
#######################################################
#                                                     #
#                        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   21 (  157),  selected   21 , name T0306TS415_4_1
# Molecule2: number of CA atoms   95 (  694),  selected   95 , name T0306.pdb
# PARAMETERS: T0306TS415_4_1.T0306.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    K       2      K       2           -
LGA    -       -      L       3           -
LGA    -       -      A       4           -
LGA    -       -      V       5           -
LGA    -       -      V       6           -
LGA    -       -      T       7           -
LGA    L       3      G       8           #
LGA    A       4      Q       9           #
LGA    V       5      I      10          2.762
LGA    V       6      V      11          5.027
LGA    T       7      C      12          4.656
LGA    -       -      T      13           -
LGA    -       -      V      14           -
LGA    -       -      R      15           -
LGA    -       -      H      16           -
LGA    -       -      H      17           -
LGA    -       -      G      18           -
LGA    -       -      L      19           -
LGA    -       -      A      20           -
LGA    -       -      H      21           -
LGA    -       -      D      22           -
LGA    -       -      K      23           -
LGA    G       8      L      24          3.010
LGA    -       -      L      25           -
LGA    -       -      M      26           -
LGA    -       -      V      27           -
LGA    -       -      E      28           -
LGA    -       -      M      29           -
LGA    -       -      I      30           -
LGA    -       -      D      31           -
LGA    -       -      P      32           -
LGA    -       -      Q      33           -
LGA    -       -      G      34           -
LGA    -       -      N      35           -
LGA    -       -      P      36           -
LGA    -       -      D      37           -
LGA    -       -      G      38           -
LGA    -       -      Q      39           -
LGA    -       -      C      40           -
LGA    -       -      A      41           -
LGA    -       -      V      42           -
LGA    Q       9      A      43          4.495
LGA    I      10      I      44          1.982
LGA    V      11      D      45          2.633
LGA    -       -      N      46           -
LGA    -       -      I      47           -
LGA    -       -      G      48           -
LGA    -       -      A      49           -
LGA    -       -      G      50           -
LGA    -       -      T      51           -
LGA    -       -      G      52           -
LGA    -       -      E      53           -
LGA    -       -      W      54           -
LGA    -       -      V      55           -
LGA    -       -      L      56           -
LGA    -       -      L      57           -
LGA    -       -      V      58           -
LGA    -       -      S      59           -
LGA    -       -      G      60           -
LGA    -       -      S      61           -
LGA    -       -      S      62           -
LGA    -       -      A      63           -
LGA    -       -      R      64           -
LGA    -       -      Q      65           -
LGA    -       -      A      66           -
LGA    -       -      H      67           -
LGA    -       -      K      68           -
LGA    -       -      S      69           -
LGA    -       -      E      70           -
LGA    -       -      T      71           -
LGA    -       -      S      72           -
LGA    -       -      P      73           -
LGA    -       -      V      74           -
LGA    -       -      D      75           -
