
#######################################################
#                                                     #
#                        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 T0292TS168_5-D1
# Molecule2: number of CA atoms   77 (  591),  selected   77 , name T0292_D1.pdb
# PARAMETERS: T0292TS168_5-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          4.831
LGA    R       2      R       2          2.705
LGA    A       3      A       3          3.172
LGA    E       4      E       4          3.484
LGA    D       5      D       5          4.483
LGA    Y       6      Y       6          3.483
LGA    E       7      E       7          2.916
LGA    V       8      V       8          2.770
LGA    L       9      L       9          3.788
LGA    Y      10      Y      10          1.590
LGA    T      11      T      11          2.826
LGA    I      12      I      12          1.181
LGA    G      13      G      13          1.543
LGA    T      14      T      14          2.546
LGA    G      15      G      15          4.045
LGA    S      16      S      16          3.202
LGA    Y      17      Y      17          3.251
LGA    G      18      G      18          4.363
LGA    R      19      R      19          1.603
LGA    C      20      C      20          1.820
LGA    Q      21      Q      21          1.566
LGA    K      22      K      22          1.114
LGA    I      23      I      23          0.665
LGA    R      24      R      24          2.166
LGA    R      25      R      25          0.460
LGA    K      26      K      26          2.131
LGA    S      27      S      27          4.363
LGA    D      28      D      28          2.667
LGA    G      29      G      29          1.515
LGA    K      30      K      30          0.768
LGA    I      31      I      31          1.670
LGA    L      32      L      32          1.808
LGA    V      33      V      33          1.253
LGA    W      34      W      34          2.682
LGA    K      35      K      35          1.600
LGA    E      36      E      36          0.686
LGA    L      37      L      37          0.809
LGA    D      38      D      38          1.413
LGA    Y      39      Y      39          1.967
LGA    G      40      G      40          1.622
LGA    S      41      S      41          3.352
LGA    M      42      M      42          4.222
LGA    T      43      T      43          2.517
LGA    E      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      -       -           -
LGA    K      47      -       -           -
LGA    Q      48      -       -           -
LGA    M      49      M      49          2.441
LGA    L      50      L      50          2.202
LGA    V      51      V      51          1.538
LGA    S      52      S      52          1.449
LGA    E      53      E      53          1.415
LGA    V      54      V      54          1.232
LGA    N      55      N      55          1.548
LGA    L      56      L      56          1.805
LGA    L      57      L      57          1.242
LGA    R      58      R      58          0.714
LGA    E      59      E      59          1.055
LGA    L      60      L      60          2.179
LGA    K      61      K      61          3.366
LGA    H      62      H      62          4.000
LGA    P      63      P      63          4.059
LGA    N      64      N      64          3.775
LGA    I      65      I      65          1.986
LGA    V      66      V      66          1.051
LGA    R      67      R      67          3.651
LGA    Y      68      Y      68          0.868
LGA    Y      69      Y      69          1.305
LGA    D      70      D      70          1.668
LGA    R      71      R      71          1.349
LGA    I      72      I      72          1.030
LGA    I      73      I      73          3.369
LGA    D      74      D      74          4.292
LGA    R      75      -       -           -
LGA    T      76      -       -           -
LGA    N      77      -       -           -
LGA    T      78      -       -           -
LGA    T      79      T      79          2.313
LGA    L      80      L      80          0.657
