
#######################################################
#                                                     #
#                        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  106 (  106),  selected  106 , name T0314TS168_1
# Molecule2: number of CA atoms  106 ( 1704),  selected  106 , name T0314.pdb
# PARAMETERS: T0314TS168_1.T0314.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    S       2      S       2           -
LGA    I       3      I       3           -
LGA    T       4      T       4           -
LGA    -       -      S       5           -
LGA    -       -      T       6           -
LGA    -       -      D       7           -
LGA    -       -      I       8           -
LGA    -       -      C       9           -
LGA    S       5      Q      10           #
LGA    T       6      A      11           -
LGA    D       7      A      12           #
LGA    I       8      D      13          2.373
LGA    C       9      A      14          4.523
LGA    Q      10      L      15          3.625
LGA    A      11      -       -           -
LGA    A      12      K      16          4.004
LGA    D      13      G      17          1.670
LGA    A      14      F      18          4.557
LGA    L      15      V      19          4.191
LGA    K      16      G      20           -
LGA    G      17      F      21           -
LGA    F      18      N      22           -
LGA    -       -      R      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    V      19      R      27           #
LGA    G      20      Y      28          2.211
LGA    F      21      -       -           -
LGA    N      22      -       -           -
LGA    R      23      -       -           -
LGA    K      24      -       -           -
LGA    T      25      -       -           -
LGA    G      26      -       -           -
LGA    R      27      -       -           -
LGA    Y      28      -       -           -
LGA    I      29      I      29          4.182
LGA    V      30      V      30          4.070
LGA    R      31      R      31           -
LGA    F      32      F      32           -
LGA    S      33      -       -           -
LGA    E      34      -       -           -
LGA    D      35      -       -           -
LGA    S      36      -       -           -
LGA    F      37      -       -           -
LGA    G      38      -       -           -
LGA    M      39      S      33          5.313
LGA    D      40      E      34          3.647
LGA    V      41      D      35          1.303
LGA    A      42      S      36          2.844
LGA    D      43      F      37           #
LGA    D      44      G      38          3.813
LGA    S      45      M      39          1.517
LGA    I      46      D      40          2.209
LGA    T      47      V      41          1.846
LGA    P      48      A      42          4.922
LGA    T      49      D      43           #
LGA    S      50      D      44          2.868
LGA    E      51      S      45          4.543
LGA    F      52      I      46          2.329
LGA    -       -      T      47           -
LGA    V      53      P      48           #
LGA    W      54      -       -           -
LGA    S      55      -       -           -
LGA    S      56      -       -           -
LGA    V      57      -       -           -
LGA    R      58      -       -           -
LGA    D      59      -       -           -
LGA    D      60      -       -           -
LGA    V      61      -       -           -
LGA    M      62      -       -           -
LGA    R      63      T      49           #
LGA    -       -      S      50           -
LGA    -       -      E      51           -
LGA    -       -      F      52           -
LGA    -       -      V      53           -
LGA    -       -      W      54           -
LGA    -       -      S      55           -
LGA    -       -      S      56           -
LGA    -       -      V      57           -
LGA    -       -      R      58           -
LGA    -       -      D      59           -
LGA    -       -      D      60           -