LGA    -       -      L      76           -
LGA    -       -      C      77           -
LGA    C      12      V      78          1.780
LGA    T      13      I      79          2.893
LGA    V      14      G      80          1.039
LGA    R      15      I      81          1.217
LGA    H      16      V      82          1.132
LGA    H      17      D      83          0.732
LGA    G      18      E      84          0.446
LGA    L      19      V      85          3.491
LGA    -       -      V      86           -
LGA    -       -      S      87           -
LGA    -       -      G      88           -
LGA    -       -      G      89           -
LGA    -       -      Q      90           -
LGA    -       -      V      91           -
LGA    -       -      I      92           -
LGA    A      20      F      93          3.341
LGA    -       -      H      94           -
LGA    H      21      K      95           #

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   21   95    5.0     16    2.90    12.50     12.678     0.534

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.224042 * X  +  -0.716820 * Y  +   0.660284 * Z  +  61.865665
  Y_new =   0.286192 * X  +   0.599245 * Y  +   0.747663 * Z  + -44.112789
  Z_new =  -0.931611 * X  +   0.356476 * Y  +   0.070892 * Z  + 121.029648 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.374488   -1.767105  [ DEG:    78.7523   -101.2477 ]
  Theta =   1.198821    1.942772  [ DEG:    68.6874    111.3126 ]
  Phi   =   2.234984   -0.906609  [ DEG:   128.0551    -51.9449 ]
 
# 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: T0306TS415_4_1                                
REMARK     2: T0306.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0306TS415_4_1.T0306.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   95   5.0   16   2.90   12.50  12.678
REMARK  ---------------------------------------------------------- 
MOLECULE T0306TS415_4_1
REMARK PARENT number 1
PFRMAT TS
TARGET T0306
PARENT 1aw8_A
ATOM      1  N   MET     1      37.829   9.029  81.905  1.00133.98       1SG   2
ATOM      2  CA  MET     1      38.278   9.049  80.495  1.00133.98       1SG   3
ATOM      3  CB  MET     1      37.407   8.110  79.639  1.00133.98       1SG   4
ATOM      4  CG  MET     1      35.917   8.452  79.622  1.00133.98       1SG   5
ATOM      5  SD  MET     1      34.862   7.136  78.940  1.00133.98       1SG   6
ATOM      6  CE  MET     1      35.071   6.041  80.375  1.00133.98       1SG   7
ATOM      7  C   MET     1      38.276  10.432  79.931  1.00133.98       1SG   8
ATOM      8  O   MET     1      38.984  11.307  80.427  1.00133.98       1SG   9
ATOM      9  N   LYS     2      37.481  10.682  78.874  1.00 92.90       1SG  10
ATOM     10  CA  LYS     2      37.532  11.996  78.304  1.00 92.90       1SG  11
ATOM     11  CB  LYS     2      36.760  12.140  76.981  1.00 92.90       1SG  12
ATOM     12  CG  LYS     2      37.410  11.378  75.826  1.00 92.90       1SG  13
ATOM     13  CD  LYS     2      37.380   9.861  76.010  1.00 92.90       1SG  14
ATOM     14  CE  LYS     2      38.072   9.092  74.885  1.00 92.90       1SG  15
ATOM     15  NZ  LYS     2      37.996   7.637  75.146  1.00 92.90       1SG  16
ATOM     16  C   LYS     2      36.966  12.966  79.286  1.00 92.90       1SG  17
ATOM     17  O   LYS     2      35.863  12.787  79.801  1.00 92.90       1SG  18
ATOM     18  N   LEU     3      37.758  14.011  79.600  1.00107.08       1SG  19
ATOM     19  CA  LEU     3      37.342  15.037  80.507  1.00107.08       1SG  20
ATOM     20  CB  LEU     3      38.498  15.992  80.876  1.00107.08       1SG  21
ATOM     21  CG  LEU     3      38.119  17.153  81.819  1.00107.08       1SG  22
