
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0351TS168_2
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351TS168_2.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    I       2      I       2           -
LGA    L       3      L       3           -
LGA    Y       4      -       -           -
LGA    D       5      -       -           -
LGA    A       6      -       -           -
LGA    I       7      -       -           -
LGA    M       8      Y       4           #
LGA    Y       9      D       5           #
LGA    -       -      A       6           -
LGA    -       -      I       7           -
LGA    -       -      M       8           -
LGA    -       -      Y       9           -
LGA    -       -      K      10           -
LGA    -       -      Y      11           -
LGA    -       -      P      12           -
LGA    -       -      N      13           -
LGA    -       -      A      14           -
LGA    -       -      V      15           -
LGA    -       -      S      16           -
LGA    -       -      R      17           -
LGA    -       -      K      18           -
LGA    -       -      D      19           -
LGA    -       -      F      20           -
LGA    -       -      E      21           -
LGA    K      10      L      22          4.253
LGA    Y      11      R      23          1.863
LGA    P      12      -       -           -
LGA    N      13      -       -           -
LGA    A      14      -       -           -
LGA    V      15      -       -           -
LGA    S      16      -       -           -
LGA    R      17      -       -           -
LGA    K      18      -       -           -
LGA    D      19      -       -           -
LGA    F      20      N      24          3.666
LGA    E      21      D      25          4.722
LGA    L      22      G      26           #
LGA    R      23      N      27          5.473
LGA    N      24      -       -           -
LGA    D      25      -       -           -
LGA    G      26      -       -           -
LGA    N      27      -       -           -
LGA    G      28      -       -           -
LGA    S      29      G      28          3.305
LGA    Y      30      S      29          3.144
LGA    I      31      Y      30          4.612
LGA    E      32      I      31          2.327
LGA    K      33      E      32           #
LGA    W      34      K      33           -
LGA    N      35      -       -           -
LGA    L      36      -       -           -
LGA    R      37      W      34           #
LGA    A      38      N      35          3.952
LGA    P      39      L      36          2.011
LGA    L      40      R      37          3.504
LGA    P      41      A      38          0.412
LGA    T      42      P      39          1.293
LGA    Q      43      L      40          2.352
LGA    A      44      -       -           -
LGA    E      45      P      41           #
LGA    L      46      -       -           -
LGA    E      47      -       -           -
LGA    T      48      -       -           -
LGA    W      49      -       -           -
LGA    W      50      -       -           -
LGA    E      51      -       -           -
LGA    E      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    K      55      -       -           -
LGA    N      56      -       -           -
LGA    P      57      -       -           -
LGA    P      58      -       -           -
LGA    Y      59      -       -           -
LGA    E      60      -       -           -
LGA    P      61      -       -           -
LGA    P      62      -       -           -
LGA    D      63      -       -           -
LGA    Q      64      -       -           -
LGA    V      65      -       -           -
LGA    E      66      -       -           -
LGA    L      67      -       -           -
LGA    L      68      -       -           -
LGA    A      69      -       -           -
LGA    Q      70      -       -           -
LGA    E      71      -       -           -
LGA    L      72      -       -           -
LGA    S      73      -       -           -
LGA    Q      74      T      42          4.760
