
#######################################################
#                                                     #
#                        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   97 (   97),  selected   97 , name T0360TS168_5-D1
# Molecule2: number of CA atoms   97 (  785),  selected   97 , name T0360_D1.pdb
# PARAMETERS: T0360TS168_5-D1.T0360_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      K      20           -
LGA    -       -      K      21           -
LGA    -       -      K      22           -
LGA    -       -      Q      23           -
LGA    -       -      T      24           -
LGA    -       -      E      25           -
LGA    -       -      M      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    K      20      D      29           #
LGA    K      21      H      30           -
LGA    K      22      I      31           -
LGA    Q      23      Y      32           #
LGA    T      24      G      33          3.442
LGA    E      25      -       -           -
LGA    M      26      K      34           #
LGA    I      27      Y      35           #
LGA    A      28      D      36           #
LGA    D      29      -       -           -
LGA    H      30      -       -           -
LGA    I      31      -       -           -
LGA    Y      32      -       -           -
LGA    G      33      -       -           -
LGA    K      34      -       -           -
LGA    Y      35      -       -           -
LGA    D      36      -       -           -
LGA    V      37      -       -           -
LGA    F      38      V      37           #
LGA    K      39      F      38           -
LGA    R      40      K      39           -
LGA    F      41      R      40           -
LGA    K      42      F      41           -
LGA    -       -      K      42           -
LGA    -       -      P      43           -
LGA    -       -      L      44           -
LGA    P      43      A      45          3.657
LGA    L      44      L      46           #
LGA    A      45      -       -           -
LGA    L      46      -       -           -
LGA    G      47      G      47          2.933
LGA    I      48      I      48          0.617
LGA    D      49      D      49          2.130
LGA    Q      50      Q      50          3.291
LGA    D      51      D      51          3.223
LGA    L      52      L      52          3.199
LGA    I      53      I      53          4.761
LGA    A      54      -       -           -
LGA    A      55      -       -           -
LGA    L      56      A      54           #
LGA    P      57      A      55           -
LGA    -       -      L      56           -
LGA    -       -      P      57           -
LGA    Q      58      Q      58           #
LGA    Y      59      Y      59          2.218
LGA    D      60      D      60          1.925
LGA    A      61      A      61          2.134
LGA    A      62      A      62          1.134
LGA    L      63      L      63          1.268
LGA    I      64      I      64          1.583
LGA    A      65      A      65          1.255
LGA    R      66      R      66          0.844
LGA    V      67      V      67          0.612
LGA    L      68      L      68          1.044
LGA    A      69      A      69          1.662
LGA    N      70      N      70          1.503
LGA    H      71      H      71          1.147
LGA    C      72      C      72          2.054
LGA    R      73      R      73          2.204
LGA    R      74      R      74          1.883
LGA    -       -      P      75           -
LGA    P      75      R      76          3.994
LGA    R      76      Y      77          3.254
LGA    Y      77      L      78          2.507
LGA    L      78      K      79          2.722