ATOM     22  CD2 LEU     3      37.339  16.642  83.040  1.00107.08       1SG  23
ATOM     23  CD1 LEU     3      37.375  18.278  81.080  1.00107.08       1SG  24
ATOM     24  C   LEU     3      36.244  15.835  79.890  1.00107.08       1SG  25
ATOM     25  O   LEU     3      35.197  16.043  80.499  1.00107.08       1SG  26
ATOM     26  N   ALA     4      36.444  16.290  78.639  1.00 37.52       1SG  27
ATOM     27  CA  ALA     4      35.425  17.107  78.056  1.00 37.52       1SG  28
ATOM     28  CB  ALA     4      35.524  18.588  78.456  1.00 37.52       1SG  29
ATOM     29  C   ALA     4      35.571  17.047  76.577  1.00 37.52       1SG  30
ATOM     30  O   ALA     4      36.626  16.696  76.054  1.00 37.52       1SG  31
ATOM     31  N   VAL     5      34.477  17.378  75.864  1.00 41.26       1SG  32
ATOM     32  CA  VAL     5      34.516  17.345  74.436  1.00 41.26       1SG  33
ATOM     33  CB  VAL     5      33.794  16.149  73.888  1.00 41.26       1SG  34
ATOM     34  CG1 VAL     5      33.703  16.267  72.360  1.00 41.26       1SG  35
ATOM     35  CG2 VAL     5      34.523  14.883  74.374  1.00 41.26       1SG  36
ATOM     36  C   VAL     5      33.825  18.569  73.929  1.00 41.26       1SG  37
ATOM     37  O   VAL     5      32.839  19.021  74.508  1.00 41.26       1SG  38
ATOM     38  N   VAL     6      34.349  19.152  72.830  1.00120.42       1SG  39
ATOM     39  CA  VAL     6      33.682  20.272  72.240  1.00120.42       1SG  40
ATOM     40  CB  VAL     6      34.587  21.347  71.704  1.00120.42       1SG  41
ATOM     41  CG1 VAL     6      35.464  21.863  72.857  1.00120.42       1SG  42
ATOM     42  CG2 VAL     6      35.357  20.816  70.487  1.00120.42       1SG  43
ATOM     43  C   VAL     6      32.947  19.676  71.092  1.00120.42       1SG  44
ATOM     44  O   VAL     6      33.473  18.826  70.376  1.00120.42       1SG  45
ATOM     45  N   THR     7      31.686  20.080  70.893  1.00 44.99       1SG  46
ATOM     46  CA  THR     7      30.978  19.409  69.852  1.00 44.99       1SG  47
ATOM     47  CB  THR     7      29.676  18.828  70.306  1.00 44.99       1SG  48
ATOM     48  OG1 THR     7      29.889  17.899  71.358  1.00 44.99       1SG  49
ATOM     49  CG2 THR     7      29.012  18.133  69.105  1.00 44.99       1SG  50
ATOM     50  C   THR     7      30.659  20.364  68.758  1.00 44.99       1SG  51
ATOM     51  O   THR     7      30.185  21.474  68.996  1.00 44.99       1SG  52
ATOM     52  N   GLY     8      30.927  19.930  67.513  1.00 47.49       1SG  53
ATOM     53  CA  GLY     8      30.544  20.685  66.360  1.00 47.49       1SG  54
ATOM     54  C   GLY     8      31.359  21.927  66.216  1.00 47.49       1SG  55
ATOM     55  O   GLY     8      30.820  22.983  65.887  1.00 47.49       1SG  56
ATOM     56  N   GLN     9      32.678  21.867  66.460  1.00 84.55       1SG  57
ATOM     57  CA  GLN     9      33.384  23.086  66.212  1.00 84.55       1SG  58
ATOM     58  CB  GLN     9      34.861  23.112  66.634  1.00 84.55       1SG  59
ATOM     59  CG  GLN     9      35.115  23.248  68.131  1.00 84.55       1SG  60
ATOM     60  CD  GLN     9      36.566  23.689  68.251  1.00 84.55       1SG  61
ATOM     61  OE1 GLN     9      37.479  23.011  67.784  1.00 84.55       1SG  62
ATOM     62  NE2 GLN     9      36.783  24.883  68.863  1.00 84.55       1SG  63
ATOM     63  C   GLN     9      33.381  23.299  64.735  1.00 84.55       1SG  64
ATOM     64  O   GLN     9      33.401  22.349  63.954  1.00 84.55       1SG  65
ATOM     65  N   ILE    10      33.355  24.578  64.325  1.00121.68       1SG  66
ATOM     66  CA  ILE    10      33.392  24.919  62.937  1.00121.68       1SG  67