LGA    E      75      Q      43          2.219
LGA    K      76      -       -           -
LGA    L      77      A      44          2.820
LGA    A      78      E      45          2.183
LGA    R      79      L      46          1.498
LGA    K      80      E      47          1.432
LGA    Q      81      T      48          1.059
LGA    L      82      W      49          0.883
LGA    E      83      W      50          0.383
LGA    E      84      E      51          0.801
LGA    L      85      E      52          1.042
LGA    N      86      L      53          1.082
LGA    K      87      Q      54          1.788
LGA    T      88      K      55          3.130
LGA    L      89      N      56          3.228
LGA    G      90      -       -           -
LGA    N      91      -       -           -
LGA    E      92      -       -           -
LGA    L      93      -       -           -
LGA    S      94      -       -           -
LGA    D      95      -       -           -
LGA    I      96      -       -           -
LGA    K      97      -       -           -
LGA    L      98      -       -           -
LGA    S      99      -       -           -
LGA    L     100      -       -           -
LGA    L     101      -       -           -
LGA    S     102      -       -           -
LGA    L     103      -       -           -
LGA    K     104      -       -           -
LGA    G     105      -       -           -
LGA    D     106      -       -           -
LGA    Y     107      -       -           -
LGA    A     108      -       -           -
LGA    E     109      -       -           -
LGA    L     110      -       -           -
LGA    E     111      -       -           -
LGA    H     112      -       -           -
LGA    H     113      -       -           -
LGA    H     114      -       -           -
LGA    H     115      -       -           -
LGA    H     116      -       -           -
LGA    H     117      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117   56    5.0     30    2.87     3.33     35.727     1.010

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.927655 * X  +  -0.344588 * Y  +   0.143931 * Z  +  -2.042777
  Y_new =   0.199763 * X  +  -0.783531 * Y  +  -0.588365 * Z  +  -0.447674
  Z_new =   0.315518 * X  +  -0.517048 * Y  +   0.795682 * Z  +   2.360887 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.576246    2.565346  [ DEG:   -33.0165    146.9835 ]
  Theta =  -0.321003   -2.820590  [ DEG:   -18.3921   -161.6079 ]
  Phi   =   2.929490   -0.212103  [ DEG:   167.8474    -12.1526 ]
 
# 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: T0351TS168_2                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351TS168_2.T0351.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117   56   5.0   30   2.87    3.33  35.727
REMARK  ---------------------------------------------------------- 
MOLECULE T0351TS168_2
PFRMAT TS
TARGET T0351
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      -1.970 -12.513  11.229  1.00 25.00           C
ATOM      2  CA  ILE     2      -2.285  -8.778  11.253  1.00 25.00           C
ATOM      3  CA  LEU     3       0.374  -7.694  13.703  1.00 25.00           C
ATOM      4  CA  TYR     4       2.343  -5.454  16.120  1.00 25.00           C
ATOM      5  CA  ASP     5       2.756  -1.777  17.218  1.00 25.00           C
ATOM      6  CA  ALA     6       0.831  -0.309  14.233  1.00 25.00           C
ATOM      7  CA  ILE     7      -0.072   0.510  10.599  1.00 25.00           C
ATOM      8  CA  MET     8      -0.289   4.222   9.898  1.00 25.00           C
ATOM      9  CA  TYR     9      -3.378   3.531   7.778  1.00 25.00           C
ATOM     10  CA  LYS    10      -6.637   5.534   7.929  1.00 25.00           C
ATOM     11  CA  TYR    11      -9.558   5.583   5.502  1.00 25.00           C
ATOM     12  CA  PRO    12      -9.964   8.358   2.876  1.00 25.00           C
ATOM     13  CA  ASN    13     -11.062  11.949   3.563  1.00 25.00           C
ATOM     14  CA  ALA    14      -8.469  12.244   6.326  1.00 25.00           C