LGA    -       -      V      61           -
LGA    -       -      M      62           -
LGA    -       -      R      63           -
LGA    -       -      L      64           -
LGA    -       -      G      65           -
LGA    -       -      R      66           -
LGA    -       -      E      67           -
LGA    -       -      Q      68           -
LGA    -       -      L      69           -
LGA    -       -      Q      70           -
LGA    -       -      I      71           -
LGA    -       -      L      72           -
LGA    -       -      L      73           -
LGA    -       -      E      74           -
LGA    -       -      Q      75           -
LGA    -       -      N      76           -
LGA    L      64      I      77          3.307
LGA    -       -      N      78           -
LGA    G      65      E      79          1.020
LGA    -       -      R      80           -
LGA    R      66      L      81          2.979
LGA    E      67      N      82          4.454
LGA    Q      68      I      83          4.410
LGA    L      69      -       -           -
LGA    Q      70      -       -           -
LGA    I      71      G      84           #
LGA    L      72      E      85          3.462
LGA    L      73      P      86          2.359
LGA    E      74      L      87          3.120
LGA    Q      75      L      88          3.602
LGA    N      76      V      89          2.862
LGA    I      77      Y      90          3.827
LGA    N      78      L      91           #
LGA    E      79      R      92           #
LGA    R      80      R      93           #
LGA    L      81      -       -           -
LGA    N      82      Q      94          1.663
LGA    I      83      D      95          1.525
LGA    G      84      L      96          3.680
LGA    E      85      P      97          2.572
LGA    P      86      -       -           -
LGA    L      87      E      98          2.138
LGA    L      88      -       -           -
LGA    V      89      I      99           #
LGA    Y      90      T     100          0.788
LGA    L      91      -       -           -
LGA    R      92      A     101           #
LGA    R      93      Q     102          3.218
LGA    Q      94      -       -           -
LGA    D      95      -       -           -
LGA    L      96      -       -           -
LGA    P      97      -       -           -
LGA    E      98      -       -           -
LGA    I      99      R     103          2.949
LGA    T     100      Q     104          2.240
LGA    A     101      L     105          1.681
LGA    Q     102      R     106           -
LGA    R     103      -       -           -
LGA    Q     104      -       -           -
LGA    L     105      -       -           -
LGA    R     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106  106    5.0     43    3.24     4.65     22.963     1.288

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.312437 * X  +   0.757390 * Y  +  -0.573361 * Z  +  17.926146
  Y_new =  -0.709426 * X  +   0.587436 * Y  +   0.389401 * Z  +   7.814606
  Z_new =   0.631742 * X  +   0.285094 * Y  +   0.720849 * Z  + -14.324025 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.376619   -2.764973  [ DEG:    21.5787   -158.4213 ]
  Theta =  -0.683798   -2.457795  [ DEG:   -39.1787   -140.8213 ]
  Phi   =  -1.155948    1.985645  [ DEG:   -66.2309    113.7691 ]
 
# 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: T0314TS168_1                                  
REMARK     2: T0314.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS168_1.T0314.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106  106   5.0   43   3.24    4.65  22.963
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS168_1
PFRMAT TS
TARGET T0314
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      27.544  17.785  -2.957  1.00 25.00           C
ATOM      2  CA  SER     2      24.086  18.684  -4.255  1.00 25.00           C
ATOM      3  CA  ILE     3      22.062  16.863  -6.973  1.00 25.00           C
ATOM      4  CA  THR     4      20.972  14.774  -4.023  1.00 25.00           C
