
#######################################################
#                                                     #
#                        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   86 (   86),  selected   86 , name T0292TS393_2-D1
# Molecule2: number of CA atoms   77 (  591),  selected   77 , name T0292_D1.pdb
# PARAMETERS: T0292TS393_2-D1.T0292_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1          4.454
LGA    R       2      R       2          1.499
LGA    A       3      A       3          2.772
LGA    E       4      E       4          2.455
LGA    D       5      D       5          4.225
LGA    Y       6      Y       6          4.461
LGA    E       7      E       7          2.571
LGA    V       8      V       8          0.872
LGA    L       9      L       9          2.392
LGA    Y      10      Y      10          1.966
LGA    T      11      T      11          1.882
LGA    I      12      I      12          2.044
LGA    G      13      G      13          1.276
LGA    T      14      T      14          1.892
LGA    G      15      G      15          2.662
LGA    S      16      S      16          2.309
LGA    Y      17      Y      17          2.172
LGA    G      18      G      18          0.784
LGA    R      19      R      19          1.091
LGA    C      20      C      20          1.116
LGA    Q      21      Q      21          1.187
LGA    K      22      K      22          1.650
LGA    I      23      I      23          0.251
LGA    R      24      R      24          1.996
LGA    R      25      R      25          1.775
LGA    K      26      K      26          2.154
LGA    S      27      S      27          3.199
LGA    D      28      D      28          3.057
LGA    G      29      G      29          2.397
LGA    K      30      K      30          1.631
LGA    I      31      I      31          2.321
LGA    L      32      L      32          0.607
LGA    V      33      V      33          0.926
LGA    W      34      W      34          0.723
LGA    K      35      K      35          1.104
LGA    E      36      E      36          1.522
LGA    L      37      L      37          1.027
LGA    D      38      D      38          1.186
LGA    Y      39      Y      39          3.911
LGA    G      40      G      40          3.853
LGA    S      41      S      41          3.759
LGA    M      42      -       -           -
LGA    T      43      -       -           -
LGA    E      44      M      42          2.197
LGA    A      45      T      43          2.710
LGA    E      46      -       -           -
LGA    K      47      -       -           -
LGA    Q      48      -       -           -
LGA    M      49      M      49          2.220
LGA    L      50      L      50          2.220
LGA    V      51      V      51          1.846
LGA    S      52      S      52          1.402
LGA    E      53      E      53          1.219
LGA    V      54      V      54          1.261
LGA    N      55      N      55          1.291
LGA    L      56      L      56          1.444
LGA    L      57      L      57          1.488
LGA    R      58      R      58          1.338
LGA    E      59      E      59          2.125
LGA    L      60      L      60          1.927
LGA    K      61      K      61          3.786
LGA    H      62      H      62          1.408
LGA    P      63      P      63          1.333
LGA    N      64      N      64          1.231
LGA    I      65      I      65          1.001
LGA    V      66      V      66          0.847
LGA    R      67      R      67          0.651
LGA    Y      68      Y      68          0.854
LGA    Y      69      Y      69          1.478
LGA    D      70      D      70          1.228
LGA    R      71      R      71          0.862
LGA    I      72      I      72          0.456
LGA    I      73      I      73          2.050
LGA    D      74      D      74          2.447
LGA    R      75      -       -           -
LGA    T      76      -       -           -
LGA    N      77      -       -           -
LGA    T      78      -       -           -
LGA    T      79      T      79          1.920
