
#######################################################
#                                                     #
#                        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  119 (  119),  selected  119 , name T0382TS599_1-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS599_1-D1.T0382_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      L       4           -
LGA    -       -      D       5           -
LGA    -       -      L       6           -
LGA    -       -      H       7           -
LGA    -       -      Q       8           -
LGA    -       -      M       9           -
LGA    -       -      T      10           -
LGA    -       -      T      11           -
LGA    -       -      Q      12           -
LGA    -       -      D      13           -
LGA    -       -      L      14           -
LGA    -       -      V      15           -
LGA    -       -      A      16           -
LGA    -       -      L      17           -
LGA    -       -      F      18           -
LGA    -       -      A      19           -
LGA    -       -      K      20           -
LGA    -       -      V      21           -
LGA    -       -      T      22           -
LGA    -       -      V      23           -
LGA    L       4      E      24          2.582
LGA    -       -      Q      25           -
LGA    D       5      D      26          4.908
LGA    L       6      D      27          3.297
LGA    H       7      -       -           -
LGA    Q       8      A      28          4.599
LGA    M       9      L      29          4.510
LGA    -       -      L      30           -
LGA    -       -      G      31           -
LGA    -       -      N      32           -
LGA    T      10      Q      33          1.272
LGA    T      11      I      34          1.370
LGA    Q      12      S      35          1.552
LGA    D      13      R      36          1.141
LGA    L      14      F      37          0.915
LGA    V      15      N      38          0.952
LGA    A      16      R      39          1.197
LGA    L      17      L      40          1.235
LGA    F      18      F      41          1.077
LGA    A      19      G      42          1.095
LGA    K      20      V      43          1.325
LGA    V      21      M      44          1.463
LGA    T      22      A      45          1.289
LGA    V      23      E      46          1.435
LGA    E      24      I      47          1.670
LGA    Q      25      A      48          1.525
LGA    D      26      D      49          1.553
LGA    D      27      E      50          2.438
LGA    A      28      L      51          2.763
LGA    L      29      K      52          2.082
LGA    L      30      A      53          2.095
LGA    G      31      R      54          3.515
LGA    N      32      D      55          1.649
LGA    Q      33      -       -           -
LGA    I      34      G      56           #
LGA    S      35      D      57           -
LGA    R      36      -       -           -
LGA    F      37      Q      58          2.717
LGA    N      38      R      59           #
LGA    R      39      -       -           -
LGA    L      40      -       -           -
LGA    F      41      T      60          2.664
LGA    G      42      A      61          2.947
LGA    V      43      L      62          2.605
LGA    M      44      L      63          3.910
LGA    A      45      S      64          4.171
LGA    E      46      L      65          1.715
LGA    -       -      F      66           -
LGA    -       -      E      67           -
LGA    -       -      Y      68           -
LGA    -       -      P      69           -
LGA    -       -      N      70           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    -       -      V      73           -
LGA    I      47      R      74          2.769
LGA    -       -      L      75           -
LGA    -       -      Q      76           -
LGA    -       -      A      77           -
LGA    A      48      A      78          3.222
LGA    D      49      K      79           -
LGA    E      50      L      80           -
LGA    -       -      T      81           -
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    -       -      A      85           -
LGA    -       -      P      86           -
LGA    -       -      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    L      51      Q      92          4.620
LGA    K      52      L      93          4.372
LGA    -       -      E      94           -
LGA    A      53      A      95          3.825
LGA    R      54      I      96          2.933
LGA    -       -      V      97           -
LGA    D      55      S      98          2.881
LGA    G      56      S      99          4.690
LGA    D      57      K     100          4.241
LGA    Q      58      W     101          4.460
LGA    R      59      F     102           #
LGA    -       -      P     103           -
LGA    -       -      Q     104           -
