGA    A      91      P      72           -
LGA    I      92      P      73           -
LGA    -       -      T      74           -
LGA    -       -      K      75           -
LGA    -       -      P      76           -
LGA    -       -      S      77           -
LGA    -       -      F      78           -
LGA    -       -      P      79           -
LGA    -       -      S      80           -
LGA    -       -      S      81           -
LGA    -       -      I      82           -
LGA    -       -      Q      83           -
LGA    -       -      E      84           -
LGA    -       -      L      85           -
LGA    -       -      T      86           -
LGA    -       -      D      87           -
LGA    -       -      D      88           -
LGA    -       -      D      89           -
LGA    -       -      M      90           -
LGA    -       -      A      91           -
LGA    -       -      I      92           -
LGA    -       -      L      93           -
LGA    -       -      N      94           -
LGA    -       -      D      95           -
LGA    -       -      L      96           -
LGA    L      93      H      97           #
LGA    N      94      T      98          3.549
LGA    D      95      L      99          3.515
LGA    L      96      -       -           -
LGA    H      97      L     100          0.685
LGA    T      98      L     101          2.423
LGA    L      99      Q     102           -
LGA    L     100      T     103           -
LGA    L     101      -       -           -
LGA    Q     102      -       -           -
LGA    T     103      -       -           -
LGA    S     104      -       -           -
LGA    I     105      -       -           -
LGA    A     106      -       -           -
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      S     104          4.601
LGA    H     117      I     105          3.785
LGA    I     118      A     106          5.014
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           -
LGA    -       -      I     121           -
LGA    -       -      K     122           -
LGA    -       -      N     123           -
LGA    Y     119      G     124          3.764
LGA    Y     120      I     125          3.497
LGA    I     121      P     126           -
LGA    K     122      N     127           -
LGA    N     123      L     128           -
LGA    G     124      L     129           -
LGA    I     125      L     130           -
LGA    P     126      P     131           -
LGA    N     127      P     132           -
LGA    L     128      H     133           -
LGA    L     129      L     134           -
LGA    L     130      V     135           -
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     38    3.28    13.16     15.488     1.124

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.277266 * X  +  -0.063602 * Y  +   0.958686 * Z  +  19.570375
  Y_new =   0.067223 * X  +  -0.994077 * Y  +  -0.085392 * Z  +   0.912877
  Z_new =   0.958439 * X  +   0.088122 * Y  +  -0.271348 * Z  +  11.119642 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.827580   -0.314013  [ DEG:   162.0084    -17.9916 ]
  Theta =  -1.281479   -1.860114  [ DEG:   -73.4233   -106.5767 ]
  Phi   =   0.237861   -2.903731  [ DEG:    13.6285   -166.3716 ]
 
# 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_2                                  
REMARK     2: T0319.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0319TS168_2.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   38   3.28   13.16  15.488
REMARK  ---------------------------------------------------------- 