ATOM      5  CA  SER     5      17.682  12.785  -3.682  1.00 25.00           C
ATOM      6  CA  THR     6      20.083   9.824  -3.312  1.00 25.00           C
ATOM      7  CA  ASP     7      17.424   7.459  -4.726  1.00 25.00           C
ATOM      8  CA  ILE     8      16.866   9.818  -7.691  1.00 25.00           C
ATOM      9  CA  CYS     9      20.640   9.942  -8.334  1.00 25.00           C
ATOM     10  CA  GLN    10      20.808   6.117  -8.232  1.00 25.00           C
ATOM     11  CA  ALA    11      17.896   5.898 -10.710  1.00 25.00           C
ATOM     12  CA  ALA    12      19.660   8.376 -13.037  1.00 25.00           C
ATOM     13  CA  ASP    13      22.879   6.312 -12.837  1.00 25.00           C
ATOM     14  CA  ALA    14      20.917   3.128 -13.666  1.00 25.00           C
ATOM     15  CA  LEU    15      19.300   4.876 -16.665  1.00 25.00           C
ATOM     16  CA  LYS    16      16.099   5.999 -18.455  1.00 25.00           C
ATOM     17  CA  GLY    17      14.341   2.777 -19.211  1.00 25.00           C
ATOM     18  CA  PHE    18      17.391   0.478 -18.747  1.00 25.00           C
ATOM     19  CA  VAL    19      18.714  -0.774 -22.085  1.00 25.00           C
ATOM     20  CA  GLY    20      20.621  -3.922 -21.123  1.00 25.00           C
ATOM     21  CA  PHE    21      21.748  -7.396 -21.957  1.00 25.00           C
ATOM     22  CA  ASN    22      20.603  -9.281 -18.880  1.00 25.00           C
ATOM     23  CA  ARG    23      23.660 -11.573 -18.601  1.00 25.00           C
ATOM     24  CA  LYS    24      27.271 -11.255 -17.392  1.00 25.00           C
ATOM     25  CA  THR    25      25.853 -10.459 -13.890  1.00 25.00           C
ATOM     26  CA  GLY    26      22.710  -8.371 -14.423  1.00 25.00           C
ATOM     27  CA  ARG    27      24.893  -5.359 -15.228  1.00 25.00           C
ATOM     28  CA  TYR    28      26.787  -2.870 -17.356  1.00 25.00           C
ATOM     29  CA  ILE    29      25.918  -0.854 -20.481  1.00 25.00           C
ATOM     30  CA  VAL    30      22.700   1.095 -20.030  1.00 25.00           C
ATOM     31  CA  ARG    31      20.682   3.973 -21.527  1.00 25.00           C
ATOM     32  CA  PHE    32      21.031   7.660 -20.467  1.00 25.00           C
ATOM     33  CA  SER    33      19.563   8.616 -23.883  1.00 25.00           C
ATOM     34  CA  GLU    34      22.137  10.611 -25.868  1.00 25.00           C
ATOM     35  CA  ASP    35      23.379  12.483 -22.750  1.00 25.00           C
ATOM     36  CA  SER    36      26.343  10.238 -21.947  1.00 25.00           C
ATOM     37  CA  PHE    37      26.299  12.002 -18.569  1.00 25.00           C
ATOM     38  CA  GLY    38      29.989  11.547 -17.919  1.00 25.00           C
ATOM     39  CA  MET    39      30.255   7.827 -17.420  1.00 25.00           C
ATOM     40  CA  ASP    40      33.857   7.382 -16.329  1.00 25.00           C
ATOM     41  CA  VAL    41      34.168   5.261 -19.431  1.00 25.00           C
ATOM     42  CA  ALA    42      36.085   2.009 -20.158  1.00 25.00           C
ATOM     43  CA  ASP    43      38.508   1.866 -23.132  1.00 25.00           C
ATOM     44  CA  ASP    44      38.340   0.583 -26.709  1.00 25.00           C
ATOM     45  CA  SER    45      35.040   0.468 -28.653  1.00 25.00           C
ATOM     46  CA  ILE    46      31.859   0.187 -26.573  1.00 25.00           C
ATOM     47  CA  THR    47      28.972   1.121 -28.821  1.00 25.00           C
ATOM     48  CA  PRO    48      25.189   0.436 -29.093  1.00 25.00           C
ATOM     49  CA  THR    49      23.390   2.912 -26.845  1.00 25.00           C
ATOM     50  CA  SER    50      24.618   6.279 -25.557  1.00 25.00           C
ATOM     51  CA  GLU    51      26.867   4.138 -23.272  1.00 25.00           C
ATOM     52  CA  PHE    52      25.345   5.404 -20.016  1.00 25.00           C
ATOM     53  CA  VAL    53      27.162   3.113 -17.610  1.00 25.00           C
ATOM     54  CA  TRP    54      28.465   1.037 -14.719  1.00 25.00           C
ATOM     55  CA  SER    55      31.158   0.980 -12.050  1.00 25.00           C
