
#######################################################
#                                                     #
#                        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 T0360TS168_2
# Molecule2: number of CA atoms  116 (  917),  selected  116 , name T0360.pdb
# PARAMETERS: T0360TS168_2.T0360.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    Q       3      -       -           -
LGA    E       4      -       -           -
LGA    T       5      -       -           -
LGA    A       6      -       -           -
LGA    L       7      -       -           -
LGA    G       8      -       -           -
LGA    A       9      -       -           -
LGA    A      10      -       -           -
LGA    L      11      -       -           -
LGA    K      12      -       -           -
LGA    S      13      -       -           -
LGA    A      14      -       -           -
LGA    V      15      -       -           -
LGA    Q      16      -       -           -
LGA    T      17      -       -           -
LGA    M      18      -       -           -
LGA    S      19      -       -           -
LGA    K      20      -       -           -
LGA    K      21      -       -           -
LGA    K      22      Q       3          4.883
LGA    -       -      E       4           -
LGA    -       -      T       5           -
LGA    Q      23      A       6          1.936
LGA    T      24      L       7          1.014
LGA    E      25      -       -           -
LGA    M      26      -       -           -
LGA    I      27      G       8          3.314
LGA    A      28      A       9           -
LGA    D      29      A      10           -
LGA    H      30      L      11           -
LGA    I      31      K      12           -
LGA    Y      32      S      13           -
LGA    G      33      A      14           -
LGA    K      34      V      15           -
LGA    Y      35      Q      16           -
LGA    D      36      T      17           -
LGA    V      37      M      18           -
LGA    F      38      S      19           -
LGA    K      39      K      20           -
LGA    R      40      K      21           -
LGA    F      41      K      22           -
LGA    K      42      Q      23           -
LGA    -       -      T      24           -
LGA    -       -      E      25           -
LGA    P      43      M      26           #
LGA    L      44      I      27           -
LGA    A      45      A      28           -
LGA    L      46      D      29           #
LGA    G      47      H      30          4.357
LGA    I      48      I      31          1.860
LGA    D      49      Y      32           #
LGA    -       -      G      33           -
LGA    -       -      K      34           -
LGA    -       -      Y      35           -
LGA    -       -      D      36           -
LGA    -       -      V      37           -
LGA    Q      50      F      38           #
LGA    D      51      K      39           -
LGA    L      52      R      40           -
LGA    -       -      F      41           -
LGA    -       -      K      42           -
LGA    -       -      P      43           -
LGA    -       -      L      44           -
LGA    -       -      A      45           -
LGA    -       -      L      46           -
LGA    -       -      G      47           -
LGA    -       -      I      48           -
LGA    I      53      D      49          3.903
LGA    A      54      Q      50           #
LGA    -       -      D      51           -
LGA    A      55      L      52          3.800
LGA    L      56      I      53          1.268
LGA    P      57      A      54          4.416
LGA    Q      58      A      55           -
LGA    Y      59      L      56           -
LGA    D      60      P      57           -
LGA    -       -      Q      58           -
LGA    -       -      Y      59           -
LGA    -       -      D      60           -
LGA    A      61      A      61          1.152
LGA    A      62      A      62          0.421
LGA    L      63      L      63          0.829
LGA    I      64      I      64          1.226