LGA    T      60      A     105          4.689
LGA    A      61      G     106          2.884
LGA    L      62      D     107          3.432
LGA    L      63      A     108          2.609
LGA    S      64      G     109          4.061
LGA    L      65      M     110           #
LGA    F      66      -       -           -
LGA    E      67      -       -           -
LGA    Y      68      -       -           -
LGA    P      69      -       -           -
LGA    N      70      -       -           -
LGA    M      71      -       -           -
LGA    Q      72      -       -           -
LGA    V      73      -       -           -
LGA    R      74      -       -           -
LGA    L      75      -       -           -
LGA    Q      76      -       -           -
LGA    A      77      -       -           -
LGA    A      78      -       -           -
LGA    K      79      -       -           -
LGA    L      80      -       -           -
LGA    T      81      -       -           -
LGA    L      82      -       -           -
LGA    A      83      C     111           #
LGA    V      84      L     112           -
LGA    A      85      D     113           -
LGA    P      86      L     114           -
LGA    -       -      L     115           -
LGA    -       -      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    V      87      P     122          5.570
LGA    K      88      -       -           -
LGA    A      89      -       -           -
LGA    R      90      -       -           -
LGA    E      91      -       -           -
LGA    Q      92      -       -           -
LGA    L      93      -       -           -
LGA    E      94      -       -           -
LGA    A      95      -       -           -
LGA    I      96      -       -           -
LGA    V      97      -       -           -
LGA    S      98      -       -           -
LGA    S      99      -       -           -
LGA    K     100      -       -           -
LGA    W     101      -       -           -
LGA    F     102      -       -           -
LGA    P     103      -       -           -
LGA    Q     104      -       -           -
LGA    A     105      -       -           -
LGA    G     106      -       -           -
LGA    D     107      -       -           -
LGA    A     108      -       -           -
LGA    G     109      -       -           -
LGA    M     110      -       -           -
LGA    C     111      -       -           -
LGA    L     112      -       -           -
LGA    D     113      -       -           -
LGA    L     114      -       -           -
LGA    L     115      -       -           -
LGA    D     116      -       -           -
LGA    D     117      -       -           -
LGA    G     118      -       -           -
LGA    T     119      -       -           -
LGA    F     120      -       -           -
LGA    K     121      -       -           -
LGA    P     122      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  119  119    5.0     51    3.01    11.76     27.840     1.640

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.146080 * X  +   0.435419 * Y  +   0.888296 * Z  + -11.282368
  Y_new =   0.026668 * X  +   0.899336 * Y  +  -0.436445 * Z  +  45.155037
  Z_new =  -0.988913 * X  +  -0.040067 * Y  +  -0.142987 * Z  +   9.000697 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.868385    0.273208  [ DEG:  -164.3464     15.6536 ]
  Theta =   1.421750    1.719842  [ DEG:    81.4603     98.5397 ]
  Phi   =   2.961025   -0.180568  [ DEG:   169.6542    -10.3458 ]
 
# 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: T0382TS599_1-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_1-D1.T0382_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  119  119   5.0   51   3.01   11.76  27.840
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_1-D1
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      4  CA  LEU     4     -14.735  33.516   8.820  1.00  0.00              
ATOM      5  CA  ASP     5     -15.188  32.799  12.493  1.00  0.00              
ATOM      6  CA  LEU     6     -13.107  35.323  14.513  1.00  0.00              
ATOM      7  CA  HIS     7     -12.195  32.975  17.383  1.00  0.00              
ATOM      8  CA  GLN     8     -10.529  30.506  14.965  1.00  0.00              
ATOM      9  CA  MET     9      -8.634  32.926  12.796  1.00  0.00              
ATOM     10  CA  THR    10      -4.890  32.839  12.872  1.00  0.00              
ATOM     11  CA  THR    11      -2.916  36.066  12.076  1.00  0.00              
ATOM     12  CA  GLN    12      -1.595  34.534   8.921  1.00  0.00              
ATOM     13  CA  ASP    13      -5.030  33.642   7.685  1.00  0.00              
ATOM     14  CA  LEU    14      -6.421  37.075   8.392  1.00  0.00              
ATOM     15  CA  VAL    15      -3.495  38.813   6.801  1.00  0.00              
ATOM     16  CA  ALA    16      -3.663  36.789   3.621  1.00  0.00              
