
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0327TS168_4
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS168_4.T0327.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    N       2      -       -           -
LGA    K       3      -       -           -
LGA    D       4      -       -           -
LGA    K       5      -       -           -
LGA    L       6      -       -           -
LGA    R       7      -       -           -
LGA    Y       8      -       -           -
LGA    A       9      -       -           -
LGA    I      10      -       -           -
LGA    L      11      -       -           -
LGA    K      12      -       -           -
LGA    E      13      -       -           -
LGA    I      14      -       -           -
LGA    F      15      -       -           -
LGA    E      16      -       -           -
LGA    G      17      -       -           -
LGA    N      18      -       -           -
LGA    T      19      -       -           -
LGA    P      20      -       -           -
LGA    L      21      -       -           -
LGA    S      22      -       -           -
LGA    E      23      -       -           -
LGA    N      24      -       -           -
LGA    D      25      -       -           -
LGA    I      26      -       -           -
LGA    G      27      -       -           -
LGA    V      28      -       -           -
LGA    T      29      -       -           -
LGA    E      30      -       -           -
LGA    D      31      K       5          1.648
LGA    Q      32      L       6          1.299
LGA    F      33      R       7          0.884
LGA    D      34      Y       8          0.646
LGA    D      35      A       9          1.061
LGA    A      36      I      10          0.547
LGA    V      37      L      11          0.991
LGA    N      38      K      12          1.907
LGA    F      39      E      13          1.771
LGA    L      40      I      14          1.626
LGA    K      41      F      15          2.825
LGA    R      42      E      16          3.798
LGA    E      43      G      17          1.601
LGA    G      44      N      18          1.718
LGA    Y      45      T      19          3.421
LGA    I      46      P      20          2.898
LGA    I      47      L      21          3.949
LGA    G      48      S      22           #
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    -       -      D      25           -
LGA    -       -      I      26           -
LGA    -       -      G      27           -
LGA    -       -      V      28           -
LGA    -       -      T      29           -
LGA    -       -      E      30           -
LGA    -       -      D      31           -
LGA    -       -      Q      32           -
LGA    -       -      F      33           -
LGA    V      49      D      34           #
LGA    -       -      D      35           -
LGA    -       -      A      36           -
LGA    H      50      V      37          1.984
LGA    Y      51      N      38          1.654
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    S      52      K      41          2.577
LGA    D      53      R      42          3.320
LGA    D      54      E      43           -
LGA    R      55      G      44           -
LGA    P      56      Y      45           -
LGA    H      57      I      46           -
LGA    L      58      I      47           -
LGA    Y      59      G      48           #
LGA    K      60      V      49          1.109
LGA    L      61      H      50          3.197
LGA    -       -      Y      51           -
LGA    -       -      S      52           -
LGA    -       -      D      53           -
LGA    -       -      D      54           -
LGA    -       -      R      55           -
LGA    G      62      P      56          2.677
LGA    P      63      H      57          4.198
LGA    E      64      -       -           -
LGA    L      65      L      58          1.781
LGA    T      66      Y      59          1.484
LGA    E      67      K      60          3.168
LGA    K      68      -       -           -
LGA    G      69      -       -           -
LGA    E      70      -       -           -
LGA    N      71      L      61          3.287
LGA    Y      72      G      62          3.125
LGA    L      73      P      63          1.908
LGA    K      74      E      64          2.845
LGA    E      75      L      65           #
LGA    N      76      -       -           -
LGA    G      77      -       -           -
LGA    T      78      -       -           -
LGA    W      79      -       -           -
LGA    S      80      -       -           -
LGA    K      81      T      66          5.399
LGA    A      82      E      67          4.271
LGA    Y      83      K      68          1.670
LGA    K      84      G      69          2.621
LGA    T      85      E      70          2.372
LGA    I      86      N      71          1.347
