
#######################################################
#                                                     #
#                        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 T0314TS599_1
# Molecule2: number of CA atoms  106 ( 1704),  selected  106 , name T0314.pdb
# PARAMETERS: T0314TS599_1.T0314.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    S       2      M       1           #
LGA    I       3      S       2          4.064
LGA    T       4      I       3          2.542
LGA    S       5      T       4          3.983
LGA    T       6      S       5          2.761
LGA    D       7      T       6           -
LGA    -       -      D       7           -
LGA    I       8      I       8          2.181
LGA    C       9      C       9          3.324
LGA    Q      10      Q      10          5.160
LGA    A      11      A      11          2.881
LGA    A      12      A      12          1.469
LGA    D      13      D      13          3.100
LGA    A      14      A      14          1.743
LGA    L      15      L      15          1.149
LGA    K      16      -       -           -
LGA    G      17      -       -           -
LGA    F      18      -       -           -
LGA    V      19      K      16          1.807
LGA    G      20      G      17          1.409
LGA    F      21      F      18          1.265
LGA    N      22      V      19          1.205
LGA    R      23      G      20          0.869
LGA    K      24      F      21          1.839
LGA    -       -      N      22           -
LGA    -       -      R      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    -       -      R      27           -
LGA    T      25      Y      28          2.652
LGA    G      26      I      29          3.609
LGA    R      27      V      30          2.505
LGA    Y      28      R      31          1.531
LGA    I      29      F      32          1.465
LGA    V      30      -       -           -
LGA    R      31      -       -           -
LGA    F      32      -       -           -
LGA    S      33      -       -           -
LGA    E      34      -       -           -
LGA    D      35      -       -           -
LGA    S      36      -       -           -
LGA    F      37      -       -           -
LGA    G      38      -       -           -
LGA    M      39      -       -           -
LGA    D      40      -       -           -
LGA    V      41      -       -           -
LGA    A      42      -       -           -
LGA    D      43      -       -           -
LGA    D      44      -       -           -
LGA    S      45      -       -           -
LGA    I      46      -       -           -
LGA    T      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    S      50      -       -           -
LGA    E      51      S      33          4.526
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      E      34           #
LGA    L      73      D      35          3.048
LGA    E      74      -       -           -
LGA    Q      75      -       -           -
LGA    N      76      S      36          2.261
LGA    I      77      F      37          1.543
LGA    N      78      G      38          2.322
LGA    E      79      M      39           #
LGA    R      80      -       -           -
LGA    L      81      D      40          4.295
LGA    N      82      V      41          0.468
LGA    I      83      A      42          3.000
LGA    G      84      D      43          3.059
LGA    E      85      D      44          1.421
LGA    P      86      S      45           #
LGA    L      87      I      46          3.487
LGA    L      88      T      47          4.481
LGA    V      89      P      48          4.675
LGA    Y      90      -       -           -
LGA    L      91      T      49          2.363
LGA    R      92      S      50          3.119
LGA    R      93      E      51          2.943
LGA    Q      94      F      52          2.042
LGA    D      95      V      53          2.306
LGA    L      96      -       -           -
LGA    P      97      W      54          5.066
LGA    E      98      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    -       -      I      77           -
LGA    -       -      N      78           -
LGA    -       -      E      79           -
LGA    -       -      R      80           -
LGA    -       -      L      81           -
LGA    -       -      N      82           -
LGA    -       -      I      83           -
LGA    -       -      G      84           -
LGA    -       -      E      85           -
LGA    -       -      P      86           -
LGA    I      99      L      87          4.259
LGA    T     100      L      88           -
LGA    A     101      -       -           -
LGA    Q     102      V      89          4.577
LGA    R     103      Y      90          2.463
LGA    -       -      L      91           -
LGA    -       -      R      92           -
LGA    Q     104      R      93          3.669
LGA    L     105      Q      94          3.490
LGA    R     106      D      95           -
LGA    -       -      L      96           -