LGA    Y      81      Y      81          2.409
LGA    I      82      I      82          2.303
LGA    V      83      V      83          1.213
LGA    M      84      M      84          0.762
LGA    E      85      E      85          1.463
LGA    Y      86      Y      86          1.977

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   86   77    5.0     77    2.48   100.00     72.237     2.980

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.780975 * X  +   0.507815 * Y  +   0.363596 * Z  +   5.327224
  Y_new =  -0.008373 * X  +  -0.590621 * Y  +   0.806905 * Z  +  15.358187
  Z_new =   0.624506 * X  +   0.627128 * Y  +   0.465513 * Z  +  16.379169 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.932246   -2.209347  [ DEG:    53.4138   -126.5862 ]
  Theta =  -0.674499   -2.467093  [ DEG:   -38.6460   -141.3540 ]
  Phi   =  -3.130871    0.010721  [ DEG:  -179.3857      0.6143 ]
 
# 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: T0292TS168_5-D1                               
REMARK     2: T0292_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0292TS168_5-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   2.48  100.00  72.237
REMARK  ---------------------------------------------------------- 
MOLECULE T0292TS168_5-D1
PFRMAT TS
TARGET T0292
MODEL 5
PARENT N/A
ATOM      1  CA  SER     1     -10.707  -8.823   5.174  1.00 25.00           C
ATOM      2  CA  ARG     2     -11.369  -6.915   8.405  1.00 25.00           C
ATOM      3  CA  ALA     3     -14.129  -5.052   6.642  1.00 25.00           C
ATOM      4  CA  GLU     4     -17.293  -5.584   8.655  1.00 25.00           C
ATOM      5  CA  ASP     5     -15.692  -8.495  10.448  1.00 25.00           C
ATOM      6  CA  TYR     6     -14.905  -6.042  13.293  1.00 25.00           C
ATOM      7  CA  GLU     7     -16.470  -2.517  13.430  1.00 25.00           C
ATOM      8  CA  VAL     8     -17.350   0.697  15.345  1.00 25.00           C
ATOM      9  CA  LEU     9     -16.478   4.369  16.012  1.00 25.00           C
ATOM     10  CA  TYR    10     -15.350   5.776  19.338  1.00 25.00           C
ATOM     11  CA  THR    11     -13.266   8.900  18.698  1.00 25.00           C
ATOM     12  CA  ILE    12      -9.659  10.183  18.688  1.00 25.00           C
ATOM     13  CA  GLY    13     -10.617  12.960  16.279  1.00 25.00           C
ATOM     14  CA  THR    14      -8.880  15.032  13.550  1.00 25.00           C
ATOM     15  CA  GLY    15      -5.464  16.060  12.191  1.00 25.00           C
ATOM     16  CA  SER    16      -6.434  16.401   8.531  1.00 25.00           C
ATOM     17  CA  TYR    17      -3.761  13.969   7.506  1.00 25.00           C
ATOM     18  CA  GLY    18      -4.970  10.466   8.184  1.00 25.00           C
ATOM     19  CA  ARG    19      -8.326  10.139   9.948  1.00 25.00           C
ATOM     20  CA  CYS    20      -6.528   9.266  13.185  1.00 25.00           C
ATOM     21  CA  GLN    21      -9.087   6.983  14.718  1.00 25.00           C
ATOM     22  CA  LYS    22     -10.522   4.216  16.970  1.00 25.00           C
ATOM     23  CA  ILE    23     -11.010   0.429  17.267  1.00 25.00           C
ATOM     24  CA  ARG    24     -11.325  -3.368  16.730  1.00 25.00           C
ATOM     25  CA  ARG    25      -9.269  -6.534  16.810  1.00 25.00           C
ATOM     26  CA  LYS    26     -10.350 -10.026  15.572  1.00 25.00           C
ATOM     27  CA  SER    27     -12.771 -10.867  18.426  1.00 25.00           C
ATOM     28  CA  ASP    28     -10.194 -12.134  20.834  1.00 25.00           C
ATOM     29  CA  GLY    29      -8.839  -8.874  22.361  1.00 25.00           C
ATOM     30  CA  LYS    30      -6.630  -5.788  22.132  1.00 25.00           C
ATOM     31  CA  ILE    31      -6.324  -2.447  20.336  1.00 25.00           C
ATOM     32  CA  LEU    32      -5.945  -0.877  16.956  1.00 25.00           C
ATOM     33  CA  VAL    33      -6.354   2.341  15.002  1.00 25.00           C
ATOM     34  CA  TRP    34      -8.984   2.557  12.225  1.00 25.00           C
ATOM     35  CA  LYS    35      -6.245   4.588  10.502  1.00 25.00           C