ATOM     56  CA  SER    56      32.022  -1.988  -9.873  1.00 25.00           C
ATOM     57  CA  VAL    57      29.935  -4.739  -8.258  1.00 25.00           C
ATOM     58  CA  ARG    58      29.059  -2.294  -5.443  1.00 25.00           C
ATOM     59  CA  ASP    59      27.955   0.316  -8.020  1.00 25.00           C
ATOM     60  CA  ASP    60      25.775  -2.300  -9.771  1.00 25.00           C
ATOM     61  CA  VAL    61      24.196  -3.266  -6.418  1.00 25.00           C
ATOM     62  CA  MET    62      23.486   0.421  -5.663  1.00 25.00           C
ATOM     63  CA  ARG    63      21.872   0.842  -9.111  1.00 25.00           C
ATOM     64  CA  LEU    64      19.704  -2.255  -8.501  1.00 25.00           C
ATOM     65  CA  GLY    65      18.632  -0.865  -5.098  1.00 25.00           C
ATOM     66  CA  ARG    66      17.733   2.484  -6.722  1.00 25.00           C
ATOM     67  CA  GLU    67      15.678   0.666  -9.393  1.00 25.00           C
ATOM     68  CA  GLN    68      13.851  -1.316  -6.673  1.00 25.00           C
ATOM     69  CA  LEU    69      13.101   1.926  -4.779  1.00 25.00           C
ATOM     70  CA  GLN    70      11.750   3.519  -7.989  1.00 25.00           C
ATOM     71  CA  ILE    71       9.530   0.458  -8.601  1.00 25.00           C
ATOM     72  CA  LEU    72       8.214   0.664  -5.010  1.00 25.00           C
ATOM     73  CA  LEU    73       7.451   4.388  -5.477  1.00 25.00           C
ATOM     74  CA  GLU    74       5.594   3.625  -8.738  1.00 25.00           C
ATOM     75  CA  GLN    75       3.561   0.902  -6.971  1.00 25.00           C
ATOM     76  CA  ASN    76       2.686   3.347  -4.156  1.00 25.00           C
ATOM     77  CA  ILE    77       1.582   5.957  -6.733  1.00 25.00           C
ATOM     78  CA  ASN    78      -0.598   3.341  -8.485  1.00 25.00           C
ATOM     79  CA  GLU    79      -2.176   2.375  -5.132  1.00 25.00           C
ATOM     80  CA  ARG    80      -2.886   6.062  -4.377  1.00 25.00           C
ATOM     81  CA  LEU    81      -4.500   6.483  -7.825  1.00 25.00           C
ATOM     82  CA  ASN    82      -1.934   7.833 -10.243  1.00 25.00           C
ATOM     83  CA  ILE    83      -1.004  11.433  -9.234  1.00 25.00           C
ATOM     84  CA  GLY    84      -3.558  14.089 -10.125  1.00 25.00           C
ATOM     85  CA  GLU    85      -2.024  14.186 -13.645  1.00 25.00           C
ATOM     86  CA  PRO    86       1.000  15.492 -11.690  1.00 25.00           C
ATOM     87  CA  LEU    87       3.363  13.595 -14.032  1.00 25.00           C
ATOM     88  CA  LEU    88       1.576  15.079 -17.078  1.00 25.00           C
ATOM     89  CA  VAL    89       1.892  18.590 -15.582  1.00 25.00           C
ATOM     90  CA  TYR    90       5.627  18.018 -14.960  1.00 25.00           C
ATOM     91  CA  LEU    91       6.072  16.836 -18.575  1.00 25.00           C
ATOM     92  CA  ARG    92       4.239  19.949 -19.845  1.00 25.00           C
ATOM     93  CA  ARG    93       6.487  22.181 -17.693  1.00 25.00           C
ATOM     94  CA  GLN    94       7.560  23.483 -21.147  1.00 25.00           C
ATOM     95  CA  ASP    95       6.326  26.952 -20.330  1.00 25.00           C
ATOM     96  CA  LEU    96       8.209  27.813 -17.106  1.00 25.00           C
ATOM     97  CA  PRO    97       8.413  31.077 -15.229  1.00 25.00           C
ATOM     98  CA  GLU    98      10.967  30.897 -12.381  1.00 25.00           C
ATOM     99  CA  ILE    99      12.901  28.173 -14.253  1.00 25.00           C
ATOM    100  CA  THR   100      12.902  30.319 -17.425  1.00 25.00           C
ATOM    101  CA  ALA   101      14.194  33.319 -15.423  1.00 25.00           C
ATOM    102  CA  GLN   102      16.970  31.151 -13.920  1.00 25.00           C
ATOM    103  CA  ARG   103      17.940  29.926 -17.417  1.00 25.00           C
ATOM    104  CA  GLN   104      18.053  33.540 -18.678  1.00 25.00           C
ATOM    105  CA  LEU   105      20.994  34.502 -16.495  1.00 25.00           C
ATOM    106  CA  ARG   106      22.857  31.223 -17.058  1.00 25.00           C
TER
END