LGA    A      65      A      65          0.871
LGA    R      66      R      66          0.892
LGA    V      67      V      67          1.624
LGA    L      68      L      68          1.449
LGA    A      69      A      69          1.036
LGA    N      70      N      70          1.898
LGA    H      71      H      71          2.190
LGA    C      72      C      72          1.545
LGA    R      73      R      73          1.845
LGA    R      74      R      74          2.953
LGA    -       -      P      75           -
LGA    P      75      R      76          4.426
LGA    R      76      Y      77          2.659
LGA    Y      77      L      78          4.484
LGA    L      78      -       -           -
LGA    K      79      -       -           -
LGA    A      80      K      79          3.390
LGA    L      81      A      80           -
LGA    A      82      L      81           -
LGA    -       -      A      82           -
LGA    R      83      R      83          4.256
LGA    G      84      G      84           #
LGA    G      85      -       -           -
LGA    K      86      -       -           -
LGA    R      87      -       -           -
LGA    F      88      -       -           -
LGA    D      89      -       -           -
LGA    L      90      -       -           -
LGA    N      91      -       -           -
LGA    N      92      -       -           -
LGA    R      93      -       -           -
LGA    F      94      -       -           -
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    E      97      G      85          5.041
LGA    V      98      K      86          2.981
LGA    -       -      R      87           -
LGA    -       -      F      88           -
LGA    -       -      D      89           -
LGA    -       -      L      90           -
LGA    -       -      N      91           -
LGA    -       -      N      92           -
LGA    -       -      R      93           -
LGA    -       -      F      94           -
LGA    -       -      K      95           -
LGA    -       -      G      96           -
LGA    -       -      E      97           -
LGA    T      99      V      98          4.460
LGA    P     100      T      99          3.108
LGA    E     101      P     100           #
LGA    E     102      E     101           -
LGA    Q     103      -       -           -
LGA    A     104      E     102          1.564
LGA    I     105      Q     103           #
LGA    A     106      A     104           #
LGA    -       -      I     105           -
LGA    Q     107      A     106          4.430
LGA    N     108      Q     107           -
LGA    -       -      N     108           -
LGA    H     109      H     109          4.136
LGA    P     110      P     110           #
LGA    F     111      F     111           -
LGA    V     112      V     112           -
LGA    Q     113      Q     113           -
LGA    Q     114      Q     114           -
LGA    A     115      A     115           -
LGA    L     116      L     116           -
LGA    Q     117      -       -           -
LGA    Q     118      -       -           -
LGA    Q     119      -       -           -
LGA    S     120      -       -           -
LGA    A     121      -       -           -
LGA    Q     122      -       -           -
LGA    A     123      -       -           -
LGA    A     124      -       -           -
LGA    A     125      -       -           -
LGA    E     126      -       -           -
LGA    T     127      -       -           -
LGA    L     128      -       -           -
LGA    S     129      -       -           -
LGA    V     130      -       -           -
LGA    E     131      -       -           -
LGA    A     132      -       -           -
LGA    E     133      -       -           -
LGA    A     134      -       -           -
LGA    A     135      -       -           -
LGA    E     136      -       -           -
LGA    S     137      -       -           -
LGA    S     138      -       -           -
LGA    A     139      -       -           -
LGA    A     140      -       -           -