LGA    K      87      Y      72          1.198
LGA    E      88      L      73          0.668
LGA    I      89      K      74          2.265
LGA    K      90      E      75          3.750
LGA    D      91      N      76          4.321
LGA    W      92      G      77          4.259
LGA    I      93      -       -           -
LGA    K      94      -       -           -
LGA    L      95      -       -           -
LGA    E      96      -       -           -
LGA    H      97      -       -           -
LGA    H      98      -       -           -
LGA    H      99      -       -           -
LGA    H     100      -       -           -
LGA    H     101      -       -           -
LGA    H     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   73    5.0     44    2.66     2.27     38.839     1.593

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.415577 * X  +   0.898701 * Y  +   0.140113 * Z  +  -2.674466
  Y_new =   0.234859 * X  +   0.042795 * Y  +  -0.971087 * Z  +   1.850772
  Z_new =  -0.878713 * X  +   0.436468 * Y  +  -0.193284 * Z  +  -0.214104 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.987677   -1.153916  [ DEG:   113.8855    -66.1145 ]
  Theta =   1.073160    2.068433  [ DEG:    61.4875    118.5125 ]
  Phi   =   0.514393   -2.627199  [ DEG:    29.4726   -150.5274 ]
 
# 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: T0327TS168_4                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS168_4.T0327.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   73   5.0   44   2.66    2.27  38.839
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS168_4
PFRMAT TS
TARGET T0327
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1     -15.900  16.104  -2.059  1.00 25.00           C
ATOM      2  CA  ASN     2     -17.896  14.483   0.676  1.00 25.00           C
ATOM      3  CA  LYS     3     -16.868  10.947  -0.367  1.00 25.00           C
ATOM      4  CA  ASP     4     -13.753   8.857   0.239  1.00 25.00           C
ATOM      5  CA  LYS     5     -12.900  11.778   2.565  1.00 25.00           C
ATOM      6  CA  LEU     6     -10.444   9.559   4.491  1.00 25.00           C
ATOM      7  CA  ARG     7      -8.807   8.474   1.203  1.00 25.00           C
ATOM      8  CA  TYR     8      -8.490  12.135   0.125  1.00 25.00           C
ATOM      9  CA  ALA     9      -6.893  13.014   3.493  1.00 25.00           C
ATOM     10  CA  ILE    10      -4.423  10.113   3.108  1.00 25.00           C
ATOM     11  CA  LEU    11      -3.534  11.307  -0.421  1.00 25.00           C
ATOM     12  CA  LYS    12      -2.970  14.858   0.897  1.00 25.00           C
ATOM     13  CA  GLU    13      -0.712  13.496   3.674  1.00 25.00           C
ATOM     14  CA  ILE    14       1.284  11.482   1.098  1.00 25.00           C
ATOM     15  CA  PHE    15       1.676  14.609  -1.079  1.00 25.00           C
ATOM     16  CA  GLU    16       2.888  16.602   1.960  1.00 25.00           C
ATOM     17  CA  GLY    17       2.647  19.752   4.143  1.00 25.00           C
ATOM     18  CA  ASN    18       1.183  17.429   6.795  1.00 25.00           C
ATOM     19  CA  THR    19       1.082  16.908  10.559  1.00 25.00           C
ATOM     20  CA  PRO    20       0.129  15.778  14.013  1.00 25.00           C
ATOM     21  CA  LEU    21      -2.410  13.041  14.512  1.00 25.00           C
ATOM     22  CA  SER    22      -3.295  10.933  17.555  1.00 25.00           C
ATOM     23  CA  GLU    23      -5.197   7.886  18.809  1.00 25.00           C
ATOM     24  CA  ASN    24      -8.329   7.018  16.927  1.00 25.00           C
ATOM     25  CA  ASP    25     -11.365   5.650  15.002  1.00 25.00           C
ATOM     26  CA  ILE    26     -13.197   4.686  11.780  1.00 25.00           C
ATOM     27  CA  GLY    27     -11.408   1.308  12.212  1.00 25.00           C
ATOM     28  CA  VAL    28      -9.871   1.183   8.765  1.00 25.00           C
ATOM     29  CA  THR    29      -8.632  -2.300   7.655  1.00 25.00           C
ATOM     30  CA  GLU    30      -9.724  -2.321   3.978  1.00 25.00           C
ATOM     31  CA  ASP    31     -10.686   1.253   2.990  1.00 25.00           C
ATOM     32  CA  GLN    32      -7.419   2.573   4.492  1.00 25.00           C
ATOM     33  CA  PHE    33      -5.432  -0.065   2.552  1.00 25.00           C
ATOM     34  CA  ASP    34      -7.228   0.924  -0.682  1.00 25.00           C
ATOM     35  CA  ASP    35      -6.432   4.613  -0.025  1.00 25.00           C
ATOM     36  CA  ALA    36      -2.753   3.737   0.575  1.00 25.00           C
ATOM     37  CA  VAL    37      -2.667   1.748  -2.696  1.00 25.00           C
ATOM     38  CA  ASN    38      -4.216   4.709  -4.567  1.00 25.00           C
ATOM     39  CA  PHE    39      -1.604   7.064  -3.052  1.00 25.00           C
ATOM     40  CA  LEU    40       1.199   4.679  -4.113  1.00 25.00           C
ATOM     41  CA  LYS    41      -0.228   4.546  -7.665  1.00 25.00           C
