
#######################################################
#                                                     #
#                        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  106 (  106),  selected  106 , name T0314TS168_4
# Molecule2: number of CA atoms  106 ( 1704),  selected  106 , name T0314.pdb
# PARAMETERS: T0314TS168_4.T0314.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    S       2      -       -           -
LGA    I       3      -       -           -
LGA    T       4      -       -           -
LGA    S       5      -       -           -
LGA    T       6      -       -           -
LGA    D       7      -       -           -
LGA    I       8      -       -           -
LGA    C       9      -       -           -
LGA    Q      10      -       -           -
LGA    A      11      -       -           -
LGA    A      12      -       -           -
LGA    D      13      -       -           -
LGA    A      14      -       -           -
LGA    L      15      -       -           -
LGA    K      16      -       -           -
LGA    G      17      -       -           -
LGA    F      18      -       -           -
LGA    V      19      -       -           -
LGA    G      20      -       -           -
LGA    F      21      -       -           -
LGA    N      22      -       -           -
LGA    R      23      -       -           -
LGA    K      24      M       1          3.469
LGA    T      25      S       2          1.632
LGA    G      26      I       3          3.448
LGA    R      27      T       4           -
LGA    Y      28      S       5           -
LGA    I      29      T       6           -
LGA    V      30      D       7           -
LGA    R      31      I       8           -
LGA    -       -      C       9           -
LGA    -       -      Q      10           -
LGA    -       -      A      11           -
LGA    F      32      A      12          4.529
LGA    S      33      D      13          2.098
LGA    -       -      A      14           -
LGA    -       -      L      15           -
LGA    E      34      K      16          2.297
LGA    D      35      G      17          3.328
LGA    -       -      F      18           -
LGA    -       -      V      19           -
LGA    -       -      G      20           -
LGA    -       -      F      21           -
LGA    -       -      N      22           -
LGA    -       -      R      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    -       -      R      27           -
LGA    -       -      Y      28           -
LGA    -       -      I      29           -
LGA    -       -      V      30           -
LGA    -       -      R      31           -
LGA    -       -      F      32           -
LGA    -       -      S      33           -
LGA    -       -      E      34           -
LGA    -       -      D      35           -
LGA    -       -      S      36           -
LGA    -       -      F      37           -
LGA    -       -      G      38           -
LGA    -       -      M      39           -
LGA    -       -      D      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      D      43           -
LGA    -       -      D      44           -
LGA    -       -      S      45           -
LGA    -       -      I      46           -
LGA    -       -      T      47           -
LGA    -       -      P      48           -
LGA    S      36      T      49          0.710
LGA    F      37      S      50           #
LGA    G      38      E      51           -
LGA    -       -      F      52           -
LGA    -       -      V      53           -
LGA    -       -      W      54           -
LGA    -       -      S      55           -
LGA    -       -      S      56           -
LGA    -       -      V      57           -
LGA    -       -      R      58           -
LGA    -       -      D      59           -
LGA    -       -      D      60           -
LGA    -       -      V      61           -
LGA    -       -      M      62           -
LGA    -       -      R      63           -
LGA    -       -      L      64           -
LGA    -       -      G      65           -
LGA    -       -      R      66           -
LGA    -       -      E      67           -
LGA    M      39      Q      68          2.872