LGA    L      80      L      80          1.770
LGA    Y      81      Y      81          2.923
LGA    I      82      I      82          2.023
LGA    V      83      V      83          1.437
LGA    M      84      M      84          1.267
LGA    E      85      E      85          0.235
LGA    Y      86      Y      86          2.406

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   86   77    5.0     77    2.09    97.40     84.935     3.509

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.624144 * X  +   0.700839 * Y  +   0.345353 * Z  +   6.090726
  Y_new =  -0.069696 * X  +  -0.490198 * Y  +   0.868820 * Z  +  14.902006
  Z_new =   0.778194 * X  +   0.518199 * Y  +   0.354800 * Z  +  16.591471 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.970426   -2.171166  [ DEG:    55.6013   -124.3987 ]
  Theta =  -0.891786   -2.249807  [ DEG:   -51.0956   -128.9044 ]
  Phi   =  -3.030386    0.111207  [ DEG:  -173.6283      6.3717 ]
 
# 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: T0292TS393_2-D1                               
REMARK     2: T0292_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0292TS393_2-D1.T0292_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   86   77   5.0   77   2.09   97.40  84.935
REMARK  ---------------------------------------------------------- 
MOLECULE T0292TS393_2-D1
PFRMAT TS
TARGET T0292
MODEL 2
PARENT N/A
ATOM      1  CA  SER     1      -9.596  -9.509   3.931  1.00 25.00           C
ATOM      2  CA  ARG     2      -8.532  -7.383   6.897  1.00 25.00           C
ATOM      3  CA  ALA     3     -11.689  -6.826   8.942  1.00 25.00           C
ATOM      4  CA  GLU     4     -14.592  -9.014  10.099  1.00 25.00           C
ATOM      5  CA  ASP     5     -14.774  -9.551  13.843  1.00 25.00           C
ATOM      6  CA  TYR     6     -15.954  -5.936  13.915  1.00 25.00           C
ATOM      7  CA  GLU     7     -15.975  -2.178  13.637  1.00 25.00           C
ATOM      8  CA  VAL     8     -14.724   1.241  14.678  1.00 25.00           C
ATOM      9  CA  LEU     9     -16.797   2.957  17.325  1.00 25.00           C
ATOM     10  CA  TYR    10     -16.430   6.776  17.173  1.00 25.00           C
ATOM     11  CA  THR    11     -14.698   9.551  15.125  1.00 25.00           C
ATOM     12  CA  ILE    12     -11.526  11.262  16.458  1.00 25.00           C
ATOM     13  CA  GLY    13      -8.478  13.349  15.432  1.00 25.00           C
ATOM     14  CA  THR    14      -8.277  14.646  11.885  1.00 25.00           C
ATOM     15  CA  GLY    15      -6.316  17.542  10.374  1.00 25.00           C
ATOM     16  CA  SER    16      -5.208  16.578   6.839  1.00 25.00           C
ATOM     17  CA  TYR    17      -4.888  12.797   7.024  1.00 25.00           C
ATOM     18  CA  GLY    18      -8.386  11.212   7.050  1.00 25.00           C
ATOM     19  CA  ARG    19      -9.356   9.178  10.133  1.00 25.00           C
ATOM     20  CA  CYS    20      -7.134   8.685  13.177  1.00 25.00           C
ATOM     21  CA  GLN    21      -9.276   6.355  15.200  1.00 25.00           C
ATOM     22  CA  LYS    22     -11.397   3.921  17.141  1.00 25.00           C
ATOM     23  CA  ILE    23     -10.369   0.258  17.251  1.00 25.00           C
ATOM     24  CA  ARG    24     -11.117  -3.452  16.863  1.00 25.00           C
ATOM     25  CA  ARG    25      -9.796  -6.696  15.508  1.00 25.00           C
ATOM     26  CA  LYS    26      -9.872 -10.430  16.429  1.00 25.00           C
ATOM     27  CA  SER    27     -11.009 -12.219  19.619  1.00 25.00           C
ATOM     28  CA  ASP    28     -10.433 -10.035  22.733  1.00 25.00           C
ATOM     29  CA  GLY    29     -11.769  -6.889  21.128  1.00 25.00           C
ATOM     30  CA  LYS    30      -8.279  -5.325  21.649  1.00 25.00           C
ATOM     31  CA  ILE    31      -5.358  -2.921  21.011  1.00 25.00           C
ATOM     32  CA  LEU    32      -5.380  -0.519  18.135  1.00 25.00           C
ATOM     33  CA  VAL    33      -5.171   2.727  16.081  1.00 25.00           C
ATOM     34  CA  TRP    34      -6.460   2.456  12.514  1.00 25.00           C
