
#######################################################
#                                                     #
#                        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  151 (  151),  selected  151 , name T0362TS168_1
# Molecule2: number of CA atoms  144 ( 1169),  selected  144 , name T0362.pdb
# PARAMETERS: T0362TS168_1.T0362.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    N       2      -       -           -
LGA    P       3      M       1           #
LGA    E       4      N       2           #
LGA    N       5      P       3           #
LGA    W       6      E       4          1.739
LGA    -       -      N       5           -
LGA    -       -      W       6           -
LGA    L       7      L       7          5.203
LGA    L       8      L       8          2.577
LGA    L       9      L       9          3.133
LGA    R      10      R      10          1.461
LGA    R      11      R      11          2.172
LGA    V      12      V      12          3.726
LGA    V      13      V      13          3.140
LGA    R      14      R      14          4.339
LGA    F      15      F      15           #
LGA    G      16      G      16          1.241
LGA    D      17      D      17          2.376
LGA    T      18      T      18          2.334
LGA    D      19      D      19           #
LGA    A      20      A      20           #
LGA    A      21      A      21           -
LGA    G      22      G      22           -
LGA    V      23      V      23           -
LGA    M      24      M      24           #
LGA    H      25      H      25          1.887
LGA    F      26      F      26          1.544
LGA    H      27      H      27          2.736
LGA    Q      28      Q      28          2.011
LGA    L      29      L      29          1.453
LGA    F      30      F      30          1.760
LGA    R      31      R      31          1.706
LGA    W      32      W      32          1.145
LGA    C      33      C      33          1.134
LGA    H      34      H      34          1.541
LGA    E      35      E      35          1.104
LGA    S      36      S      36          0.346
LGA    W      37      W      37          1.079
LGA    E      38      E      38          0.880
LGA    E      39      E      39          0.392
LGA    S      40      S      40          1.295
LGA    L      41      L      41          1.876
LGA    E      42      E      42          1.346
LGA    S      43      S      43          2.392
LGA    Y      44      Y      44          3.408
LGA    G      45      G      45          4.697
LGA    L      46      L      46          4.435
LGA    N      47      N      47          2.679
LGA    P      48      P      48          0.853
LGA    A      49      A      49          3.102
LGA    D      50      -       -           -
LGA    I      51      -       -           -
LGA    F      52      -       -           -
LGA    P      53      -       -           -
LGA    G      54      -       -           -
LGA    S      55      D      50          2.960
LGA    R      56      I      51           #
LGA    -       -      F      52           -
LGA    -       -      P      53           -
LGA    -       -      G      54           -
LGA    -       -      S      55           -
LGA    -       -      R      56           -
LGA    -       -      K      57           -
LGA    K      57      S      58          3.769
LGA    S      58      E      59          5.304
LGA    E      59      V      60          4.801
LGA    V      60      -       -           -
LGA    T      61      T      61          5.302
LGA    P      62      P      62          2.484
LGA    E      63      E      63          4.134
LGA    V      64      V      64          3.962
LGA    A      65      A      65           #
LGA    L      66      L      66          5.473
LGA    P      67      P      67          2.544
LGA    I      68      I      68          2.372
LGA    I      69      I      69          4.260
LGA    H      70      H      70          1.559
LGA    C      71      C      71          1.389
LGA    Q      72      Q      72          2.792
LGA    A      73      A      73          2.026
LGA    D      74      D      74          2.087