LGA    E     141      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  116    5.0     36    3.01    47.22     20.866     1.157

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.256048 * X  +  -0.940279 * Y  +  -0.224311 * Z  + -79.448021
  Y_new =   0.657191 * X  +  -0.000847 * Y  +   0.753724 * Z  +   0.818950
  Z_new =  -0.708901 * X  +  -0.340404 * Y  +   0.617726 * Z  + -14.681113 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.503657    2.637936  [ DEG:   -28.8574    151.1426 ]
  Theta =   0.787938    2.353655  [ DEG:    45.1455    134.8545 ]
  Phi   =   1.199279   -1.942313  [ DEG:    68.7136   -111.2864 ]
 
# 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: T0360TS168_2                                  
REMARK     2: T0360.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0360TS168_2.T0360.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  116   5.0   36   3.01   47.22  20.866
REMARK  ---------------------------------------------------------- 
MOLECULE T0360TS168_2
PFRMAT TS
TARGET T0360
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1     -94.973  23.189 -12.333  1.00 25.00           C
ATOM      2  CA  THR     2     -95.129  19.732 -13.884  1.00 25.00           C
ATOM      3  CA  GLN     3     -97.687  18.877 -16.599  1.00 25.00           C
ATOM      4  CA  GLU     4     -99.676  17.387 -13.685  1.00 25.00           C
ATOM      5  CA  THR     5    -102.435  16.285 -16.103  1.00 25.00           C
ATOM      6  CA  ALA     6     -99.824  14.658 -18.383  1.00 25.00           C
ATOM      7  CA  LEU     7     -98.308  12.827 -15.380  1.00 25.00           C
ATOM      8  CA  GLY     8    -101.782  11.591 -14.349  1.00 25.00           C
ATOM      9  CA  ALA     9    -102.427  10.353 -17.916  1.00 25.00           C
ATOM     10  CA  ALA    10     -99.065   8.520 -17.914  1.00 25.00           C
ATOM     11  CA  LEU    11     -99.923   6.895 -14.554  1.00 25.00           C
ATOM     12  CA  LYS    12    -103.324   5.793 -15.929  1.00 25.00           C
ATOM     13  CA  SER    13    -101.620   4.302 -19.017  1.00 25.00           C
ATOM     14  CA  ALA    14     -99.148   2.424 -16.776  1.00 25.00           C
ATOM     15  CA  VAL    15    -102.046   1.068 -14.672  1.00 25.00           C
ATOM     16  CA  GLN    16    -103.849  -0.082 -17.850  1.00 25.00           C
ATOM     17  CA  THR    17    -100.660  -1.825 -19.057  1.00 25.00           C
ATOM     18  CA  MET    18    -102.794  -4.894 -19.895  1.00 25.00           C
ATOM     19  CA  SER    19    -101.357  -6.537 -16.794  1.00 25.00           C
ATOM     20  CA  LYS    20     -99.983 -10.003 -17.500  1.00 25.00           C
ATOM     21  CA  LYS    21     -99.056 -13.717 -17.605  1.00 25.00           C
ATOM     22  CA  LYS    22     -97.992 -13.373 -21.268  1.00 25.00           C
ATOM     23  CA  GLN    23     -95.846 -10.327 -20.385  1.00 25.00           C
ATOM     24  CA  THR    24     -94.212 -12.276 -17.523  1.00 25.00           C
ATOM     25  CA  GLU    25     -93.483 -15.195 -19.893  1.00 25.00           C
ATOM     26  CA  MET    26     -91.928 -12.779 -22.427  1.00 25.00           C
ATOM     27  CA  ILE    27     -89.754 -11.249 -19.670  1.00 25.00           C
ATOM     28  CA  ALA    28     -88.622 -14.743 -18.588  1.00 25.00           C
ATOM     29  CA  ASP    29     -87.745 -15.608 -22.214  1.00 25.00           C
ATOM     30  CA  HIS    30     -85.740 -12.361 -22.531  1.00 25.00           C
ATOM     31  CA  ILE    31     -83.870 -13.172 -19.289  1.00 25.00           C
ATOM     32  CA  TYR    32     -83.082 -16.686 -20.592  1.00 25.00           C
ATOM     33  CA  GLY    33     -83.771 -20.330 -21.267  1.00 25.00           C
ATOM     34  CA  LYS    34     -83.069 -21.594 -17.760  1.00 25.00           C
ATOM     35  CA  TYR    35     -85.670 -20.109 -15.372  1.00 25.00           C
ATOM     36  CA  ASP    36     -84.108 -22.022 -12.444  1.00 25.00           C
ATOM     37  CA  VAL    37     -80.638 -20.727 -13.416  1.00 25.00           C
ATOM     38  CA  PHE    38     -81.991 -17.147 -13.572  1.00 25.00           C
