
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS168_2.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      K       5          2.252
LGA    L       6      L       6          1.656
LGA    R       7      R       7          1.631
LGA    Y       8      Y       8          0.913
LGA    A       9      A       9          1.223
LGA    I      10      I      10          1.477
LGA    L      11      L      11          1.322
LGA    K      12      K      12          1.660
LGA    E      13      E      13          2.400
LGA    I      14      I      14          2.591
LGA    F      15      F      15          2.855
LGA    E      16      E      16          2.911
LGA    G      17      G      17           #
LGA    N      18      N      18           -
LGA    T      19      T      19           -
LGA    P      20      P      20           -
LGA    -       -      L      21           -
LGA    -       -      S      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    L      21      D      25           #
LGA    S      22      I      26           #
LGA    E      23      -       -           -
LGA    N      24      G      27          4.002
LGA    D      25      V      28          4.785
LGA    I      26      -       -           -
LGA    G      27      T      29          5.129
LGA    V      28      E      30          4.729
LGA    T      29      D      31          1.569
LGA    E      30      Q      32           -
LGA    D      31      F      33           -
LGA    Q      32      D      34           #
LGA    F      33      D      35          1.941
LGA    D      34      -       -           -
LGA    D      35      A      36          4.535
LGA    A      36      V      37          3.258
LGA    V      37      N      38          1.582
LGA    N      38      F      39          2.241
LGA    F      39      L      40          0.852
LGA    L      40      K      41          3.815
LGA    K      41      R      42          4.893
LGA    -       -      E      43           -
LGA    R      42      G      44          1.389
LGA    E      43      Y      45          1.628
LGA    G      44      I      46          2.485
LGA    Y      45      I      47          3.647
LGA    I      46      G      48           #
LGA    I      47      V      49          3.621
LGA    G      48      -       -           -
LGA    V      49      H      50          4.923
LGA    H      50      Y      51          2.745
LGA    Y      51      -       -           -
LGA    S      52      -       -           -
LGA    D      53      -       -           -
LGA    D      54      -       -           -
LGA    R      55      -       -           -
LGA    P      56      -       -           -
LGA    H      57      -       -           -
LGA    L      58      S      52          3.671
LGA    Y      59      D      53          3.582
LGA    -       -      D      54           -
LGA    K      60      R      55          4.338
LGA    L      61      P      56           #
LGA    G      62      H      57           #
LGA    P      63      -       -           -
LGA    E      64      -       -           -
LGA    L      65      L      58          3.741
LGA    T      66      Y      59          3.380
LGA    E      67      K      60          2.610
LGA    K      68      -       -           -
LGA    G      69      -       -           -
LGA    E      70      L      61          2.161
LGA    N      71      -       -           -
LGA    Y      72      -       -           -
LGA    L      73      G      62          3.285
LGA    K      74      P      63           #
LGA    E      75      E      64           -
LGA    N      76      L      65           -
LGA    G      77      -       -           -
LGA    T      78      -       -           -
LGA    W      79      T      66           #
LGA    S      80      E      67           -
LGA    K      81      K      68           -
LGA    A      82      G      69           -
LGA    Y      83      E      70           -
LGA    K      84      N      71           -
LGA    T      85      Y      72           -
LGA    I      86      L      73           -
LGA    K      87      K      74           -
LGA    E      88      E      75           -
LGA    I      89      N      76           -
LGA    K      90      G      77           -
LGA    D      91      -       -           -
LGA    W      92      -       -           -
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     40    3.09    32.50     34.720     1.254