MOLECULE T0319TS168_2
PFRMAT TS
TARGET T0319
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      11.955  -0.534  26.710  1.00 25.00           C
ATOM      2  CA  LYS     2      13.194  -2.173  23.555  1.00 25.00           C
ATOM      3  CA  PHE     3      15.716  -4.021  21.388  1.00 25.00           C
ATOM      4  CA  LEU     4      14.423  -3.169  17.977  1.00 25.00           C
ATOM      5  CA  THR     5      13.347  -0.033  16.151  1.00 25.00           C
ATOM      6  CA  THR     6      13.866   0.993  12.496  1.00 25.00           C
ATOM      7  CA  ASN     7      10.074   1.453  12.398  1.00 25.00           C
ATOM      8  CA  PHE     8       9.583   5.035  13.755  1.00 25.00           C
ATOM      9  CA  LEU     9      11.706   7.389  11.638  1.00 25.00           C
ATOM     10  CA  LYS    10       8.969   9.496  10.039  1.00 25.00           C
ATOM     11  CA  CYS    11       7.245   6.420   8.671  1.00 25.00           C
ATOM     12  CA  SER    12       3.882   8.228   8.610  1.00 25.00           C
ATOM     13  CA  VAL    13       2.328   5.192   6.958  1.00 25.00           C
ATOM     14  CA  LYS    14      -0.460   3.197   8.645  1.00 25.00           C
ATOM     15  CA  ALA    15       2.300   0.856   9.964  1.00 25.00           C
ATOM     16  CA  CYS    16       4.974   2.852  11.862  1.00 25.00           C
ATOM     17  CA  ASP    17       2.367   5.510  12.689  1.00 25.00           C
ATOM     18  CA  THR    18       0.570   2.609  14.455  1.00 25.00           C
ATOM     19  CA  SER    19       1.335  -0.354  16.715  1.00 25.00           C
ATOM     20  CA  ASN    20       2.318  -4.027  16.454  1.00 25.00           C
ATOM     21  CA  ASP    21       1.915  -3.609  12.723  1.00 25.00           C
ATOM     22  CA  ASN    22       5.563  -2.701  12.546  1.00 25.00           C
ATOM     23  CA  PHE    23       8.481  -3.042  14.940  1.00 25.00           C
ATOM     24  CA  PRO    24      10.874  -3.514  12.065  1.00 25.00           C
ATOM     25  CA  LEU    25       9.892  -2.457   8.502  1.00 25.00           C
ATOM     26  CA  GLN    26       9.171   1.148   7.402  1.00 25.00           C
ATOM     27  CA  TYR    27      12.151   3.450   7.951  1.00 25.00           C
ATOM     28  CA  ASP    28      14.356   6.531   7.384  1.00 25.00           C
ATOM     29  CA  GLY    29      16.566   9.636   7.362  1.00 25.00           C
ATOM     30  CA  SER    30      20.299  10.199   7.300  1.00 25.00           C
ATOM     31  CA  LYS    31      20.423   6.347   7.332  1.00 25.00           C
ATOM     32  CA  CYS    32      19.984   4.368  10.543  1.00 25.00           C
ATOM     33  CA  GLN    33      17.988   1.159  10.079  1.00 25.00           C
ATOM     34  CA  LEU    34      18.073  -1.773  12.579  1.00 25.00           C
ATOM     35  CA  VAL    35      17.695  -4.962  14.631  1.00 25.00           C
ATOM     36  CA  GLN    36      14.502  -6.995  14.717  1.00 25.00           C
ATOM     37  CA  ASP    37      13.762 -10.069  16.807  1.00 25.00           C
ATOM     38  CA  GLU    38      13.284 -13.482  18.388  1.00 25.00           C
ATOM     39  CA  SER    39      13.868 -16.820  20.066  1.00 25.00           C
ATOM     40  CA  ILE    40      17.499 -15.663  20.208  1.00 25.00           C
ATOM     41  CA  GLU    41      19.466 -18.767  19.340  1.00 25.00           C
ATOM     42  CA  PHE    42      20.211 -16.809  16.108  1.00 25.00           C
ATOM     43  CA  ASN    43      22.045 -14.442  18.432  1.00 25.00           C
ATOM     44  CA  PRO    44      22.361 -11.294  20.610  1.00 25.00           C
ATOM     45  CA  GLU    45      19.425 -10.811  18.199  1.00 25.00           C