LGA    K      79      A      80          3.017
LGA    A      80      L      81           #
LGA    L      81      A      82           #
LGA    A      82      -       -           -
LGA    R      83      R      83          4.158
LGA    G      84      -       -           -
LGA    G      85      -       -           -
LGA    K      86      -       -           -
LGA    R      87      -       -           -
LGA    F      88      -       -           -
LGA    D      89      -       -           -
LGA    L      90      -       -           -
LGA    N      91      -       -           -
LGA    N      92      -       -           -
LGA    R      93      -       -           -
LGA    F      94      -       -           -
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    E      97      G      84           #
LGA    V      98      G      85          4.794
LGA    T      99      K      86           -
LGA    -       -      R      87           -
LGA    -       -      F      88           -
LGA    -       -      D      89           -
LGA    -       -      L      90           -
LGA    -       -      N      91           -
LGA    -       -      N      92           -
LGA    -       -      R      93           -
LGA    -       -      F      94           -
LGA    -       -      K      95           -
LGA    -       -      G      96           -
LGA    -       -      E      97           -
LGA    -       -      V      98           -
LGA    -       -      T      99           -
LGA    P     100      P     100          3.556
LGA    E     101      E     101          3.092
LGA    -       -      E     102           -
LGA    E     102      Q     103          1.491
LGA    Q     103      A     104          2.626
LGA    A     104      I     105          1.911
LGA    I     105      A     106          3.668
LGA    A     106      Q     107          4.644
LGA    Q     107      N     108          3.918
LGA    N     108      H     109          2.544
LGA    H     109      P     110          3.768
LGA    P     110      F     111           -
LGA    F     111      V     112           -
LGA    V     112      Q     113           -
LGA    Q     113      Q     114           -
LGA    Q     114      A     115           -
LGA    A     115      L     116           -
LGA    L     116      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   97   97    5.0     42    2.80    61.90     28.985     1.447

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.373655 * X  +  -0.000511 * Y  +   0.927568 * Z  + -73.852821
  Y_new =   0.178400 * X  +   0.981290 * Y  +   0.072406 * Z  +   3.621790
  Z_new =  -0.910250 * X  +   0.192533 * Y  +  -0.366573 * Z  + -15.787177 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.657970   -0.483623  [ DEG:   152.2905    -27.7095 ]
  Theta =   1.143888    1.997705  [ DEG:    65.5400    114.4600 ]
  Phi   =   2.696151   -0.445442  [ DEG:   154.4780    -25.5220 ]
 
# 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: T0360TS168_5-D1                               
REMARK     2: T0360_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0360TS168_5-D1.T0360_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   97   97   5.0   42   2.80   61.90  28.985
REMARK  ---------------------------------------------------------- 
MOLECULE T0360TS168_5-D1
PFRMAT TS
TARGET T0360
MODEL 5
PARENT N/A
ATOM     20  CA  LYS    20     -74.870  -9.801  -3.899  1.00 25.00           C
ATOM     21  CA  LYS    21     -73.655 -13.239  -5.071  1.00 25.00           C
ATOM     22  CA  LYS    22     -77.279 -14.403  -5.490  1.00 25.00           C
ATOM     23  CA  GLN    23     -78.082 -11.256  -7.519  1.00 25.00           C