ATOM     39  CA  LYS    39     -83.579 -17.570 -10.113  1.00 25.00           C
ATOM     40  CA  ARG    40     -80.262 -18.886  -8.724  1.00 25.00           C
ATOM     41  CA  PHE    41     -78.413 -15.890 -10.232  1.00 25.00           C
ATOM     42  CA  LYS    42     -80.691 -13.171  -8.720  1.00 25.00           C
ATOM     43  CA  PRO    43     -83.069 -10.484  -7.370  1.00 25.00           C
ATOM     44  CA  LEU    44     -80.302  -8.590  -5.651  1.00 25.00           C
ATOM     45  CA  ALA    45     -76.544  -8.761  -5.023  1.00 25.00           C
ATOM     46  CA  LEU    46     -74.567  -8.923  -8.260  1.00 25.00           C
ATOM     47  CA  GLY    47     -76.717  -6.607 -10.417  1.00 25.00           C
ATOM     48  CA  ILE    48     -76.214  -5.016 -13.765  1.00 25.00           C
ATOM     49  CA  ASP    49     -75.545  -1.630 -15.426  1.00 25.00           C
ATOM     50  CA  GLN    50     -75.116  -3.353 -18.820  1.00 25.00           C
ATOM     51  CA  ASP    51     -78.413  -5.234 -18.309  1.00 25.00           C
ATOM     52  CA  LEU    52     -80.177  -1.952 -17.424  1.00 25.00           C
ATOM     53  CA  ILE    53     -78.746  -0.305 -20.572  1.00 25.00           C
ATOM     54  CA  ALA    54     -79.958  -3.253 -22.695  1.00 25.00           C
ATOM     55  CA  ALA    55     -83.446  -2.970 -21.140  1.00 25.00           C
ATOM     56  CA  LEU    56     -84.105   0.377 -22.708  1.00 25.00           C
ATOM     57  CA  PRO    57     -85.071   0.934 -26.326  1.00 25.00           C
ATOM     58  CA  GLN    58     -83.676   4.417 -26.932  1.00 25.00           C
ATOM     59  CA  TYR    59     -82.141   6.762 -24.343  1.00 25.00           C
ATOM     60  CA  ASP    60     -85.750   7.678 -23.654  1.00 25.00           C
ATOM     61  CA  ALA    61     -85.970   4.892 -21.075  1.00 25.00           C
ATOM     62  CA  ALA    62     -85.078   7.571 -18.487  1.00 25.00           C
ATOM     63  CA  LEU    63     -84.437   4.858 -15.862  1.00 25.00           C
ATOM     64  CA  ILE    64     -82.190   2.972 -18.323  1.00 25.00           C
ATOM     65  CA  ALA    65     -80.250   6.191 -19.057  1.00 25.00           C
ATOM     66  CA  ARG    66     -79.810   6.811 -15.303  1.00 25.00           C
ATOM     67  CA  VAL    67     -78.541   3.228 -14.836  1.00 25.00           C
ATOM     68  CA  LEU    68     -76.061   3.704 -17.715  1.00 25.00           C
ATOM     69  CA  ALA    69     -74.829   6.973 -16.144  1.00 25.00           C
ATOM     70  CA  ASN    70     -74.377   5.213 -12.774  1.00 25.00           C
ATOM     71  CA  HIS    71     -72.403   2.407 -14.476  1.00 25.00           C
ATOM     72  CA  CYS    72     -70.181   4.993 -16.218  1.00 25.00           C
ATOM     73  CA  ARG    73     -69.565   6.753 -12.872  1.00 25.00           C
ATOM     74  CA  ARG    74     -68.640   3.406 -11.255  1.00 25.00           C
ATOM     75  CA  PRO    75     -66.216   2.661 -14.125  1.00 25.00           C
ATOM     76  CA  ARG    76     -64.621   6.118 -13.708  1.00 25.00           C
ATOM     77  CA  TYR    77     -64.238   5.514  -9.946  1.00 25.00           C
ATOM     78  CA  LEU    78     -62.605   2.119 -10.631  1.00 25.00           C
ATOM     79  CA  LYS    79     -60.194   3.753 -13.118  1.00 25.00           C
ATOM     80  CA  ALA    80     -59.303   6.432 -10.531  1.00 25.00           C
ATOM     81  CA  LEU    81     -58.662   3.719  -7.905  1.00 25.00           C
ATOM     82  CA  ALA    82     -56.414   1.833 -10.367  1.00 25.00           C
ATOM     83  CA  ARG    83     -56.221   0.819 -13.991  1.00 25.00           C
ATOM     84  CA  GLY    84     -56.064  -2.922 -14.563  1.00 25.00           C
ATOM     85  CA  GLY    85     -59.492  -4.002 -15.714  1.00 25.00           C
ATOM     86  CA  LYS    86     -58.445  -6.804 -18.120  1.00 25.00           C
ATOM     87  CA  ARG    87     -61.992  -7.220 -19.583  1.00 25.00           C
ATOM     88  CA  PHE    88     -64.563 -10.069 -19.375  1.00 25.00           C
ATOM     89  CA  ASP    89     -65.200 -13.849 -19.416  1.00 25.00           C
ATOM     90  CA  LEU    90     -65.603 -14.055 -23.171  1.00 25.00           C