ATOM     46  CA  PHE    46      20.641  -7.271  17.387  1.00 25.00           C
ATOM     47  CA  LEU    47      24.170  -8.609  16.730  1.00 25.00           C
ATOM     48  CA  LEU    48      22.743 -11.309  14.419  1.00 25.00           C
ATOM     49  CA  ASN    49      20.725  -8.659  12.529  1.00 25.00           C
ATOM     50  CA  ILE    50      23.867  -6.504  12.145  1.00 25.00           C
ATOM     51  CA  VAL    51      25.808  -9.527  10.818  1.00 25.00           C
ATOM     52  CA  ASP    52      23.005 -10.257   8.311  1.00 25.00           C
ATOM     53  CA  ARG    53      21.235 -10.502   4.908  1.00 25.00           C
ATOM     54  CA  VAL    54      18.394  -8.988   6.874  1.00 25.00           C
ATOM     55  CA  ASP    55      20.052  -5.699   5.818  1.00 25.00           C
ATOM     56  CA  TRP    56      17.556  -3.942   8.033  1.00 25.00           C
ATOM     57  CA  PRO    57      15.085  -4.851   5.252  1.00 25.00           C
ATOM     58  CA  ALA    58      13.642  -1.304   5.341  1.00 25.00           C
ATOM     59  CA  VAL    59      17.172   0.164   5.111  1.00 25.00           C
ATOM     60  CA  LEU    60      17.947  -2.102   2.123  1.00 25.00           C
ATOM     61  CA  THR    61      14.706  -0.993   0.410  1.00 25.00           C
ATOM     62  CA  VAL    62      15.614   2.678   1.014  1.00 25.00           C
ATOM     63  CA  ALA    63      19.097   2.085  -0.463  1.00 25.00           C
ATOM     64  CA  ALA    64      17.536   0.411  -3.534  1.00 25.00           C
ATOM     65  CA  GLU    65      15.153   3.377  -3.970  1.00 25.00           C
ATOM     66  CA  LEU    66      18.099   5.811  -3.728  1.00 25.00           C
ATOM     67  CA  GLY    67      17.223   7.196  -7.142  1.00 25.00           C
ATOM     68  CA  ASN    68      15.805   5.306 -10.143  1.00 25.00           C
ATOM     69  CA  ASN    69      15.877   1.764 -11.614  1.00 25.00           C
ATOM     70  CA  ALA    70      18.358   0.151 -14.046  1.00 25.00           C
ATOM     71  CA  LEU    71      20.216   3.434 -13.528  1.00 25.00           C
ATOM     72  CA  PRO    72      21.465   6.934 -14.417  1.00 25.00           C
ATOM     73  CA  PRO    73      23.559   9.481 -16.424  1.00 25.00           C
ATOM     74  CA  THR    74      25.751   6.423 -17.082  1.00 25.00           C
ATOM     75  CA  LYS    75      28.130   5.525 -19.936  1.00 25.00           C
ATOM     76  CA  PRO    76      31.164   7.316 -18.501  1.00 25.00           C
ATOM     77  CA  SER    77      34.454   6.017 -17.104  1.00 25.00           C
ATOM     78  CA  PHE    78      33.451   6.545 -13.504  1.00 25.00           C
ATOM     79  CA  PRO    79      35.506   9.425 -12.229  1.00 25.00           C
ATOM     80  CA  SER    80      37.871   8.422  -9.359  1.00 25.00           C
ATOM     81  CA  SER    81      37.914   4.923  -7.979  1.00 25.00           C
ATOM     82  CA  ILE    82      38.532   1.611  -6.222  1.00 25.00           C
ATOM     83  CA  GLN    83      39.546   3.593  -3.119  1.00 25.00           C
ATOM     84  CA  GLU    84      38.447   1.404  -0.297  1.00 25.00           C
ATOM     85  CA  LEU    85      35.973  -0.722  -2.204  1.00 25.00           C
ATOM     86  CA  THR    86      32.514  -0.104  -0.806  1.00 25.00           C
ATOM     87  CA  ASP    87      33.313   2.731   1.643  1.00 25.00           C
ATOM     88  CA  ASP    88      29.695   3.970   1.425  1.00 25.00           C
ATOM     89  CA  ASP    89      28.414   0.425   2.101  1.00 25.00           C
ATOM     90  CA  MET    90      30.737   0.136   5.132  1.00 25.00           C