LGA    F      75      F      75          1.786
LGA    R      76      R      76          1.215
LGA    R      77      R      77          3.488
LGA    P      78      P      78          0.643
LGA    I      79      I      79          1.098
LGA    H      80      H      80          2.229
LGA    T      81      T      81          2.147
LGA    G      82      G      82          2.845
LGA    D      83      D      83          2.071
LGA    A      84      A      84          2.378
LGA    L      85      L      85          1.462
LGA    A      86      A      86          3.882
LGA    M      87      M      87          3.186
LGA    E      88      E      88          1.746
LGA    L      89      L      89          2.263
LGA    R      90      R      90          1.006
LGA    P      91      P      91          1.636
LGA    E      92      E      92          1.383
LGA    R      93      R      93          2.716
LGA    L      94      L      94          3.539
LGA    N      95      N      95          0.858
LGA    P      96      P      96          3.488
LGA    N      97      N      97          2.301
LGA    S      98      S      98          1.616
LGA    F      99      F      99          1.980
LGA    Q     100      Q     100          3.966
LGA    V     101      V     101          0.916
LGA    H     102      H     102          1.985
LGA    F     103      F     103          3.753
LGA    E     104      E     104          0.427
LGA    F     105      F     105          2.193
LGA    R     106      R     106          0.810
LGA    C     107      C     107          2.472
LGA    E     108      E     108          3.406
LGA    E     109      E     109           #
LGA    Q     110      Q     110          3.295
LGA    I     111      I     111          1.755
LGA    A     112      A     112          1.726
LGA    A     113      A     113          1.280
LGA    H     114      H     114          2.677
LGA    A     115      A     115          2.471
LGA    L     116      L     116          1.111
LGA    I     117      I     117          2.783
LGA    R     118      R     118          2.470
LGA    H     119      H     119          4.905
LGA    L     120      L     120           #
LGA    A     121      A     121          4.645
LGA    I     122      I     122          5.363
LGA    N     123      N     123           #
LGA    A     124      A     124          4.014
LGA    Q     125      Q     125          5.024
LGA    T     126      T     126          4.938
LGA    R     127      R     127          1.709
LGA    H     128      H     128          2.411
LGA    R     129      R     129          2.872
LGA    C     130      C     130          1.214
LGA    A     131      A     131          1.620
LGA    L     132      L     132          1.864
LGA    P     133      P     133          2.087
LGA    E     134      E     134          2.750
LGA    G     135      G     135          5.780
LGA    I     136      I     136          2.060
LGA    -       -      D     137           -
LGA    D     137      R     138          1.984
LGA    R     138      W     139          2.074
LGA    W     139      L     140          2.452
LGA    L     140      E     141          3.701
LGA    E     141      A     142          3.967
LGA    A     142      S     143           #
LGA    S     143      G     144           #
LGA    G     144      -       -           -
LGA    V     145      -       -           -
LGA    G     146      -       -           -
LGA    K     147      -       -           -
LGA    I     148      -       -           -
LGA    G     149      -       -           -
LGA    S     150      -       -           -
LGA    I     151      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  151  144    5.0    118    2.83    91.53     48.268     4.032

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.490265 * X  +  -0.745661 * Y  +  -0.451253 * Z  +  39.548512
  Y_new =  -0.672457 * X  +   0.005763 * Y  +  -0.740114 * Z  +  45.835182
  Z_new =   0.554475 * X  +   0.666300 * Y  +  -0.498600 * Z  +  12.371823 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.213216   -0.928377  [ DEG:   126.8079    -53.1921 ]
  Theta =  -0.587732   -2.553861  [ DEG:   -33.6745   -146.3255 ]