ATOM     24  CA  THR    24     -75.026 -11.878  -9.741  1.00 25.00           C
ATOM     25  CA  GLU    25     -76.131 -15.504 -10.287  1.00 25.00           C
ATOM     26  CA  MET    26     -79.650 -14.317 -11.221  1.00 25.00           C
ATOM     27  CA  ILE    27     -78.169 -11.797 -13.698  1.00 25.00           C
ATOM     28  CA  ALA    28     -76.011 -14.555 -15.250  1.00 25.00           C
ATOM     29  CA  ASP    29     -79.088 -16.811 -15.582  1.00 25.00           C
ATOM     30  CA  HIS    30     -81.025 -13.964 -17.260  1.00 25.00           C
ATOM     31  CA  ILE    31     -78.121 -13.392 -19.692  1.00 25.00           C
ATOM     32  CA  TYR    32     -78.041 -17.131 -20.515  1.00 25.00           C
ATOM     33  CA  GLY    33     -74.560 -17.943 -21.703  1.00 25.00           C
ATOM     34  CA  LYS    34     -73.163 -14.869 -19.946  1.00 25.00           C
ATOM     35  CA  TYR    35     -69.637 -13.820 -21.011  1.00 25.00           C
ATOM     36  CA  ASP    36     -70.356 -14.956 -24.597  1.00 25.00           C
ATOM     37  CA  VAL    37     -73.623 -12.958 -24.602  1.00 25.00           C
ATOM     38  CA  PHE    38     -71.762  -9.863 -23.329  1.00 25.00           C
ATOM     39  CA  LYS    39     -69.131 -10.283 -26.081  1.00 25.00           C
ATOM     40  CA  ARG    40     -71.897 -10.579 -28.713  1.00 25.00           C
ATOM     41  CA  PHE    41     -73.558  -7.404 -27.362  1.00 25.00           C
ATOM     42  CA  LYS    42     -70.939  -5.704 -29.537  1.00 25.00           C
ATOM     43  CA  PRO    43     -70.713  -2.270 -28.033  1.00 25.00           C
ATOM     44  CA  LEU    44     -70.687  -0.619 -31.508  1.00 25.00           C
ATOM     45  CA  ALA    45     -74.135  -2.131 -32.209  1.00 25.00           C
ATOM     46  CA  LEU    46     -75.612   1.417 -32.399  1.00 25.00           C
ATOM     47  CA  GLY    47     -75.379   1.202 -28.637  1.00 25.00           C
ATOM     48  CA  ILE    48     -74.872   0.981 -24.817  1.00 25.00           C
ATOM     49  CA  ASP    49     -76.386   3.970 -22.960  1.00 25.00           C
ATOM     50  CA  GLN    50     -78.818   4.569 -25.858  1.00 25.00           C
ATOM     51  CA  ASP    51     -79.828   0.875 -25.807  1.00 25.00           C
ATOM     52  CA  LEU    52     -80.412   1.062 -22.026  1.00 25.00           C
ATOM     53  CA  ILE    53     -82.566   4.195 -22.490  1.00 25.00           C
ATOM     54  CA  ALA    54     -84.601   2.423 -25.208  1.00 25.00           C
ATOM     55  CA  ALA    55     -85.107  -0.591 -22.900  1.00 25.00           C
ATOM     56  CA  LEU    56     -88.833  -0.493 -21.996  1.00 25.00           C
ATOM     57  CA  PRO    57     -92.478   0.168 -22.564  1.00 25.00           C
ATOM     58  CA  GLN    58     -92.976   1.884 -19.157  1.00 25.00           C
ATOM     59  CA  TYR    59     -90.241   0.165 -17.152  1.00 25.00           C
ATOM     60  CA  ASP    60     -89.134   3.596 -15.934  1.00 25.00           C
ATOM     61  CA  ALA    61     -86.341   3.112 -18.384  1.00 25.00           C
ATOM     62  CA  ALA    62     -85.087   6.601 -17.426  1.00 25.00           C
ATOM     63  CA  LEU    63     -84.060   5.311 -13.970  1.00 25.00           C
ATOM     64  CA  ILE    64     -82.193   2.385 -15.590  1.00 25.00           C
ATOM     65  CA  ALA    65     -80.390   4.808 -17.945  1.00 25.00           C
ATOM     66  CA  ARG    66     -79.407   7.009 -14.969  1.00 25.00           C
ATOM     67  CA  VAL    67     -78.073   3.939 -13.109  1.00 25.00           C
ATOM     68  CA  LEU    68     -76.043   2.922 -16.193  1.00 25.00           C
ATOM     69  CA  ALA    69     -74.604   6.462 -16.445  1.00 25.00           C
ATOM     70  CA  ASN    70     -73.656   6.366 -12.735  1.00 25.00           C