ATOM     15  CA  VAL    15      -8.521  15.469   8.253  1.00 25.00           C
ATOM     16  CA  SER    16     -10.019  18.775   9.261  1.00 25.00           C
ATOM     17  CA  ARG    17     -13.293  17.629   7.695  1.00 25.00           C
ATOM     18  CA  LYS    18     -15.936  14.927   8.136  1.00 25.00           C
ATOM     19  CA  ASP    19     -13.619  11.973   8.041  1.00 25.00           C
ATOM     20  CA  PHE    20     -12.686   8.414   9.163  1.00 25.00           C
ATOM     21  CA  GLU    21     -14.406   7.067   6.017  1.00 25.00           C
ATOM     22  CA  LEU    22     -14.410   3.545   4.468  1.00 25.00           C
ATOM     23  CA  ARG    23     -15.469  -0.053   4.901  1.00 25.00           C
ATOM     24  CA  ASN    24     -16.199  -1.231   1.298  1.00 25.00           C
ATOM     25  CA  ASP    25     -15.766  -5.013   1.769  1.00 25.00           C
ATOM     26  CA  GLY    26     -12.803  -5.683  -0.426  1.00 25.00           C
ATOM     27  CA  ASN    27     -10.897  -6.838   2.709  1.00 25.00           C
ATOM     28  CA  GLY    28      -8.583  -3.869   2.166  1.00 25.00           C
ATOM     29  CA  SER    29     -10.135  -1.505   4.711  1.00 25.00           C
ATOM     30  CA  TYR    30      -7.082   0.644   4.396  1.00 25.00           C
ATOM     31  CA  ILE    31      -5.419   0.049   0.998  1.00 25.00           C
ATOM     32  CA  GLU    32      -6.598   3.486  -0.209  1.00 25.00           C
ATOM     33  CA  LYS    33      -5.196   5.109   2.964  1.00 25.00           C
ATOM     34  CA  TRP    34      -1.848   3.327   2.425  1.00 25.00           C
ATOM     35  CA  ASN    35      -0.070   6.061   4.348  1.00 25.00           C
ATOM     36  CA  LEU    36       0.997   7.621   1.015  1.00 25.00           C
ATOM     37  CA  ARG    37       0.245  11.367   0.960  1.00 25.00           C
ATOM     38  CA  ALA    38      -2.204  10.344  -1.844  1.00 25.00           C
ATOM     39  CA  PRO    39       0.533  11.724  -4.110  1.00 25.00           C
ATOM     40  CA  LEU    40       0.542   8.828  -6.579  1.00 25.00           C
ATOM     41  CA  PRO    41       1.910   6.790  -9.458  1.00 25.00           C
ATOM     42  CA  THR    42       0.051   3.846 -11.026  1.00 25.00           C
ATOM     43  CA  GLN    43      -2.047   4.471  -7.933  1.00 25.00           C
ATOM     44  CA  ALA    44      -3.152   7.592  -9.859  1.00 25.00           C
ATOM     45  CA  GLU    45      -5.773   5.531 -11.743  1.00 25.00           C
ATOM     46  CA  LEU    46      -7.063   4.101  -8.433  1.00 25.00           C
ATOM     47  CA  GLU    47      -7.297   7.632  -6.969  1.00 25.00           C
ATOM     48  CA  THR    48      -9.230   8.811 -10.059  1.00 25.00           C
ATOM     49  CA  TRP    49     -11.628   5.844  -9.720  1.00 25.00           C
ATOM     50  CA  TRP    50     -12.166   6.670  -6.019  1.00 25.00           C
ATOM     51  CA  GLU    51     -12.885  10.324  -6.914  1.00 25.00           C
ATOM     52  CA  GLU    52     -15.401   9.203  -9.575  1.00 25.00           C
ATOM     53  CA  LEU    53     -17.112   6.913  -7.026  1.00 25.00           C
ATOM     54  CA  GLN    54     -17.306   9.804  -4.522  1.00 25.00           C
ATOM     55  CA  LYS    55     -20.732  10.650  -5.987  1.00 25.00           C
ATOM     56  CA  ASN    56     -22.876   7.995  -4.202  1.00 25.00           C
ATOM     57  CA  PRO    57     -26.032   8.327  -6.363  1.00 25.00           C
ATOM     58  CA  PRO    58     -27.769   4.949  -6.699  1.00 25.00           C
ATOM     59  CA  TYR    59     -27.726   5.880 -10.427  1.00 25.00           C
ATOM     60  CA  GLU    60     -27.533   2.383 -11.909  1.00 25.00           C
ATOM     61  CA  PRO    61     -26.163  -0.023 -14.528  1.00 25.00           C
ATOM     62  CA  PRO    62     -24.917  -2.706 -16.875  1.00 25.00           C
ATOM     63  CA  ASP    63     -21.650  -3.333 -18.773  1.00 25.00           C
ATOM     64  CA  GLN    64     -20.076  -0.252 -17.132  1.00 25.00           C
ATOM     65  CA  VAL    65     -21.192  -1.487 -13.684  1.00 25.00           C
ATOM     66  CA  GLU    66     -19.682  -4.932 -14.402  1.00 25.00           C