ATOM     67  CB  ILE    10      32.624  26.170  62.589  1.00121.68       1SG  68
ATOM     68  CG2 ILE    10      31.135  25.938  62.905  1.00121.68       1SG  69
ATOM     69  CG1 ILE    10      33.238  27.392  63.302  1.00121.68       1SG  70
ATOM     70  CD1 ILE    10      32.809  28.741  62.720  1.00121.68       1SG  71
ATOM     71  C   ILE    10      34.820  25.234  62.686  1.00121.68       1SG  72
ATOM     72  O   ILE    10      35.481  25.805  63.553  1.00121.68       1SG  73
ATOM     73  N   VAL    11      35.356  24.808  61.525  1.00159.08       1SG  74
ATOM     74  CA  VAL    11      36.721  25.130  61.252  1.00159.08       1SG  75
ATOM     75  CB  VAL    11      37.298  24.285  60.131  1.00159.08       1SG  76
ATOM     76  CG1 VAL    11      37.309  22.824  60.612  1.00159.08       1SG  77
ATOM     77  CG2 VAL    11      36.463  24.428  58.845  1.00159.08       1SG  78
ATOM     78  C   VAL    11      36.701  26.591  60.896  1.00159.08       1SG  79
ATOM     79  O   VAL    11      36.674  26.990  59.734  1.00159.08       1SG  80
ATOM     80  N   CYS    12      36.712  27.442  61.939  1.00124.04       1SG  81
ATOM     81  CA  CYS    12      36.597  28.858  61.776  1.00124.04       1SG  82
ATOM     82  CB  CYS    12      36.554  29.615  63.114  1.00124.04       1SG  83
ATOM     83  SG  CYS    12      36.520  31.419  62.885  1.00124.04       1SG  84
ATOM     84  C   CYS    12      37.767  29.379  61.026  1.00124.04       1SG  85
ATOM     85  O   CYS    12      37.606  30.129  60.064  1.00124.04       1SG  86
ATOM     86  N   THR    13      38.983  28.977  61.430  1.00241.10       1SG  87
ATOM     87  CA  THR    13      40.125  29.544  60.785  1.00241.10       1SG  88
ATOM     88  CB  THR    13      41.316  29.711  61.686  1.00241.10       1SG  89
ATOM     89  OG1 THR    13      42.296  30.531  61.065  1.00241.10       1SG  90
ATOM     90  CG2 THR    13      41.904  28.327  61.999  1.00241.10       1SG  91
ATOM     91  C   THR    13      40.509  28.672  59.643  1.00241.10       1SG  92
ATOM     92  O   THR    13      39.842  27.684  59.349  1.00241.10       1SG  93
ATOM     93  N   VAL    14      41.613  29.046  58.968  1.00153.49       1SG  94
ATOM     94  CA  VAL    14      42.081  28.337  57.821  1.00153.49       1SG  95
ATOM     95  CB  VAL    14      42.538  29.226  56.698  1.00153.49       1SG  96
ATOM     96  CG1 VAL    14      41.335  30.062  56.227  1.00153.49       1SG  97
ATOM     97  CG2 VAL    14      43.736  30.063  57.174  1.00153.49       1SG  98
ATOM     98  C   VAL    14      43.244  27.504  58.239  1.00153.49       1SG  99
ATOM     99  O   VAL    14      43.786  27.660  59.332  1.00153.49       1SG 100
ATOM    100  N   ARG    15      43.623  26.558  57.362  1.00166.46       1SG 101
ATOM    101  CA  ARG    15      44.665  25.617  57.638  1.00166.46       1SG 102
ATOM    102  CB  ARG    15      44.612  24.390  56.717  1.00166.46       1SG 103
ATOM    103  CG  ARG    15      43.194  23.923  56.390  1.00166.46       1SG 104
ATOM    104  CD  ARG    15      42.537  24.801  55.319  1.00166.46       1SG 105
ATOM    105  NE  ARG    15      43.490  24.861  54.171  1.00166.46       1SG 106
ATOM    106  CZ  ARG    15      43.127  25.442  52.990  1.00166.46       1SG 107
ATOM    107  NH1 ARG    15      41.881  25.978  52.842  1.00166.46       1SG 108
ATOM    108  NH2 ARG    15      44.015  25.482  51.953  1.00166.46       1SG 109
ATOM    109  C   ARG    15      45.973  26.258  57.311  1.00166.46       1SG 110
ATOM    110  O   ARG    15      46.049  27.130  56.448  1.00166.46       1SG 111
ATOM    111  N   HIS    16      47.042  25.861  58.026  1.00116.30       1SG 112
ATOM    112  CA  HIS    16      48.327  26.355  57.639  1.00116.30       1SG 113