  Phi   =  -0.940829    2.200763  [ DEG:   -53.9055    126.0945 ]
 
# 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: T0362TS168_1                                  
REMARK     2: T0362.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0362TS168_1.T0362.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  151  144   5.0  118   2.83   91.53  48.268
REMARK  ---------------------------------------------------------- 
MOLECULE T0362TS168_1
PFRMAT TS
TARGET T0362
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      40.370  49.313  37.483  1.00 25.00           C
ATOM      2  CA  ASN     2      42.578  50.070  34.442  1.00 25.00           C
ATOM      3  CA  PRO     3      40.179  52.675  33.150  1.00 25.00           C
ATOM      4  CA  GLU     4      40.573  50.848  29.850  1.00 25.00           C
ATOM      5  CA  ASN     5      37.890  51.009  27.085  1.00 25.00           C
ATOM      6  CA  TRP     6      37.946  49.627  23.510  1.00 25.00           C
ATOM      7  CA  LEU     7      39.422  52.962  22.563  1.00 25.00           C
ATOM      8  CA  LEU     8      41.904  51.317  20.180  1.00 25.00           C
ATOM      9  CA  LEU     9      45.162  50.389  18.466  1.00 25.00           C
ATOM     10  CA  ARG    10      45.576  54.137  17.815  1.00 25.00           C
ATOM     11  CA  ARG    11      46.797  55.014  14.389  1.00 25.00           C
ATOM     12  CA  VAL    12      48.829  57.011  11.945  1.00 25.00           C
ATOM     13  CA  VAL    13      49.403  58.689   8.599  1.00 25.00           C
ATOM     14  CA  ARG    14      52.367  56.421   7.873  1.00 25.00           C
ATOM     15  CA  PHE    15      52.986  55.929   4.140  1.00 25.00           C
ATOM     16  CA  GLY    16      54.038  59.441   3.191  1.00 25.00           C
ATOM     17  CA  ASP    17      51.313  61.618   4.706  1.00 25.00           C
ATOM     18  CA  THR    18      49.952  61.885   1.202  1.00 25.00           C
ATOM     19  CA  ASP    19      48.562  61.884  -2.321  1.00 25.00           C
ATOM     20  CA  ALA    20      47.263  62.953  -5.700  1.00 25.00           C
ATOM     21  CA  ALA    21      44.024  61.104  -6.610  1.00 25.00           C
ATOM     22  CA  GLY    22      44.413  58.508  -3.782  1.00 25.00           C
ATOM     23  CA  VAL    23      40.889  59.628  -2.734  1.00 25.00           C
ATOM     24  CA  MET    24      40.611  61.836   0.387  1.00 25.00           C
ATOM     25  CA  HIS    25      44.294  61.379   1.116  1.00 25.00           C
ATOM     26  CA  PHE    26      43.374  57.682   1.055  1.00 25.00           C
ATOM     27  CA  HIS    27      46.161  55.061   0.877  1.00 25.00           C
ATOM     28  CA  GLN    28      47.474  56.189   4.294  1.00 25.00           C
ATOM     29  CA  LEU    29      43.946  55.932   5.762  1.00 25.00           C
ATOM     30  CA  PHE    30      43.573  52.407   4.312  1.00 25.00           C
ATOM     31  CA  ARG    31      46.944  51.402   5.825  1.00 25.00           C
ATOM     32  CA  TRP    32      45.861  52.790   9.225  1.00 25.00           C
ATOM     33  CA  CYS    33      42.579  50.826   9.009  1.00 25.00           C
ATOM     34  CA  HIS    34      44.518  47.634   8.159  1.00 25.00           C
ATOM     35  CA  GLU    35      46.840  48.220  11.147  1.00 25.00           C
ATOM     36  CA  SER    36      43.809  48.723  13.435  1.00 25.00           C
ATOM     37  CA  TRP    37      42.254  45.475  12.128  1.00 25.00           C
ATOM     38  CA  GLU    38      45.539  43.614  12.772  1.00 25.00           C
ATOM     39  CA  GLU    39      45.668  45.021  16.331  1.00 25.00           C
ATOM     40  CA  SER    40      42.053  43.907  16.929  1.00 25.00           C
ATOM     41  CA  LEU    41      42.894  40.400  15.638  1.00 25.00           C
ATOM     42  CA  GLU    42      45.931  40.246  17.965  1.00 25.00           C
ATOM     43  CA  SER    43      43.750  41.319  20.925  1.00 25.00           C
ATOM     44  CA  TYR    44      41.184  38.615  20.046  1.00 25.00           C
ATOM     45  CA  GLY    45      42.953  35.315  19.249  1.00 25.00           C
ATOM     46  CA  LEU    46      42.819  35.288  15.452  1.00 25.00           C