LGA    D      40      L      69          3.467
LGA    -       -      Q      70           -
LGA    -       -      I      71           -
LGA    -       -      L      72           -
LGA    V      41      L      73          0.910
LGA    A      42      E      74          4.731
LGA    D      43      Q      75          4.797
LGA    D      44      N      76          4.790
LGA    S      45      I      77          2.614
LGA    I      46      N      78          2.981
LGA    T      47      E      79          2.120
LGA    P      48      R      80          2.722
LGA    -       -      L      81           -
LGA    T      49      N      82          2.038
LGA    S      50      I      83          3.828
LGA    E      51      G      84          0.447
LGA    -       -      E      85           -
LGA    F      52      P      86          3.385
LGA    V      53      L      87          2.459
LGA    -       -      L      88           -
LGA    W      54      V      89          4.493
LGA    S      55      Y      90          4.122
LGA    S      56      L      91           #
LGA    V      57      R      92           #
LGA    R      58      -       -           -
LGA    D      59      -       -           -
LGA    D      60      R      93          4.393
LGA    V      61      Q      94          3.415
LGA    M      62      D      95           -
LGA    R      63      -       -           -
LGA    L      64      L      96          1.886
LGA    G      65      P      97          3.085
LGA    R      66      E      98          3.872
LGA    E      67      -       -           -
LGA    Q      68      I      99          2.104
LGA    L      69      T     100          1.858
LGA    Q      70      -       -           -
LGA    I      71      -       -           -
LGA    L      72      A     101          1.492
LGA    L      73      Q     102          3.209
LGA    E      74      -       -           -
LGA    Q      75      -       -           -
LGA    N      76      R     103          1.017
LGA    I      77      Q     104          2.748
LGA    N      78      -       -           -
LGA    E      79      -       -           -
LGA    R      80      L     105          0.886
LGA    L      81      R     106          4.529
LGA    N      82      -       -           -
LGA    I      83      -       -           -
LGA    G      84      -       -           -
LGA    E      85      -       -           -
LGA    P      86      -       -           -
LGA    L      87      -       -           -
LGA    L      88      -       -           -
LGA    V      89      -       -           -
LGA    Y      90      -       -           -
LGA    L      91      -       -           -
LGA    R      92      -       -           -
LGA    R      93      -       -           -
LGA    Q      94      -       -           -
LGA    D      95      -       -           -
LGA    L      96      -       -           -
LGA    P      97      -       -           -
LGA    E      98      -       -           -
LGA    I      99      -       -           -
LGA    T     100      -       -           -
LGA    A     101      -       -           -
LGA    Q     102      -       -           -
LGA    R     103      -       -           -
LGA    Q     104      -       -           -
LGA    L     105      -       -           -
LGA    R     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106  106    5.0     38    3.11     2.63     20.316     1.182

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.315609 * X  +   0.884934 * Y  +   0.342467 * Z  +  11.101588
  Y_new =   0.808996 * X  +   0.062326 * Y  +   0.584500 * Z  +  11.704455
  Z_new =   0.495900 * X  +   0.461528 * Y  +  -0.735578 * Z  + -17.319632 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.581244   -0.560349  [ DEG:   147.8944    -32.1056 ]
  Theta =  -0.518871   -2.622722  [ DEG:   -29.7291   -150.2709 ]
  Phi   =   1.942760   -1.198833  [ DEG:   111.3120    -68.6880 ]
 
# 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: T0314TS168_4                                  
REMARK     2: T0314.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS168_4.T0314.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106  106   5.0   38   3.11    2.63  20.316
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS168_4