LGA    -       -      P      97           -
LGA    -       -      E      98           -
LGA    -       -      I      99           -
LGA    -       -      T     100           -
LGA    -       -      A     101           -
LGA    -       -      Q     102           -
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     47    3.00    21.28     26.935     1.517

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.097589 * X  +  -0.357081 * Y  +  -0.928962 * Z  +  25.005472
  Y_new =   0.562524 * X  +   0.789803 * Y  +  -0.244496 * Z  +   8.615541
  Z_new =   0.821002 * X  +  -0.498703 * Y  +   0.277943 * Z  + -12.550079 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.062342    2.079251  [ DEG:   -60.8677    119.1323 ]
  Theta =  -0.963163   -2.178430  [ DEG:   -55.1852   -124.8148 ]
  Phi   =   1.399021   -1.742571  [ DEG:    80.1580    -99.8420 ]
 
# 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: T0314TS599_1                                  
REMARK     2: T0314.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS599_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   47   3.00   21.28  26.935
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS599_1
PFRMAT TS                                                                       
TARGET T0314                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -2.368   0.229  -6.150  1.00  0.00              
ATOM      2  CA  SER     2      -2.282   3.576  -4.815  1.00  0.00              
ATOM      3  CA  ILE     3       0.737   5.545  -4.653  1.00  0.00              
ATOM      4  CA  THR     4       0.667   8.969  -3.601  1.00  0.00              
ATOM      5  CA  SER     5       2.531  11.941  -4.977  1.00  0.00              
ATOM      6  CA  THR     6       4.798  11.910  -1.899  1.00  0.00              
ATOM      7  CA  ASP     7       5.933   8.337  -2.579  1.00  0.00              
ATOM      8  CA  ILE     8       6.769   9.266  -6.206  1.00  0.00              
ATOM      9  CA  CYS     9       8.787  12.395  -5.226  1.00  0.00              
ATOM     10  CA  GLN    10      10.786  10.334  -2.695  1.00  0.00              
ATOM     11  CA  ALA    11      11.421   7.598  -5.319  1.00  0.00              
ATOM     12  CA  ALA    12      12.562  10.087  -7.898  1.00  0.00              
ATOM     13  CA  ASP    13      15.067  11.672  -5.578  1.00  0.00              
ATOM     14  CA  ALA    14      16.495   8.302  -4.601  1.00  0.00              
ATOM     15  CA  LEU    15      16.869   7.105  -8.218  1.00  0.00              
ATOM     16  CA  LYS    16      18.531  10.393  -9.140  1.00  0.00              
ATOM     17  CA  GLY    17      20.991  10.163  -6.224  1.00  0.00              
ATOM     18  CA  PHE    18      22.000   6.753  -7.333  1.00  0.00              
ATOM     19  CA  VAL    19      22.226   7.065 -11.077  1.00  0.00              
ATOM     20  CA  GLY    20      22.240   3.979 -13.261  1.00  0.00              
ATOM     21  CA  PHE    21      23.488   4.285 -16.804  1.00  0.00              
ATOM     22  CA  ASN    22      22.485   1.850 -19.297  1.00  0.00              
ATOM     23  CA  ARG    23      24.298   1.365 -22.532  1.00  0.00              
ATOM     24  CA  LYS    24      21.900  -1.258 -23.999  1.00  0.00              
ATOM     25  CA  THR    25      22.119  -3.492 -20.905  1.00  0.00              
ATOM     26  CA  GLY    26      25.819  -3.057 -19.946  1.00  0.00              
ATOM     27  CA  ARG    27      25.311  -1.394 -16.594  1.00  0.00              
ATOM     28  CA  TYR    28      27.139   1.768 -15.572  1.00  0.00              
ATOM     29  CA  ILE    29      26.793   2.940 -12.037  1.00  0.00              
ATOM     30  CA  VAL    30      26.857   6.551 -11.111  1.00  0.00              
ATOM     31  CA  ARG    31      26.766   7.479  -7.425  1.00  0.00              
ATOM     32  CA  PHE    32      25.905  10.949  -6.343  1.00  0.00              
ATOM     33  CA  SER    33      27.186  12.099  -3.077  1.00  0.00              
ATOM     34  CA  GLU    34      25.452  14.905  -1.293  1.00  0.00              
ATOM     35  CA  ASP    35      28.534  17.074  -0.762  1.00  0.00              
ATOM     36  CA  SER    36      31.018  14.323   0.086  1.00  0.00              
ATOM     37  CA  PHE    37      34.250  16.177  -0.693  1.00  0.00              
ATOM     38  CA  GLY    38      37.267  14.368  -1.985  1.00  0.00              
ATOM     39  CA  MET    39      39.751  16.073  -4.326  1.00  0.00              
ATOM     40  CA  ASP    40      41.021  13.931  -7.117  1.00  0.00              
ATOM     41  CA  VAL    41      44.339  14.700  -8.657  1.00  0.00              
ATOM     42  CA  ALA    42      44.535  13.832 -12.298  1.00  0.00              
ATOM     43  CA  ASP    43      47.332  11.705 -13.774  1.00  0.00              
ATOM     44  CA  ASP    44      44.974   8.694 -13.950  1.00  0.00              
ATOM     45  CA  SER    45      44.177   8.569 -10.298  1.00  0.00              