ATOM     36  CA  GLU    36      -8.569   5.286   7.499  1.00 25.00           C
ATOM     37  CA  LEU    37      -7.669   6.701   4.075  1.00 25.00           C
ATOM     38  CA  ASP    38     -10.277   6.935   1.313  1.00 25.00           C
ATOM     39  CA  TYR    39      -8.068   8.428  -1.372  1.00 25.00           C
ATOM     40  CA  GLY    40     -10.214   8.726  -4.516  1.00 25.00           C
ATOM     41  CA  SER    41      -8.448   8.286  -7.839  1.00 25.00           C
ATOM     42  CA  MET    42      -5.802   6.037  -6.244  1.00 25.00           C
ATOM     43  CA  THR    43      -3.509   7.799  -8.788  1.00 25.00           C
ATOM     44  CA  GLU    44      -0.397   9.416 -10.352  1.00 25.00           C
ATOM     45  CA  ALA    45       1.510   7.698  -7.530  1.00 25.00           C
ATOM     46  CA  GLU    46      -0.214   8.695  -4.259  1.00 25.00           C
ATOM     47  CA  LYS    47      -0.948   5.014  -3.497  1.00 25.00           C
ATOM     48  CA  GLN    48       2.713   4.117  -4.174  1.00 25.00           C
ATOM     49  CA  MET    49       3.859   6.931  -1.842  1.00 25.00           C
ATOM     50  CA  LEU    50       1.482   5.671   0.885  1.00 25.00           C
ATOM     51  CA  VAL    51       2.845   2.117   0.465  1.00 25.00           C
ATOM     52  CA  SER    52       6.431   3.432   0.743  1.00 25.00           C
ATOM     53  CA  GLU    53       5.506   5.351   3.926  1.00 25.00           C
ATOM     54  CA  VAL    54       3.924   2.191   5.402  1.00 25.00           C
ATOM     55  CA  ASN    55       7.081   0.191   4.566  1.00 25.00           C
ATOM     56  CA  LEU    56       9.250   2.867   6.240  1.00 25.00           C
ATOM     57  CA  LEU    57       7.022   2.759   9.353  1.00 25.00           C
ATOM     58  CA  ARG    58       7.311  -1.059   9.458  1.00 25.00           C
ATOM     59  CA  GLU    59      11.121  -0.804   9.167  1.00 25.00           C
ATOM     60  CA  LEU    60      11.649   1.685  12.047  1.00 25.00           C
ATOM     61  CA  LYS    61      11.250   1.129  15.789  1.00 25.00           C
ATOM     62  CA  HIS    62      12.881   3.489  18.297  1.00 25.00           C
ATOM     63  CA  PRO    63      10.672   4.374  21.228  1.00 25.00           C
ATOM     64  CA  ASN    64       9.227   7.506  19.721  1.00 25.00           C
ATOM     65  CA  ILE    65       7.953   5.469  16.791  1.00 25.00           C
ATOM     66  CA  VAL    66       4.938   3.427  17.771  1.00 25.00           C
ATOM     67  CA  ARG    67       3.674   3.589  14.144  1.00 25.00           C
ATOM     68  CA  TYR    68       3.706  -0.092  13.057  1.00 25.00           C
ATOM     69  CA  TYR    69       1.508  -3.103  12.303  1.00 25.00           C
ATOM     70  CA  ASP    70      -0.082  -4.605   9.156  1.00 25.00           C
ATOM     71  CA  ARG    71      -1.192  -2.541   6.151  1.00 25.00           C
ATOM     72  CA  ILE    72      -4.841  -2.605   5.184  1.00 25.00           C
ATOM     73  CA  ILE    73      -4.324  -3.773   1.548  1.00 25.00           C
ATOM     74  CA  ASP    74      -7.894  -4.664   0.613  1.00 25.00           C
ATOM     75  CA  ARG    75      -9.491  -3.181  -2.509  1.00 25.00           C
ATOM     76  CA  THR    76     -12.651  -1.419  -3.843  1.00 25.00           C
ATOM     77  CA  ASN    77     -10.130   0.705  -5.754  1.00 25.00           C
ATOM     78  CA  THR    78      -9.678   3.400  -3.133  1.00 25.00           C
ATOM     79  CA  THR    79      -8.543   2.055   0.224  1.00 25.00           C
ATOM     80  CA  LEU    80      -6.212   1.993   3.213  1.00 25.00           C
ATOM     81  CA  TYR    81      -3.990   1.956   6.272  1.00 25.00           C
ATOM     82  CA  ILE    82      -0.764   2.362   8.267  1.00 25.00           C
ATOM     83  CA  VAL    83      -2.778   1.031  11.172  1.00 25.00           C
ATOM     84  CA  MET    84      -0.960   0.908  14.565  1.00 25.00           C
ATOM     85  CA  GLU    85       0.571   0.686  18.026  1.00 25.00           C
ATOM     86  CA  TYR    86      -1.776   1.938  20.799  1.00 25.00           C
TER
END