ATOM     35  CA  LYS    35      -5.256   5.064  10.020  1.00 25.00           C
ATOM     36  CA  GLU    36      -7.970   4.528   7.494  1.00 25.00           C
ATOM     37  CA  LEU    37      -6.725   6.759   4.700  1.00 25.00           C
ATOM     38  CA  ASP    38      -9.313   7.419   1.955  1.00 25.00           C
ATOM     39  CA  TYR    39     -10.338   8.724  -1.488  1.00 25.00           C
ATOM     40  CA  GLY    40     -10.818  10.884  -4.653  1.00 25.00           C
ATOM     41  CA  SER    41     -10.986   8.619  -7.715  1.00 25.00           C
ATOM     42  CA  MET    42      -8.805   6.018  -5.995  1.00 25.00           C
ATOM     43  CA  THR    43      -5.520   5.555  -7.810  1.00 25.00           C
ATOM     44  CA  GLU    44      -4.645   9.272  -7.852  1.00 25.00           C
ATOM     45  CA  ALA    45      -0.898   8.861  -8.236  1.00 25.00           C
ATOM     46  CA  GLU    46      -1.110   9.258  -4.441  1.00 25.00           C
ATOM     47  CA  LYS    47      -2.206   5.827  -3.140  1.00 25.00           C
ATOM     48  CA  GLN    48       1.117   4.304  -4.285  1.00 25.00           C
ATOM     49  CA  MET    49       3.038   7.105  -2.518  1.00 25.00           C
ATOM     50  CA  LEU    50       1.028   6.498   0.685  1.00 25.00           C
ATOM     51  CA  VAL    51       1.785   2.748   0.476  1.00 25.00           C
ATOM     52  CA  SER    52       5.512   3.502   0.017  1.00 25.00           C
ATOM     53  CA  GLU    53       5.440   5.831   3.057  1.00 25.00           C
ATOM     54  CA  VAL    54       3.717   3.111   5.131  1.00 25.00           C
ATOM     55  CA  ASN    55       6.367   0.569   4.043  1.00 25.00           C
ATOM     56  CA  LEU    56       9.149   3.013   5.018  1.00 25.00           C
ATOM     57  CA  LEU    57       7.514   3.549   8.439  1.00 25.00           C
ATOM     58  CA  ARG    58       7.280  -0.240   8.948  1.00 25.00           C
ATOM     59  CA  GLU    59      10.977  -0.618   8.021  1.00 25.00           C
ATOM     60  CA  LEU    60      11.708   0.330  11.682  1.00 25.00           C
ATOM     61  CA  LYS    61      10.935   1.574  15.230  1.00 25.00           C
ATOM     62  CA  HIS    62      12.019   0.670  18.774  1.00 25.00           C
ATOM     63  CA  PRO    63       9.904   1.526  21.865  1.00 25.00           C
ATOM     64  CA  ASN    64      10.534   5.275  22.018  1.00 25.00           C
ATOM     65  CA  ILE    65       9.013   5.510  18.531  1.00 25.00           C
ATOM     66  CA  VAL    66       5.442   4.604  17.702  1.00 25.00           C
ATOM     67  CA  ARG    67       4.367   1.363  16.123  1.00 25.00           C
ATOM     68  CA  TYR    68       3.078  -1.052  13.502  1.00 25.00           C
ATOM     69  CA  TYR    69       1.545  -4.482  13.176  1.00 25.00           C
ATOM     70  CA  ASP    70      -0.079  -3.721   9.776  1.00 25.00           C
ATOM     71  CA  ARG    71      -2.764  -2.939   7.147  1.00 25.00           C
ATOM     72  CA  ILE    72      -5.977  -3.230   5.132  1.00 25.00           C
ATOM     73  CA  ILE    73      -6.112  -3.708   1.332  1.00 25.00           C
ATOM     74  CA  ASP    74      -9.285  -2.652  -0.495  1.00 25.00           C
ATOM     75  CA  ARG    75     -10.060  -1.613  -4.042  1.00 25.00           C
ATOM     76  CA  THR    76     -13.121   0.689  -4.478  1.00 25.00           C
ATOM     77  CA  ASN    77     -12.815   4.318  -3.404  1.00 25.00           C
ATOM     78  CA  THR    78     -10.612   2.449  -0.923  1.00 25.00           C
ATOM     79  CA  THR    79      -8.716   2.406   2.432  1.00 25.00           C
ATOM     80  CA  LEU    80      -4.910   2.219   2.507  1.00 25.00           C
ATOM     81  CA  TYR    81      -3.523   2.015   6.024  1.00 25.00           C
ATOM     82  CA  ILE    82      -1.042   1.783   8.881  1.00 25.00           C
ATOM     83  CA  VAL    83      -1.963   0.225  12.212  1.00 25.00           C
ATOM     84  CA  MET    84      -0.320   2.529  14.719  1.00 25.00           C
ATOM     85  CA  GLU    85      -0.802   1.598  18.385  1.00 25.00           C
ATOM     86  CA  TYR    86      -2.444   1.402  21.780  1.00 25.00           C
TER
END