ATOM     46  CA  ILE    46      40.415   8.784 -10.269  1.00  0.00              
ATOM     47  CA  THR    47      39.301   5.852 -12.452  1.00  0.00              
ATOM     48  CA  PRO    48      36.432   3.632 -11.438  1.00  0.00              
ATOM     49  CA  THR    49      34.202   3.417 -14.522  1.00  0.00              
ATOM     50  CA  SER    50      31.983   0.680 -13.034  1.00  0.00              
ATOM     51  CA  GLU    51      31.463   2.902 -10.063  1.00  0.00              
ATOM     52  CA  PHE    52      31.672   6.581 -10.816  1.00  0.00              
ATOM     53  CA  VAL    53      31.330   9.022  -7.970  1.00  0.00              
ATOM     54  CA  TRP    54      29.995  12.446  -8.703  1.00  0.00              
ATOM     55  CA  SER    55      30.203  15.096  -6.162  1.00  0.00              
ATOM     56  CA  SER    56      29.658  18.857  -7.015  1.00  0.00              
ATOM     57  CA  VAL    57      30.987  20.328  -3.842  1.00  0.00              
ATOM     58  CA  ARG    58      33.045  23.340  -4.751  1.00  0.00              
ATOM     59  CA  ASP    59      34.811  23.704  -1.379  1.00  0.00              
ATOM     60  CA  ASP    60      35.859  19.987  -1.204  1.00  0.00              
ATOM     61  CA  VAL    61      37.138  19.465  -4.692  1.00  0.00              
ATOM     62  CA  MET    62      36.785  16.780  -7.168  1.00  0.00              
ATOM     63  CA  ARG    63      39.813  17.165  -9.517  1.00  0.00              
ATOM     64  CA  LEU    64      40.065  15.084 -12.637  1.00  0.00              
ATOM     65  CA  GLY    65      42.289  16.427 -15.455  1.00  0.00              
ATOM     66  CA  ARG    66      40.677  16.438 -18.893  1.00  0.00              
ATOM     67  CA  GLU    67      42.901  13.867 -20.496  1.00  0.00              
ATOM     68  CA  GLN    68      42.329  11.479 -17.598  1.00  0.00              
ATOM     69  CA  LEU    69      38.499  11.757 -17.465  1.00  0.00              
ATOM     70  CA  GLN    70      38.276  11.275 -21.245  1.00  0.00              
ATOM     71  CA  ILE    71      40.468   8.144 -20.937  1.00  0.00              
ATOM     72  CA  LEU    72      38.353   6.694 -18.066  1.00  0.00              
ATOM     73  CA  LEU    73      35.154   7.149 -20.092  1.00  0.00              
ATOM     74  CA  GLU    74      36.161   6.052 -23.665  1.00  0.00              
ATOM     75  CA  GLN    75      37.783   2.789 -22.737  1.00  0.00              
ATOM     76  CA  ASN    76      34.932   1.589 -20.609  1.00  0.00              
ATOM     77  CA  ILE    77      31.728   2.293 -22.435  1.00  0.00              
ATOM     78  CA  ASN    78      32.975   1.272 -25.902  1.00  0.00              
ATOM     79  CA  GLU    79      34.352  -2.061 -24.864  1.00  0.00              
ATOM     80  CA  ARG    80      31.380  -3.386 -23.008  1.00  0.00              
ATOM     81  CA  LEU    81      28.662  -2.136 -25.399  1.00  0.00              
ATOM     82  CA  ASN    82      29.029   0.999 -27.403  1.00  0.00              
ATOM     83  CA  ILE    83      26.212   3.319 -26.180  1.00  0.00              
ATOM     84  CA  GLY    84      26.477   6.564 -28.038  1.00  0.00              
ATOM     85  CA  GLU    85      25.271   8.992 -25.433  1.00  0.00              
ATOM     86  CA  PRO    86      26.696   9.966 -22.126  1.00  0.00              
ATOM     87  CA  LEU    87      25.889   7.582 -19.300  1.00  0.00              
ATOM     88  CA  LEU    88      24.565  10.077 -16.665  1.00  0.00              
ATOM     89  CA  VAL    89      22.468  11.979 -19.292  1.00  0.00              
ATOM     90  CA  TYR    90      20.918   8.748 -20.657  1.00  0.00              
ATOM     91  CA  LEU    91      20.074   7.385 -17.158  1.00  0.00              
ATOM     92  CA  ARG    92      18.472  10.714 -16.088  1.00  0.00              
ATOM     93  CA  ARG    93      16.055  11.544 -18.896  1.00  0.00              
ATOM     94  CA  GLN    94      14.756   7.961 -19.161  1.00  0.00              
ATOM     95  CA  ASP    95      13.792   7.483 -15.571  1.00  0.00              
ATOM     96  CA  LEU    96      11.584  10.398 -14.718  1.00  0.00              
ATOM     97  CA  PRO    97       8.464   9.506 -16.776  1.00  0.00              
ATOM     98  CA  GLU    98       8.443   6.029 -15.355  1.00  0.00              
ATOM     99  CA  ILE    99       8.728   7.287 -11.772  1.00  0.00              
ATOM    100  CA  THR   100       5.881   9.794 -12.354  1.00  0.00              
ATOM    101  CA  ALA   101       3.599   7.128 -13.849  1.00  0.00              
ATOM    102  CA  GLN   102       4.153   4.621 -11.028  1.00  0.00              
ATOM    103  CA  ARG   103       3.348   7.082  -8.218  1.00  0.00              
ATOM    104  CA  GLN   104      -0.107   7.971 -10.475  1.00  0.00              
ATOM    105  CA  LEU   105      -0.732   4.705  -9.108  1.00  0.00              
ATOM    106  CA  ARG   106       0.994   2.592  -6.028  1.00  0.00              
TER                                                                             
END