ATOM     47  CA  ASN    47      46.412  33.971  15.782  1.00 25.00           C
ATOM     48  CA  PRO    48      49.043  35.685  13.608  1.00 25.00           C
ATOM     49  CA  ALA    49      52.606  34.335  13.990  1.00 25.00           C
ATOM     50  CA  ASP    50      52.017  33.771  17.733  1.00 25.00           C
ATOM     51  CA  ILE    51      49.992  36.920  18.393  1.00 25.00           C
ATOM     52  CA  PHE    52      47.860  34.925  20.758  1.00 25.00           C
ATOM     53  CA  PRO    53      48.705  31.255  20.847  1.00 25.00           C
ATOM     54  CA  GLY    54      47.284  28.553  18.575  1.00 25.00           C
ATOM     55  CA  SER    55      46.089  28.483  14.963  1.00 25.00           C
ATOM     56  CA  ARG    56      49.599  28.875  13.688  1.00 25.00           C
ATOM     57  CA  LYS    57      51.443  25.522  13.309  1.00 25.00           C
ATOM     58  CA  SER    58      48.532  24.105  15.355  1.00 25.00           C
ATOM     59  CA  GLU    59      47.197  23.198  11.862  1.00 25.00           C
ATOM     60  CA  VAL    60      43.624  24.412  11.760  1.00 25.00           C
ATOM     61  CA  THR    61      44.568  26.059   8.399  1.00 25.00           C
ATOM     62  CA  PRO    62      44.150  29.525   9.987  1.00 25.00           C
ATOM     63  CA  GLU    63      44.561  30.914   6.530  1.00 25.00           C
ATOM     64  CA  VAL    64      41.829  33.365   7.679  1.00 25.00           C
ATOM     65  CA  ALA    65      43.043  36.947   7.281  1.00 25.00           C
ATOM     66  CA  LEU    66      42.600  40.366   5.670  1.00 25.00           C
ATOM     67  CA  PRO    67      40.207  40.215   2.793  1.00 25.00           C
ATOM     68  CA  ILE    68      38.643  43.636   2.370  1.00 25.00           C
ATOM     69  CA  ILE    69      36.534  45.344  -0.334  1.00 25.00           C
ATOM     70  CA  HIS    70      33.367  44.596   1.671  1.00 25.00           C
ATOM     71  CA  CYS    71      33.637  48.317   2.666  1.00 25.00           C
ATOM     72  CA  GLN    72      31.359  51.351   3.041  1.00 25.00           C
ATOM     73  CA  ALA    73      34.639  53.274   3.227  1.00 25.00           C
ATOM     74  CA  ASP    74      33.264  56.665   4.188  1.00 25.00           C
ATOM     75  CA  PHE    75      35.158  59.954   4.602  1.00 25.00           C
ATOM     76  CA  ARG    76      34.525  63.226   6.407  1.00 25.00           C
ATOM     77  CA  ARG    77      37.965  64.456   5.290  1.00 25.00           C
ATOM     78  CA  PRO    78      40.272  67.135   6.818  1.00 25.00           C
ATOM     79  CA  ILE    79      42.521  64.393   8.289  1.00 25.00           C
ATOM     80  CA  HIS    80      45.033  67.130   9.145  1.00 25.00           C
ATOM     81  CA  THR    81      48.672  65.904   9.289  1.00 25.00           C
ATOM     82  CA  GLY    82      48.762  66.175  13.081  1.00 25.00           C
ATOM     83  CA  ASP    83      45.939  63.629  12.805  1.00 25.00           C
ATOM     84  CA  ALA    84      46.873  60.727  15.030  1.00 25.00           C
ATOM     85  CA  LEU    85      43.581  58.910  14.863  1.00 25.00           C
ATOM     86  CA  ALA    86      41.441  55.796  15.155  1.00 25.00           C
ATOM     87  CA  MET    87      39.387  52.760  14.271  1.00 25.00           C
ATOM     88  CA  GLU    88      37.064  51.491  17.059  1.00 25.00           C
ATOM     89  CA  LEU    89      35.869  47.865  17.450  1.00 25.00           C
ATOM     90  CA  ARG    90      32.151  47.533  16.717  1.00 25.00           C
ATOM     91  CA  PRO    91      32.692  43.780  16.167  1.00 25.00           C
ATOM     92  CA  GLU    92      29.424  44.114  14.235  1.00 25.00           C
ATOM     93  CA  ARG    93      28.933  41.531  11.526  1.00 25.00           C
ATOM     94  CA  LEU    94      29.455  37.712  11.508  1.00 25.00           C
ATOM     95  CA  ASN    95      26.372  36.109   9.978  1.00 25.00           C
ATOM     96  CA  PRO    96      26.637  33.249   7.477  1.00 25.00           C
ATOM     97  CA  ASN    97      29.951  34.754   6.210  1.00 25.00           C
ATOM     98  CA  SER    98      32.320  37.520   7.335  1.00 25.00           C
ATOM     99  CA  PHE    99      33.430  40.314   9.638  1.00 25.00           C