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.475695 * X  +  -0.189492 * Y  +   0.858957 * Z  +   2.604096
  Y_new =  -0.570950 * X  +  -0.676329 * Y  +  -0.465398 * Z  +  -2.583601
  Z_new =   0.669127 * X  +  -0.711809 * Y  +   0.213536 * Z  +   5.454593 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.279348    1.862245  [ DEG:   -73.3012    106.6988 ]
  Theta =  -0.733033   -2.408559  [ DEG:   -41.9997   -138.0003 ]
  Phi   =  -2.265435    0.876158  [ DEG:  -129.7999     50.2001 ]
 
# 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_2                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS168_2.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   40   3.09   32.50  34.720
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS168_2
PFRMAT TS
TARGET T0327
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1     -15.272  -4.846   2.854  1.00 25.00           C
ATOM      2  CA  ASN     2     -16.130  -1.144   3.005  1.00 25.00           C
ATOM      3  CA  LYS     3     -13.245   0.190   5.142  1.00 25.00           C
ATOM      4  CA  ASP     4      -9.472   0.493   5.357  1.00 25.00           C
ATOM      5  CA  LYS     5      -9.949   3.233   2.725  1.00 25.00           C
ATOM      6  CA  LEU     6      -6.416   4.543   3.413  1.00 25.00           C
ATOM      7  CA  ARG     7      -5.005   1.002   3.050  1.00 25.00           C
ATOM      8  CA  TYR     8      -6.864   0.576  -0.271  1.00 25.00           C
ATOM      9  CA  ALA     9      -5.469   3.919  -1.511  1.00 25.00           C
ATOM     10  CA  ILE    10      -1.931   2.839  -0.518  1.00 25.00           C
ATOM     11  CA  LEU    11      -2.394  -0.475  -2.381  1.00 25.00           C
ATOM     12  CA  LYS    12      -3.610   1.411  -5.484  1.00 25.00           C
ATOM     13  CA  GLU    13      -0.563   3.724  -5.301  1.00 25.00           C
ATOM     14  CA  ILE    14       1.756   0.690  -5.018  1.00 25.00           C
ATOM     15  CA  PHE    15       0.067  -0.916  -8.057  1.00 25.00           C
ATOM     16  CA  GLU    16       0.496   2.331 -10.042  1.00 25.00           C
ATOM     17  CA  GLY    17      -1.723   4.768 -11.921  1.00 25.00           C
ATOM     18  CA  ASN    18      -3.190   6.469  -8.894  1.00 25.00           C
ATOM     19  CA  THR    19      -3.049  10.250  -8.634  1.00 25.00           C
ATOM     20  CA  PRO    20      -4.673  13.117  -6.632  1.00 25.00           C
ATOM     21  CA  LEU    21      -4.011  13.547  -2.881  1.00 25.00           C
ATOM     22  CA  SER    22      -4.669  15.833   0.043  1.00 25.00           C
ATOM     23  CA  GLU    23      -2.768  17.669   2.791  1.00 25.00           C
ATOM     24  CA  ASN    24      -3.869  15.365   5.600  1.00 25.00           C
ATOM     25  CA  ASP    25      -4.767  13.649   8.901  1.00 25.00           C
ATOM     26  CA  ILE    26      -5.125  10.903  11.417  1.00 25.00           C
ATOM     27  CA  GLY    27      -3.966   8.452  14.012  1.00 25.00           C
ATOM     28  CA  VAL    28      -2.101   6.008  11.800  1.00 25.00           C
ATOM     29  CA  THR    29       0.817   4.860  13.949  1.00 25.00           C
ATOM     30  CA  GLU    30       0.569   1.510  15.758  1.00 25.00           C
ATOM     31  CA  ASP    31      -2.066  -1.210  15.193  1.00 25.00           C
ATOM     32  CA  GLN    32      -3.382   0.666  12.126  1.00 25.00           C
ATOM     33  CA  PHE    33       0.179   0.963  10.749  1.00 25.00           C
ATOM     34  CA  ASP    34       0.727  -2.788  11.289  1.00 25.00           C
ATOM     35  CA  ASP    35      -2.555  -3.554   9.471  1.00 25.00           C
ATOM     36  CA  ALA    36      -1.494  -1.309   6.557  1.00 25.00           C
ATOM     37  CA  VAL    37       1.889  -3.094   6.380  1.00 25.00           C
ATOM     38  CA  ASN    38       0.122  -6.491   6.350  1.00 25.00           C
ATOM     39  CA  PHE    39      -2.179  -5.298   3.531  1.00 25.00           C
ATOM     40  CA  LEU    40       0.856  -4.087   1.533  1.00 25.00           C
ATOM     41  CA  LYS    41       2.572  -7.473   2.040  1.00 25.00           C
ATOM     42  CA  ARG    42      -0.590  -9.280   0.855  1.00 25.00           C
ATOM     43  CA  GLU    43       0.016  -7.338  -2.339  1.00 25.00           C
ATOM     44  CA  GLY    44       3.695  -7.163  -3.283  1.00 25.00           C
ATOM     45  CA  TYR    45       4.888  -3.804  -2.059  1.00 25.00           C
ATOM     46  CA  ILE    46       3.851  -1.106   0.388  1.00 25.00           C