ATOM     42  CA  ARG    42      -0.374   8.371  -7.776  1.00 25.00           C
ATOM     43  CA  GLU    43       3.372   8.266  -7.788  1.00 25.00           C
ATOM     44  CA  GLY    44       4.671   4.825  -8.912  1.00 25.00           C
ATOM     45  CA  TYR    45       5.664   2.460  -6.104  1.00 25.00           C
ATOM     46  CA  ILE    46       6.165   5.289  -3.608  1.00 25.00           C
ATOM     47  CA  ILE    47       4.621   4.176  -0.380  1.00 25.00           C
ATOM     48  CA  GLY    48       4.001   1.336   2.043  1.00 25.00           C
ATOM     49  CA  VAL    49       1.811  -1.750   1.448  1.00 25.00           C
ATOM     50  CA  HIS    50       2.572  -2.949   4.996  1.00 25.00           C
ATOM     51  CA  TYR    51       1.885  -5.763   7.549  1.00 25.00           C
ATOM     52  CA  SER    52       2.441  -8.856   5.391  1.00 25.00           C
ATOM     53  CA  ASP    53       2.309 -12.625   5.903  1.00 25.00           C
ATOM     54  CA  ASP    54       5.892 -12.314   7.074  1.00 25.00           C
ATOM     55  CA  ARG    55       4.508 -10.077   9.842  1.00 25.00           C
ATOM     56  CA  PRO    56       4.778  -7.027  12.073  1.00 25.00           C
ATOM     57  CA  HIS    57       8.079  -5.363  11.105  1.00 25.00           C
ATOM     58  CA  LEU    58       6.943  -3.197   8.130  1.00 25.00           C
ATOM     59  CA  TYR    59       7.088  -6.593   6.344  1.00 25.00           C
ATOM     60  CA  LYS    60       8.581  -4.995   3.220  1.00 25.00           C
ATOM     61  CA  LEU    61       9.227  -1.254   3.820  1.00 25.00           C
ATOM     62  CA  GLY    62      10.439   0.736   6.825  1.00 25.00           C
ATOM     63  CA  PRO    63      13.465   3.033   7.143  1.00 25.00           C
ATOM     64  CA  GLU    64      13.100   4.391   3.639  1.00 25.00           C
ATOM     65  CA  LEU    65      10.044   3.969   1.484  1.00 25.00           C
ATOM     66  CA  THR    66      12.238   4.272  -1.591  1.00 25.00           C
ATOM     67  CA  GLU    67      14.352   1.823  -3.526  1.00 25.00           C
ATOM     68  CA  LYS    68      14.415  -1.887  -2.574  1.00 25.00           C
ATOM     69  CA  GLY    69      10.987  -1.540  -0.903  1.00 25.00           C
ATOM     70  CA  GLU    70       9.604   0.172  -4.038  1.00 25.00           C
ATOM     71  CA  ASN    71      11.001  -2.647  -6.222  1.00 25.00           C
ATOM     72  CA  TYR    72       9.388  -5.256  -3.930  1.00 25.00           C
ATOM     73  CA  LEU    73       6.040  -3.410  -4.144  1.00 25.00           C
ATOM     74  CA  LYS    74       6.304  -3.319  -7.963  1.00 25.00           C
ATOM     75  CA  GLU    75       7.050  -7.075  -8.025  1.00 25.00           C
ATOM     76  CA  ASN    76       5.966  -8.982  -4.868  1.00 25.00           C
ATOM     77  CA  GLY    77       6.066 -11.819  -2.284  1.00 25.00           C
ATOM     78  CA  THR    78       3.507  -9.664  -0.472  1.00 25.00           C
ATOM     79  CA  TRP    79       0.722 -12.061  -1.554  1.00 25.00           C
ATOM     80  CA  SER    80      -1.855  -9.966   0.354  1.00 25.00           C
ATOM     81  CA  LYS    81      -0.555  -6.783  -1.334  1.00 25.00           C
ATOM     82  CA  ALA    82      -0.809  -8.469  -4.763  1.00 25.00           C
ATOM     83  CA  TYR    83      -4.401  -9.552  -3.992  1.00 25.00           C
ATOM     84  CA  LYS    84      -5.278  -5.976  -2.938  1.00 25.00           C
ATOM     85  CA  THR    85      -3.762  -4.621  -6.183  1.00 25.00           C
ATOM     86  CA  ILE    86      -5.791  -7.153  -8.217  1.00 25.00           C
ATOM     87  CA  LYS    87      -8.983  -6.115  -6.372  1.00 25.00           C
ATOM     88  CA  GLU    88      -8.225  -2.429  -7.087  1.00 25.00           C
ATOM     89  CA  ILE    89      -7.676  -3.234 -10.791  1.00 25.00           C
ATOM     90  CA  LYS    90     -11.004  -5.126 -10.897  1.00 25.00           C
ATOM     91  CA  ASP    91     -12.777  -2.150  -9.264  1.00 25.00           C
ATOM     92  CA  TRP    92     -11.213   0.223 -11.831  1.00 25.00           C
ATOM     93  CA  ILE    93     -12.363  -2.064 -14.681  1.00 25.00           C
ATOM     94  CA  LYS    94     -15.907  -2.128 -13.231  1.00 25.00           C
ATOM     95  CA  LEU    95     -17.503  -2.866 -16.636  1.00 25.00           C
ATOM     96  CA  GLU    96     -16.197   0.622 -17.437  1.00 25.00           C
ATOM     97  CA  HIS    97     -19.786   1.631 -16.837  1.00 25.00           C
ATOM     98  CA  HIS    98     -23.618   1.576 -16.435  1.00 25.00           C
ATOM     99  CA  HIS    99     -25.233   2.835 -13.237  1.00 25.00           C
ATOM    100  CA  HIS   100     -27.608   1.881 -10.417  1.00 25.00           C
ATOM    101  CA  HIS   101     -25.443   2.717  -7.340  1.00 25.00           C
ATOM    102  CA  HIS   102     -24.233   5.134  -4.690  1.00 25.00           C
TER
END