ATOM    100  CA  GLN   100      35.050  42.998  11.766  1.00 25.00           C
ATOM    101  CA  VAL   101      33.252  46.331  11.577  1.00 25.00           C
ATOM    102  CA  HIS   102      34.656  49.692  12.592  1.00 25.00           C
ATOM    103  CA  PHE   103      32.504  52.705  13.508  1.00 25.00           C
ATOM    104  CA  GLU   104      35.143  55.407  13.557  1.00 25.00           C
ATOM    105  CA  PHE   105      36.887  58.527  14.993  1.00 25.00           C
ATOM    106  CA  ARG   106      38.930  61.572  15.954  1.00 25.00           C
ATOM    107  CA  CYS   107      39.090  64.957  17.763  1.00 25.00           C
ATOM    108  CA  GLU   108      37.059  67.421  19.905  1.00 25.00           C
ATOM    109  CA  GLU   109      34.208  68.428  17.651  1.00 25.00           C
ATOM    110  CA  GLN   110      35.958  67.892  14.285  1.00 25.00           C
ATOM    111  CA  ILE   111      34.984  64.249  14.234  1.00 25.00           C
ATOM    112  CA  ALA   112      35.995  61.974  11.380  1.00 25.00           C
ATOM    113  CA  ALA   113      36.188  58.741   9.355  1.00 25.00           C
ATOM    114  CA  HIS   114      36.676  55.183   8.005  1.00 25.00           C
ATOM    115  CA  ALA   115      33.036  54.120   8.537  1.00 25.00           C
ATOM    116  CA  LEU   116      33.079  50.375   7.848  1.00 25.00           C
ATOM    117  CA  ILE   117      36.185  48.154   7.961  1.00 25.00           C
ATOM    118  CA  ARG   118      34.288  45.049   6.669  1.00 25.00           C
ATOM    119  CA  HIS   119      37.610  43.342   7.470  1.00 25.00           C
ATOM    120  CA  LEU   120      38.484  39.828   8.691  1.00 25.00           C
ATOM    121  CA  ALA   121      37.525  36.156   8.418  1.00 25.00           C
ATOM    122  CA  ILE   122      38.018  35.639   4.682  1.00 25.00           C
ATOM    123  CA  ASN   123      41.119  34.814   2.697  1.00 25.00           C
ATOM    124  CA  ALA   124      43.501  32.638   0.767  1.00 25.00           C
ATOM    125  CA  GLN   125      43.547  30.743  -2.587  1.00 25.00           C
ATOM    126  CA  THR   126      40.524  29.622  -4.523  1.00 25.00           C
ATOM    127  CA  ARG   127      38.970  27.988  -1.465  1.00 25.00           C
ATOM    128  CA  HIS   128      35.827  29.262   0.291  1.00 25.00           C
ATOM    129  CA  ARG   129      33.902  27.289   2.813  1.00 25.00           C
ATOM    130  CA  CYS   130      33.627  28.407   6.412  1.00 25.00           C
ATOM    131  CA  ALA   131      32.081  27.620   9.773  1.00 25.00           C
ATOM    132  CA  LEU   132      34.641  30.045  11.283  1.00 25.00           C
ATOM    133  CA  PRO   133      37.042  29.449  14.157  1.00 25.00           C
ATOM    134  CA  GLU   134      34.788  28.577  17.094  1.00 25.00           C
ATOM    135  CA  GLY   135      33.575  32.093  16.627  1.00 25.00           C
ATOM    136  CA  ILE   136      36.384  34.585  16.742  1.00 25.00           C
ATOM    137  CA  ASP   137      37.273  33.867  20.397  1.00 25.00           C
ATOM    138  CA  ARG   138      36.544  37.512  21.316  1.00 25.00           C
ATOM    139  CA  TRP   139      33.165  37.315  19.523  1.00 25.00           C
ATOM    140  CA  LEU   140      32.326  34.088  21.407  1.00 25.00           C
ATOM    141  CA  GLU   141      33.254  35.756  24.727  1.00 25.00           C
ATOM    142  CA  ALA   142      31.030  38.754  23.870  1.00 25.00           C
ATOM    143  CA  SER   143      28.132  36.394  23.028  1.00 25.00           C
ATOM    144  CA  GLY   144      26.295  35.072  26.082  1.00 25.00           C
ATOM    145  CA  VAL   145      26.535  32.573  28.936  1.00 25.00           C
ATOM    146  CA  GLY   146      24.122  34.593  31.092  1.00 25.00           C
ATOM    147  CA  LYS   147      26.546  36.250  33.419  1.00 25.00           C
ATOM    148  CA  ILE   148      25.094  39.748  33.188  1.00 25.00           C
ATOM    149  CA  GLY   149      22.346  42.388  33.672  1.00 25.00           C
ATOM    150  CA  SER   150      19.954  44.747  31.797  1.00 25.00           C
ATOM    151  CA  ILE   151      21.097  48.334  31.734  1.00 25.00           C
TER
END