ATOM     47  CA  ILE    47       6.024  -1.282   3.469  1.00 25.00           C
ATOM     48  CA  GLY    48       7.664   0.178   6.619  1.00 25.00           C
ATOM     49  CA  VAL    49       7.798  -3.467   7.879  1.00 25.00           C
ATOM     50  CA  HIS    50      10.476  -3.239  10.625  1.00 25.00           C
ATOM     51  CA  TYR    51      12.981  -3.654  13.497  1.00 25.00           C
ATOM     52  CA  SER    52      15.242  -5.437  11.043  1.00 25.00           C
ATOM     53  CA  ASP    53      18.095  -4.701  13.459  1.00 25.00           C
ATOM     54  CA  ASP    54      19.902  -7.733  11.976  1.00 25.00           C
ATOM     55  CA  ARG    55      18.577  -8.679   8.544  1.00 25.00           C
ATOM     56  CA  PRO    56      20.726  -5.942   6.919  1.00 25.00           C
ATOM     57  CA  HIS    57      20.125  -2.240   7.630  1.00 25.00           C
ATOM     58  CA  LEU    58      16.360  -2.195   7.109  1.00 25.00           C
ATOM     59  CA  TYR    59      14.515  -0.335   9.800  1.00 25.00           C
ATOM     60  CA  LYS    60      11.899   2.323   9.272  1.00 25.00           C
ATOM     61  CA  LEU    61      12.142   4.539   6.186  1.00 25.00           C
ATOM     62  CA  GLY    62      15.239   4.857   3.998  1.00 25.00           C
ATOM     63  CA  PRO    63      14.476   8.525   4.271  1.00 25.00           C
ATOM     64  CA  GLU    64      13.420   8.081   0.599  1.00 25.00           C
ATOM     65  CA  LEU    65      11.116   5.165  -0.327  1.00 25.00           C
ATOM     66  CA  THR    66      10.949   4.056  -4.009  1.00 25.00           C
ATOM     67  CA  GLU    67      14.681   3.556  -3.726  1.00 25.00           C
ATOM     68  CA  LYS    68      15.654   1.725  -0.506  1.00 25.00           C
ATOM     69  CA  GLY    69      12.122   0.267  -0.240  1.00 25.00           C
ATOM     70  CA  GLU    70      12.303  -0.900  -3.883  1.00 25.00           C
ATOM     71  CA  ASN    71      15.698  -2.541  -3.215  1.00 25.00           C
ATOM     72  CA  TYR    72      14.265  -4.309  -0.134  1.00 25.00           C
ATOM     73  CA  LEU    73      11.295  -5.558  -2.203  1.00 25.00           C
ATOM     74  CA  LYS    74      13.687  -6.861  -4.897  1.00 25.00           C
ATOM     75  CA  GLU    75      15.754  -8.663  -2.223  1.00 25.00           C
ATOM     76  CA  ASN    76      15.732  -9.833   1.455  1.00 25.00           C
ATOM     77  CA  GLY    77      12.942 -12.282   0.491  1.00 25.00           C
ATOM     78  CA  THR    78      10.851  -9.210   0.015  1.00 25.00           C
ATOM     79  CA  TRP    79       7.145 -10.057  -0.450  1.00 25.00           C
ATOM     80  CA  SER    80       7.705 -13.494   1.144  1.00 25.00           C
ATOM     81  CA  LYS    81       9.502 -11.857   4.103  1.00 25.00           C
ATOM     82  CA  ALA    82       6.602  -9.392   4.530  1.00 25.00           C
ATOM     83  CA  TYR    83       4.098 -12.289   4.471  1.00 25.00           C
ATOM     84  CA  LYS    84       6.152 -14.151   7.112  1.00 25.00           C
ATOM     85  CA  THR    85       6.228 -11.011   9.304  1.00 25.00           C
ATOM     86  CA  ILE    86       2.432 -10.642   8.949  1.00 25.00           C
ATOM     87  CA  LYS    87       1.960 -14.314   9.930  1.00 25.00           C
ATOM     88  CA  GLU    88       4.205 -13.811  12.992  1.00 25.00           C
ATOM     89  CA  ILE    89       2.182 -10.717  13.996  1.00 25.00           C
ATOM     90  CA  LYS    90      -1.075 -12.699  13.634  1.00 25.00           C
ATOM     91  CA  ASP    91       0.363 -15.508  15.804  1.00 25.00           C
ATOM     92  CA  TRP    92       1.406 -12.954  18.461  1.00 25.00           C
ATOM     93  CA  ILE    93      -2.109 -11.436  18.417  1.00 25.00           C
ATOM     94  CA  LYS    94      -3.646 -14.920  18.823  1.00 25.00           C
ATOM     95  CA  LEU    95      -5.195 -17.483  21.238  1.00 25.00           C
ATOM     96  CA  GLU    96      -6.985 -15.352  23.830  1.00 25.00           C
ATOM     97  CA  HIS    97     -10.329 -16.559  22.472  1.00 25.00           C
ATOM     98  CA  HIS    98     -12.552 -14.801  20.022  1.00 25.00           C
ATOM     99  CA  HIS    99     -15.882 -13.007  20.169  1.00 25.00           C
ATOM    100  CA  HIS   100     -16.345  -9.370  21.279  1.00 25.00           C
ATOM    101  CA  HIS   101     -16.456  -6.179  19.179  1.00 25.00           C
ATOM    102  CA  HIS   102     -16.841  -5.559  15.467  1.00 25.00           C
TER
END