PFRMAT TS
TARGET T0314
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      11.699   4.049 -30.101  1.00 25.00           C
ATOM      2  CA  SER     2       9.885   7.104 -31.505  1.00 25.00           C
ATOM      3  CA  ILE     3      10.606   8.645 -28.165  1.00 25.00           C
ATOM      4  CA  THR     4       8.622  11.928 -27.879  1.00 25.00           C
ATOM      5  CA  SER     5       6.548  14.830 -26.563  1.00 25.00           C
ATOM      6  CA  THR     6       6.180  16.436 -23.106  1.00 25.00           C
ATOM      7  CA  ASP     7       3.242  14.110 -22.312  1.00 25.00           C
ATOM      8  CA  ILE     8       5.313  11.080 -23.409  1.00 25.00           C
ATOM      9  CA  CYS     9       8.213  12.225 -21.186  1.00 25.00           C
ATOM     10  CA  GLN    10       5.817  12.625 -18.225  1.00 25.00           C
ATOM     11  CA  ALA    11       4.431   9.109 -18.841  1.00 25.00           C
ATOM     12  CA  ALA    12       7.989   7.698 -18.952  1.00 25.00           C
ATOM     13  CA  ASP    13       8.822   9.472 -15.661  1.00 25.00           C
ATOM     14  CA  ALA    14       5.655   8.034 -14.056  1.00 25.00           C
ATOM     15  CA  LEU    15       6.605   4.527 -15.268  1.00 25.00           C
ATOM     16  CA  LYS    16       3.588   4.277 -17.573  1.00 25.00           C
ATOM     17  CA  GLY    17       3.188   0.669 -18.499  1.00 25.00           C
ATOM     18  CA  PHE    18       5.135  -0.781 -15.594  1.00 25.00           C
ATOM     19  CA  VAL    19       5.848  -0.446 -11.845  1.00 25.00           C
ATOM     20  CA  GLY    20       6.067  -2.877  -8.904  1.00 25.00           C
ATOM     21  CA  PHE    21       3.128  -3.230  -6.426  1.00 25.00           C
ATOM     22  CA  ASN    22       2.103  -2.384  -2.852  1.00 25.00           C
ATOM     23  CA  ARG    23       2.873  -0.866   0.552  1.00 25.00           C
ATOM     24  CA  LYS    24       4.069   2.642   1.303  1.00 25.00           C
ATOM     25  CA  THR    25       0.797   4.025  -0.097  1.00 25.00           C
ATOM     26  CA  GLY    26       1.585   3.303  -3.733  1.00 25.00           C
ATOM     27  CA  ARG    27       1.906   1.936  -7.287  1.00 25.00           C
ATOM     28  CA  TYR    28       5.749   2.071  -7.504  1.00 25.00           C
ATOM     29  CA  ILE    29       9.484   1.249  -7.836  1.00 25.00           C
ATOM     30  CA  VAL    30      10.699   3.177 -10.895  1.00 25.00           C
ATOM     31  CA  ARG    31      12.706   6.445 -10.658  1.00 25.00           C
ATOM     32  CA  PHE    32      16.040   8.152 -11.325  1.00 25.00           C
ATOM     33  CA  SER    33      17.580  10.539  -8.784  1.00 25.00           C
ATOM     34  CA  GLU    34      20.759   8.634  -9.508  1.00 25.00           C
ATOM     35  CA  ASP    35      20.809   7.002 -12.899  1.00 25.00           C
ATOM     36  CA  SER    36      18.393   7.261 -15.807  1.00 25.00           C
ATOM     37  CA  PHE    37      17.231   3.868 -14.641  1.00 25.00           C
ATOM     38  CA  GLY    38      16.802   2.535 -18.221  1.00 25.00           C
ATOM     39  CA  MET    39      13.078   2.743 -17.316  1.00 25.00           C
ATOM     40  CA  ASP    40      13.391   0.036 -14.661  1.00 25.00           C
ATOM     41  CA  VAL    41      12.018  -3.493 -14.075  1.00 25.00           C
ATOM     42  CA  ALA    42      12.412  -7.246 -13.544  1.00 25.00           C
ATOM     43  CA  ASP    43      15.555  -9.332 -13.716  1.00 25.00           C
ATOM     44  CA  ASP    44      17.837 -10.014 -10.687  1.00 25.00           C
ATOM     45  CA  SER    45      19.092  -6.655  -9.433  1.00 25.00           C
ATOM     46  CA  ILE    46      15.920  -4.549  -9.368  1.00 25.00           C
ATOM     47  CA  THR    47      16.938  -1.975  -6.684  1.00 25.00           C
ATOM     48  CA  PRO    48      19.370   0.929  -6.276  1.00 25.00           C
ATOM     49  CA  THR    49      16.687   3.119  -7.807  1.00 25.00           C
ATOM     50  CA  SER    50      15.777   5.740  -5.225  1.00 25.00           C
ATOM     51  CA  GLU    51      12.065   4.974  -5.177  1.00 25.00           C
ATOM     52  CA  PHE    52       9.505   7.462  -6.425  1.00 25.00           C
ATOM     53  CA  VAL    53       6.789   7.021  -9.065  1.00 25.00           C