ATOM    113  ND1 HIS    16      51.230  28.121  57.944  1.00116.30       1SG 114
ATOM    114  CG  HIS    16      49.887  28.347  57.749  1.00116.30       1SG 115
ATOM    115  CB  HIS    16      48.787  27.590  58.435  1.00116.30       1SG 116
ATOM    116  NE2 HIS    16      51.074  29.777  56.468  1.00116.30       1SG 117
ATOM    117  CD2 HIS    16      49.809  29.360  56.844  1.00116.30       1SG 118
ATOM    118  CE1 HIS    16      51.894  29.003  57.154  1.00116.30       1SG 119
ATOM    119  C   HIS    16      49.300  25.242  57.870  1.00116.30       1SG 120
ATOM    120  O   HIS    16      49.546  24.844  59.008  1.00116.30       1SG 121
ATOM    121  N   HIS    17      49.857  24.695  56.771  1.00 80.75       1SG 122
ATOM    122  CA  HIS    17      50.795  23.610  56.826  1.00 80.75       1SG 123
ATOM    123  ND1 HIS    17      53.207  24.355  54.584  1.00 80.75       1SG 124
ATOM    124  CG  HIS    17      51.856  24.083  54.549  1.00 80.75       1SG 125
ATOM    125  CB  HIS    17      51.168  23.073  55.428  1.00 80.75       1SG 126
ATOM    126  NE2 HIS    17      52.337  25.678  53.023  1.00 80.75       1SG 127
ATOM    127  CD2 HIS    17      51.342  24.900  53.588  1.00 80.75       1SG 128
ATOM    128  CE1 HIS    17      53.439  25.316  53.654  1.00 80.75       1SG 129
ATOM    129  C   HIS    17      52.071  24.064  57.466  1.00 80.75       1SG 130
ATOM    130  O   HIS    17      52.645  23.366  58.299  1.00 80.75       1SG 131
ATOM    131  N   GLY    18      52.541  25.265  57.085  1.00 37.10       1SG 132
ATOM    132  CA  GLY    18      53.813  25.790  57.505  1.00 37.10       1SG 133
ATOM    133  C   GLY    18      53.868  26.056  58.978  1.00 37.10       1SG 134
ATOM    134  O   GLY    18      54.914  25.886  59.604  1.00 37.10       1SG 135
ATOM    135  N   LEU    19      52.748  26.517  59.559  1.00137.14       1SG 136
ATOM    136  CA  LEU    19      52.706  26.943  60.929  1.00137.14       1SG 137
ATOM    137  CB  LEU    19      51.513  27.885  61.175  1.00137.14       1SG 138
ATOM    138  CG  LEU    19      51.507  28.632  62.521  1.00137.14       1SG 139
ATOM    139  CD2 LEU    19      50.157  29.326  62.756  1.00137.14       1SG 140
ATOM    140  CD1 LEU    19      52.684  29.617  62.610  1.00137.14       1SG 141
ATOM    141  C   LEU    19      52.571  25.741  61.813  1.00137.14       1SG 142
ATOM    142  O   LEU    19      52.006  24.725  61.414  1.00137.14       1SG 143
ATOM    143  N   ALA    20      53.121  25.822  63.044  1.00242.07       1SG 144
ATOM    144  CA  ALA    20      53.038  24.721  63.962  1.00242.07       1SG 145
ATOM    145  CB  ALA    20      53.977  24.855  65.172  1.00242.07       1SG 146
ATOM    146  C   ALA    20      51.639  24.640  64.485  1.00242.07       1SG 147
ATOM    147  O   ALA    20      51.036  25.657  64.824  1.00242.07       1SG 148
ATOM    148  N   HIS    21      51.106  23.406  64.595  1.00406.37       1SG 149
ATOM    149  CA  HIS    21      49.753  23.172  65.038  1.00406.37       1SG 150
ATOM    150  ND1 HIS    21      49.616  19.847  65.392  1.00406.37       1SG 151
ATOM    151  CG  HIS    21      49.784  20.741  64.357  1.00406.37       1SG 152
ATOM    152  CB  HIS    21      49.061  22.058  64.254  1.00406.37       1SG 153
ATOM    153  NE2 HIS    21      51.094  18.933  64.005  1.00406.37       1SG 154
ATOM    154  CD2 HIS    21      50.694  20.164  63.519  1.00406.37       1SG 155
ATOM    155  CE1 HIS    21      50.420  18.786  65.131  1.00406.37       1SG 156
ATOM    156  C   HIS    21      49.820  22.639  66.431  1.00406.37       1SG 157
ATOM    157  O   HIS    21      50.915  22.270  66.849  1.00406.37       1SG 158
TER
END