ATOM     67  CA  LEU    67     -16.393  -3.293 -15.481  1.00 25.00           C
ATOM     68  CA  LEU    68     -16.348  -1.210 -12.267  1.00 25.00           C
ATOM     69  CA  ALA    69     -16.955  -4.366 -10.184  1.00 25.00           C
ATOM     70  CA  GLN    70     -14.092  -6.145 -12.001  1.00 25.00           C
ATOM     71  CA  GLU    71     -11.783  -3.164 -11.333  1.00 25.00           C
ATOM     72  CA  LEU    72     -12.751  -3.213  -7.627  1.00 25.00           C
ATOM     73  CA  SER    73     -12.027  -6.970  -7.462  1.00 25.00           C
ATOM     74  CA  GLN    74      -8.614  -6.410  -9.105  1.00 25.00           C
ATOM     75  CA  GLU    75      -7.826  -3.640  -6.580  1.00 25.00           C
ATOM     76  CA  LYS    76      -8.817  -5.955  -3.695  1.00 25.00           C
ATOM     77  CA  LEU    77      -6.564  -8.714  -5.102  1.00 25.00           C
ATOM     78  CA  ALA    78      -3.658  -6.233  -5.378  1.00 25.00           C
ATOM     79  CA  ARG    79      -4.224  -5.129  -1.754  1.00 25.00           C
ATOM     80  CA  LYS    80      -4.235  -8.786  -0.617  1.00 25.00           C
ATOM     81  CA  GLN    81      -0.969  -9.413  -2.514  1.00 25.00           C
ATOM     82  CA  LEU    82       0.605  -6.331  -0.874  1.00 25.00           C
ATOM     83  CA  GLU    83      -0.512  -7.567   2.575  1.00 25.00           C
ATOM     84  CA  GLU    84       1.000 -11.012   1.856  1.00 25.00           C
ATOM     85  CA  LEU    85       4.288  -9.372   0.777  1.00 25.00           C
ATOM     86  CA  ASN    86       4.332  -7.289   3.991  1.00 25.00           C
ATOM     87  CA  LYS    87       3.725 -10.445   6.074  1.00 25.00           C
ATOM     88  CA  THR    88       6.588 -12.225   4.258  1.00 25.00           C
ATOM     89  CA  LEU    89       8.898  -9.244   4.926  1.00 25.00           C
ATOM     90  CA  GLY    90       7.929  -9.292   8.631  1.00 25.00           C
ATOM     91  CA  ASN    91       8.653 -13.049   8.796  1.00 25.00           C
ATOM     92  CA  GLU    92      12.068 -12.489   7.153  1.00 25.00           C
ATOM     93  CA  LEU    93      12.855  -9.720   9.678  1.00 25.00           C
ATOM     94  CA  SER    94      11.864 -12.035  12.565  1.00 25.00           C
ATOM     95  CA  ASP    95      14.118 -14.793  11.156  1.00 25.00           C
ATOM     96  CA  ILE    96      17.022 -12.313  10.881  1.00 25.00           C
ATOM     97  CA  LYS    97      16.457 -11.208  14.504  1.00 25.00           C
ATOM     98  CA  LEU    98      16.445 -14.865  15.642  1.00 25.00           C
ATOM     99  CA  SER    99      19.712 -15.492  13.744  1.00 25.00           C
ATOM    100  CA  LEU   100      21.285 -12.411  15.385  1.00 25.00           C
ATOM    101  CA  LEU   101      20.170 -13.647  18.833  1.00 25.00           C
ATOM    102  CA  SER   102      21.680 -17.092  18.114  1.00 25.00           C
ATOM    103  CA  LEU   103      24.801 -14.989  18.183  1.00 25.00           C
ATOM    104  CA  LYS   104      26.622 -11.834  19.226  1.00 25.00           C
ATOM    105  CA  GLY   105      27.973  -8.542  17.975  1.00 25.00           C
ATOM    106  CA  ASP   106      28.865  -4.835  18.466  1.00 25.00           C
ATOM    107  CA  TYR   107      25.780  -3.089  19.936  1.00 25.00           C
ATOM    108  CA  ALA   108      26.989   0.262  18.530  1.00 25.00           C
ATOM    109  CA  GLU   109      24.243   0.161  15.863  1.00 25.00           C
ATOM    110  CA  LEU   110      21.621  -0.573  18.555  1.00 25.00           C
ATOM    111  CA  GLU   111      22.910   2.364  20.648  1.00 25.00           C
ATOM    112  CA  HIS   112      22.718   4.660  17.590  1.00 25.00           C
ATOM    113  CA  HIS   113      19.203   5.578  16.461  1.00 25.00           C
ATOM    114  CA  HIS   114      20.807   5.975  13.004  1.00 25.00           C
ATOM    115  CA  HIS   115      18.496   5.251  10.062  1.00 25.00           C
ATOM    116  CA  HIS   116      20.212   4.246   6.852  1.00 25.00           C
ATOM    117  CA  HIS   117      16.974   5.044   5.078  1.00 25.00           C
TER
END