ATOM     91  CA  ASN    91     -66.329 -15.799 -26.480  1.00 25.00           C
ATOM     92  CA  ASN    92     -67.181 -14.557 -29.999  1.00 25.00           C
ATOM     93  CA  ARG    93     -64.755 -11.704 -29.356  1.00 25.00           C
ATOM     94  CA  PHE    94     -65.890  -8.101 -30.042  1.00 25.00           C
ATOM     95  CA  LYS    95     -63.136  -5.785 -31.320  1.00 25.00           C
ATOM     96  CA  GLY    96     -60.416  -3.166 -31.755  1.00 25.00           C
ATOM     97  CA  GLU    97     -59.208  -1.252 -28.757  1.00 25.00           C
ATOM     98  CA  VAL    98     -59.184   0.331 -25.340  1.00 25.00           C
ATOM     99  CA  THR    99     -57.676   3.081 -23.184  1.00 25.00           C
ATOM    100  CA  PRO   100     -58.711   6.407 -24.717  1.00 25.00           C
ATOM    101  CA  GLU   101     -62.521   6.122 -24.446  1.00 25.00           C
ATOM    102  CA  GLU   102     -62.249   5.789 -20.640  1.00 25.00           C
ATOM    103  CA  GLN   103     -59.999   8.884 -20.505  1.00 25.00           C
ATOM    104  CA  ALA   104     -62.517  10.838 -22.629  1.00 25.00           C
ATOM    105  CA  ILE   105     -65.358   9.759 -20.298  1.00 25.00           C
ATOM    106  CA  ALA   106     -63.318  10.876 -17.255  1.00 25.00           C
ATOM    107  CA  GLN   107     -62.651  14.262 -18.915  1.00 25.00           C
ATOM    108  CA  ASN   108     -64.606  17.020 -17.279  1.00 25.00           C
ATOM    109  CA  HIS   109     -63.886  15.192 -13.971  1.00 25.00           C
ATOM    110  CA  PRO   110     -62.964  18.457 -12.196  1.00 25.00           C
ATOM    111  CA  PHE   111     -64.023  19.443  -8.650  1.00 25.00           C
ATOM    112  CA  VAL   112     -67.243  21.001 -10.019  1.00 25.00           C
ATOM    113  CA  GLN   113     -67.972  17.808 -12.005  1.00 25.00           C
ATOM    114  CA  GLN   114     -67.404  15.694  -8.862  1.00 25.00           C
ATOM    115  CA  ALA   115     -69.779  17.955  -6.883  1.00 25.00           C
ATOM    116  CA  LEU   116     -72.428  17.618  -9.627  1.00 25.00           C
ATOM    117  CA  GLN   117     -72.040  13.808  -9.568  1.00 25.00           C
ATOM    118  CA  GLN   118     -72.432  13.803  -5.760  1.00 25.00           C
ATOM    119  CA  GLN   119     -75.589  15.949  -6.056  1.00 25.00           C
ATOM    120  CA  SER   120     -77.007  13.543  -8.679  1.00 25.00           C
ATOM    121  CA  ALA   121     -76.263  10.567  -6.386  1.00 25.00           C
ATOM    122  CA  GLN   122     -78.010  12.340  -3.476  1.00 25.00           C
ATOM    123  CA  ALA   123     -81.054  13.035  -5.694  1.00 25.00           C
ATOM    124  CA  ALA   124     -81.155   9.354  -6.749  1.00 25.00           C
ATOM    125  CA  ALA   125     -80.982   8.273  -3.079  1.00 25.00           C
ATOM    126  CA  GLU   126     -83.847  10.662  -2.214  1.00 25.00           C
ATOM    127  CA  THR   127     -85.931   9.249  -5.099  1.00 25.00           C
ATOM    128  CA  LEU   128     -85.249   5.683  -3.878  1.00 25.00           C
ATOM    129  CA  SER   129     -86.307   6.669  -0.332  1.00 25.00           C
ATOM    130  CA  VAL   130     -89.528   8.227  -1.700  1.00 25.00           C
ATOM    131  CA  GLU   131     -90.257   5.034  -3.686  1.00 25.00           C
ATOM    132  CA  ALA   132     -89.689   2.920  -0.543  1.00 25.00           C
ATOM    133  CA  GLU   133     -92.064   5.181   1.436  1.00 25.00           C
ATOM    134  CA  ALA   134     -94.713   4.844  -1.309  1.00 25.00           C
ATOM    135  CA  ALA   135     -94.325   1.034  -1.250  1.00 25.00           C
ATOM    136  CA  GLU   136     -94.717   1.028   2.560  1.00 25.00           C
ATOM    137  CA  SER   137     -93.418  -2.573   2.948  1.00 25.00           C
ATOM    138  CA  SER   138     -92.022  -4.179  -0.171  1.00 25.00           C
ATOM    139  CA  ALA   139     -89.389  -6.915  -0.865  1.00 25.00           C
ATOM    140  CA  ALA   140     -86.147  -8.877  -1.454  1.00 25.00           C
ATOM    141  CA  GLU   141     -82.548  -7.647  -0.873  1.00 25.00           C
TER
END