ATOM     71  CA  HIS    71     -71.946   2.975 -13.235  1.00 25.00           C
ATOM     72  CA  CYS    72     -70.010   4.365 -16.232  1.00 25.00           C
ATOM     73  CA  ARG    73     -68.914   7.389 -14.154  1.00 25.00           C
ATOM     74  CA  ARG    74     -67.753   5.067 -11.339  1.00 25.00           C
ATOM     75  CA  PRO    75     -65.775   2.965 -13.858  1.00 25.00           C
ATOM     76  CA  ARG    76     -64.145   6.135 -15.260  1.00 25.00           C
ATOM     77  CA  TYR    77     -63.213   7.251 -11.717  1.00 25.00           C
ATOM     78  CA  LEU    78     -61.688   3.811 -11.007  1.00 25.00           C
ATOM     79  CA  LYS    79     -59.673   4.006 -14.258  1.00 25.00           C
ATOM     80  CA  ALA    80     -58.420   7.495 -13.301  1.00 25.00           C
ATOM     81  CA  LEU    81     -57.392   6.205  -9.845  1.00 25.00           C
ATOM     82  CA  ALA    82     -55.525   3.280 -11.464  1.00 25.00           C
ATOM     83  CA  ARG    83     -54.409   1.451 -14.585  1.00 25.00           C
ATOM     84  CA  GLY    84     -54.729  -2.038 -13.033  1.00 25.00           C
ATOM     85  CA  GLY    85     -58.468  -1.296 -13.296  1.00 25.00           C
ATOM     86  CA  LYS    86     -60.051  -4.709 -14.163  1.00 25.00           C
ATOM     87  CA  ARG    87     -57.572  -7.437 -13.190  1.00 25.00           C
ATOM     88  CA  PHE    88     -59.553 -10.655 -13.642  1.00 25.00           C
ATOM     89  CA  ASP    89     -56.598 -13.015 -13.718  1.00 25.00           C
ATOM     90  CA  LEU    90     -55.972 -11.850 -17.300  1.00 25.00           C
ATOM     91  CA  ASN    91     -54.505 -13.838 -20.173  1.00 25.00           C
ATOM     92  CA  ASN    92     -54.111 -12.404 -23.693  1.00 25.00           C
ATOM     93  CA  ARG    93     -52.608  -9.146 -25.097  1.00 25.00           C
ATOM     94  CA  PHE    94     -53.392  -7.125 -28.265  1.00 25.00           C
ATOM     95  CA  LYS    95     -50.815  -5.393 -30.478  1.00 25.00           C
ATOM     96  CA  GLY    96     -51.508  -1.767 -29.406  1.00 25.00           C
ATOM     97  CA  GLU    97     -52.778  -0.376 -26.102  1.00 25.00           C
ATOM     98  CA  VAL    98     -54.029   2.360 -23.762  1.00 25.00           C
ATOM     99  CA  THR    99     -53.468   5.966 -22.798  1.00 25.00           C
ATOM    100  CA  PRO   100     -54.736   9.386 -23.722  1.00 25.00           C
ATOM    101  CA  GLU   101     -58.405   8.868 -24.690  1.00 25.00           C
ATOM    102  CA  GLU   102     -59.042   7.030 -21.390  1.00 25.00           C
ATOM    103  CA  GLN   103     -57.391   9.890 -19.451  1.00 25.00           C
ATOM    104  CA  ALA   104     -59.566  12.438 -21.306  1.00 25.00           C
ATOM    105  CA  ILE   105     -62.701  10.396 -20.484  1.00 25.00           C
ATOM    106  CA  ALA   106     -61.675  10.261 -16.797  1.00 25.00           C
ATOM    107  CA  GLN   107     -61.136  14.052 -16.781  1.00 25.00           C
ATOM    108  CA  ASN   108     -60.794  15.877 -13.477  1.00 25.00           C
ATOM    109  CA  HIS   109     -62.672  14.552 -10.488  1.00 25.00           C
ATOM    110  CA  PRO   110     -62.409  18.027  -8.866  1.00 25.00           C
ATOM    111  CA  PHE   111     -65.360  16.977  -6.662  1.00 25.00           C
ATOM    112  CA  VAL   112     -66.914  20.457  -7.043  1.00 25.00           C
ATOM    113  CA  GLN   113     -66.491  20.257 -10.844  1.00 25.00           C
ATOM    114  CA  GLN   114     -68.151  16.806 -10.872  1.00 25.00           C
ATOM    115  CA  ALA   115     -71.065  18.163  -8.790  1.00 25.00           C
ATOM    116  CA  LEU   116     -71.460  21.102 -11.213  1.00 25.00           C
TER
END