ATOM     54  CA  TRP    54       3.559   5.601 -10.411  1.00 25.00           C
ATOM     55  CA  SER    55       1.856   3.122 -12.819  1.00 25.00           C
ATOM     56  CA  SER    56      -1.357   1.718 -11.378  1.00 25.00           C
ATOM     57  CA  VAL    57      -5.047   2.736 -11.045  1.00 25.00           C
ATOM     58  CA  ARG    58      -4.664   4.073 -14.613  1.00 25.00           C
ATOM     59  CA  ASP    59      -6.546   7.265 -13.646  1.00 25.00           C
ATOM     60  CA  ASP    60      -4.272   7.710 -10.595  1.00 25.00           C
ATOM     61  CA  VAL    61      -1.177   7.254 -12.806  1.00 25.00           C
ATOM     62  CA  MET    62      -2.523   9.857 -15.270  1.00 25.00           C
ATOM     63  CA  ARG    63      -3.148  12.300 -12.387  1.00 25.00           C
ATOM     64  CA  LEU    64       0.418  11.738 -11.106  1.00 25.00           C
ATOM     65  CA  GLY    65       1.807  12.381 -14.617  1.00 25.00           C
ATOM     66  CA  ARG    66      -0.239  15.610 -14.860  1.00 25.00           C
ATOM     67  CA  GLU    67       1.085  16.735 -11.448  1.00 25.00           C
ATOM     68  CA  GLN    68       4.673  16.006 -12.572  1.00 25.00           C
ATOM     69  CA  LEU    69       4.106  18.024 -15.777  1.00 25.00           C
ATOM     70  CA  GLN    70       2.717  20.943 -13.723  1.00 25.00           C
ATOM     71  CA  ILE    71       5.769  20.801 -11.413  1.00 25.00           C
ATOM     72  CA  LEU    72       8.100  20.822 -14.453  1.00 25.00           C
ATOM     73  CA  LEU    73       6.241  23.847 -15.888  1.00 25.00           C
ATOM     74  CA  GLU    74       6.558  25.666 -12.534  1.00 25.00           C
ATOM     75  CA  GLN    75      10.309  24.900 -12.445  1.00 25.00           C
ATOM     76  CA  ASN    76      10.692  26.237 -16.013  1.00 25.00           C
ATOM     77  CA  ILE    77       8.810  29.429 -15.045  1.00 25.00           C
ATOM     78  CA  ASN    78      11.084  29.874 -11.995  1.00 25.00           C
ATOM     79  CA  GLU    79      14.178  29.417 -14.205  1.00 25.00           C
ATOM     80  CA  ARG    80      12.833  32.021 -16.670  1.00 25.00           C
ATOM     81  CA  LEU    81      12.208  34.464 -13.787  1.00 25.00           C
ATOM     82  CA  ASN    82      15.500  33.956 -11.867  1.00 25.00           C
ATOM     83  CA  ILE    83      18.047  32.724 -14.361  1.00 25.00           C
ATOM     84  CA  GLY    84      19.510  31.509 -17.686  1.00 25.00           C
ATOM     85  CA  GLU    85      20.734  28.161 -18.915  1.00 25.00           C
ATOM     86  CA  PRO    86      22.204  24.669 -18.356  1.00 25.00           C
ATOM     87  CA  LEU    87      19.191  23.092 -20.115  1.00 25.00           C
ATOM     88  CA  LEU    88      19.623  25.498 -23.064  1.00 25.00           C
ATOM     89  CA  VAL    89      23.340  24.606 -23.279  1.00 25.00           C
ATOM     90  CA  TYR    90      22.472  20.876 -23.257  1.00 25.00           C
ATOM     91  CA  LEU    91      19.910  21.430 -26.049  1.00 25.00           C
ATOM     92  CA  ARG    92      22.523  23.334 -28.101  1.00 25.00           C
ATOM     93  CA  ARG    93      25.032  20.485 -27.596  1.00 25.00           C
ATOM     94  CA  GLN    94      27.642  20.470 -30.340  1.00 25.00           C
ATOM     95  CA  ASP    95      27.716  23.825 -32.165  1.00 25.00           C
ATOM     96  CA  LEU    96      24.635  24.587 -34.319  1.00 25.00           C
ATOM     97  CA  PRO    97      24.508  24.078 -38.112  1.00 25.00           C
ATOM     98  CA  GLU    98      26.484  21.092 -39.470  1.00 25.00           C
ATOM     99  CA  ILE    99      24.605  18.740 -37.103  1.00 25.00           C
ATOM    100  CA  THR   100      21.262  20.208 -38.261  1.00 25.00           C
ATOM    101  CA  ALA   101      22.284  19.716 -41.919  1.00 25.00           C
ATOM    102  CA  GLN   102      23.252  16.083 -41.184  1.00 25.00           C
ATOM    103  CA  ARG   103      19.875  15.502 -39.476  1.00 25.00           C
ATOM    104  CA  GLN   104      18.060  17.001 -42.497  1.00 25.00           C
ATOM    105  CA  LEU   105      17.729  14.544 -45.387  1.00 25.00           C
ATOM    106  CA  ARG   106      15.717  12.210 -43.181  1.00 25.00           C
TER
END