ATOM     91  CA  ALA    91      29.472   3.502   6.452  1.00 25.00           C
ATOM     92  CA  ILE    92      25.848   2.341   6.011  1.00 25.00           C
ATOM     93  CA  LEU    93      26.633  -0.901   7.892  1.00 25.00           C
ATOM     94  CA  ASN    94      28.243   1.105  10.729  1.00 25.00           C
ATOM     95  CA  ASP    95      25.161   3.370  10.911  1.00 25.00           C
ATOM     96  CA  LEU    96      22.880   0.297  11.060  1.00 25.00           C
ATOM     97  CA  HIS    97      25.015  -1.181  13.874  1.00 25.00           C
ATOM     98  CA  THR    98      24.815   2.126  15.796  1.00 25.00           C
ATOM     99  CA  LEU    99      21.010   2.176  15.362  1.00 25.00           C
ATOM    100  CA  LEU   100      20.793  -1.428  16.640  1.00 25.00           C
ATOM    101  CA  LEU   101      22.934  -0.506  19.678  1.00 25.00           C
ATOM    102  CA  GLN   102      20.667   2.497  20.393  1.00 25.00           C
ATOM    103  CA  THR   103      17.949   3.260  17.798  1.00 25.00           C
ATOM    104  CA  SER   104      15.680   1.508  20.281  1.00 25.00           C
ATOM    105  CA  ILE   105      12.220   3.051  20.624  1.00 25.00           C
ATOM    106  CA  ALA   106      12.320   6.305  22.482  1.00 25.00           C
ATOM    107  CA  GLU   107      11.593   9.977  22.787  1.00 25.00           C
ATOM    108  CA  GLY   108      12.812  11.156  19.384  1.00 25.00           C
ATOM    109  CA  GLU   109      13.048   8.410  16.766  1.00 25.00           C
ATOM    110  CA  MET   110      14.419   5.165  15.302  1.00 25.00           C
ATOM    111  CA  LYS   111      16.242   5.607  12.058  1.00 25.00           C
ATOM    112  CA  CYS   112      16.302   9.382  12.444  1.00 25.00           C
ATOM    113  CA  ARG   113      18.089  12.781  12.460  1.00 25.00           C
ATOM    114  CA  ASN   114      20.916  15.009  11.100  1.00 25.00           C
ATOM    115  CA  CYS   115      23.409  12.139  11.012  1.00 25.00           C
ATOM    116  CA  GLY   116      23.922  12.127  14.777  1.00 25.00           C
ATOM    117  CA  HIS   117      24.267   8.389  14.382  1.00 25.00           C
ATOM    118  CA  ILE   118      20.523   8.233  13.783  1.00 25.00           C
ATOM    119  CA  TYR   119      18.489   8.186  16.996  1.00 25.00           C
ATOM    120  CA  TYR   120      16.679   7.465  20.246  1.00 25.00           C
ATOM    121  CA  ILE   121      19.944   7.169  22.156  1.00 25.00           C
ATOM    122  CA  LYS   122      22.588   7.846  24.868  1.00 25.00           C
ATOM    123  CA  ASN   123      25.060   9.220  27.410  1.00 25.00           C
ATOM    124  CA  GLY   124      27.614   9.525  30.225  1.00 25.00           C
ATOM    125  CA  ILE   125      27.666   8.513  33.872  1.00 25.00           C
ATOM    126  CA  PRO   126      25.171   7.810  36.694  1.00 25.00           C
ATOM    127  CA  ASN   127      23.086   4.962  38.110  1.00 25.00           C
ATOM    128  CA  LEU   128      25.680   2.251  37.545  1.00 25.00           C
ATOM    129  CA  LEU   129      24.788  -1.308  38.276  1.00 25.00           C
ATOM    130  CA  LEU   130      28.448  -2.281  38.431  1.00 25.00           C
ATOM    131  CA  PRO   131      32.154  -2.653  37.865  1.00 25.00           C
ATOM    132  CA  PRO   132      33.518  -5.340  35.444  1.00 25.00           C
ATOM    133  CA  HIS   133      32.073  -8.812  35.744  1.00 25.00           C
ATOM    134  CA  LEU   134      30.262 -10.414  38.607  1.00 25.00           C
ATOM    135  CA  VAL   135      26.454 -10.638  38.326  1.00 25.00           C
TER
END