ATOM     17  CA  LEU    17      -7.413  37.392   3.287  1.00  0.00              
ATOM     18  CA  PHE    18      -7.088  41.074   3.809  1.00  0.00              
ATOM     19  CA  ALA    19      -4.257  41.350   1.254  1.00  0.00              
ATOM     20  CA  LYS    20      -6.248  39.438  -1.324  1.00  0.00              
ATOM     21  CA  VAL    21      -9.251  41.770  -0.938  1.00  0.00              
ATOM     22  CA  THR    22      -7.106  44.887  -1.310  1.00  0.00              
ATOM     23  CA  VAL    23      -5.448  43.389  -4.361  1.00  0.00              
ATOM     24  CA  GLU    24      -8.655  42.415  -6.123  1.00  0.00              
ATOM     25  CA  GLN    25     -10.280  45.795  -5.748  1.00  0.00              
ATOM     26  CA  ASP    26      -7.336  47.736  -7.031  1.00  0.00              
ATOM     27  CA  ASP    27      -6.664  45.647 -10.111  1.00  0.00              
ATOM     28  CA  ALA    28     -10.215  45.419 -11.332  1.00  0.00              
ATOM     29  CA  LEU    29     -10.919  49.122 -11.087  1.00  0.00              
ATOM     30  CA  LEU    30      -7.690  50.093 -12.941  1.00  0.00              
ATOM     31  CA  GLY    31      -8.389  47.765 -15.842  1.00  0.00              
ATOM     32  CA  ASN    32     -12.022  48.925 -16.206  1.00  0.00              
ATOM     33  CA  GLN    33     -13.653  45.545 -16.450  1.00  0.00              
ATOM     34  CA  ILE    34     -17.371  46.290 -16.702  1.00  0.00              
ATOM     35  CA  SER    35     -18.801  42.926 -15.577  1.00  0.00              
ATOM     36  CA  ARG    36     -16.228  42.063 -12.989  1.00  0.00              
ATOM     37  CA  PHE    37     -16.315  45.724 -11.820  1.00  0.00              
ATOM     38  CA  ASN    38     -20.021  45.554 -11.198  1.00  0.00              
ATOM     39  CA  ARG    39     -19.483  42.322  -9.178  1.00  0.00              
ATOM     40  CA  LEU    40     -16.711  44.010  -7.170  1.00  0.00              
ATOM     41  CA  PHE    41     -18.965  47.015  -6.501  1.00  0.00              
ATOM     42  CA  GLY    42     -21.851  44.823  -5.356  1.00  0.00              
ATOM     43  CA  VAL    43     -19.613  43.103  -2.798  1.00  0.00              
ATOM     44  CA  MET    44     -18.334  46.452  -1.533  1.00  0.00              
ATOM     45  CA  ALA    45     -21.903  47.754  -1.348  1.00  0.00              
ATOM     46  CA  GLU    46     -22.985  44.735   0.756  1.00  0.00              
ATOM     47  CA  ILE    47     -20.009  45.308   3.109  1.00  0.00              
ATOM     48  CA  ALA    48     -20.883  49.017   3.440  1.00  0.00              
ATOM     49  CA  ASP    49     -24.501  48.170   4.208  1.00  0.00              
ATOM     50  CA  GLU    50     -23.410  45.722   6.958  1.00  0.00              
ATOM     51  CA  LEU    51     -21.095  48.306   8.483  1.00  0.00              
ATOM     52  CA  LYS    52     -23.791  51.018   8.310  1.00  0.00              
ATOM     53  CA  ALA    53     -26.209  48.682  10.100  1.00  0.00              
ATOM     54  CA  ARG    54     -23.878  48.111  13.086  1.00  0.00              
ATOM     55  CA  ASP    55     -25.394  49.884  16.032  1.00  0.00              
ATOM     56  CA  GLY    56     -23.986  53.443  16.351  1.00  0.00              
ATOM     57  CA  ASP    57     -22.055  53.024  19.487  1.00  0.00              
ATOM     58  CA  GLN    58     -20.263  49.867  18.379  1.00  0.00              
ATOM     59  CA  ARG    59     -19.365  50.595  14.814  1.00  0.00              
ATOM     60  CA  THR    60     -17.888  53.928  15.706  1.00  0.00              
ATOM     61  CA  ALA    61     -15.763  52.368  18.497  1.00  0.00              
ATOM     62  CA  LEU    62     -14.513  49.657  16.137  1.00  0.00              
ATOM     63  CA  LEU    63     -13.576  52.184  13.455  1.00  0.00              
ATOM     64  CA  SER    64     -11.699  54.224  15.975  1.00  0.00              
ATOM     65  CA  LEU    65      -9.792  51.252  17.250  1.00  0.00              
ATOM     66  CA  PHE    66      -8.621  50.340  13.707  1.00  0.00              
ATOM     67  CA  GLU    67      -7.015  53.770  13.439  1.00  0.00              
ATOM     68  CA  TYR    68      -5.124  53.440  16.675  1.00  0.00              
ATOM     69  CA  PRO    69      -1.325  53.225  16.280  1.00  0.00              
ATOM     70  CA  ASN    70      -0.887  50.301  18.604  1.00  0.00              
ATOM     71  CA  MET    71      -1.905  51.476  22.032  1.00  0.00              
ATOM     72  CA  GLN    72      -3.498  48.170  23.008  1.00  0.00              
ATOM     73  CA  VAL    73      -4.044  46.277  19.799  1.00  0.00              
ATOM     74  CA  ARG    74      -6.430  43.601  19.029  1.00  0.00              
ATOM     75  CA  LEU    75      -6.161  41.565  15.875  1.00  0.00              
ATOM     76  CA  GLN    76      -9.311  39.397  15.532  1.00  0.00              
ATOM     77  CA  ALA    77     -11.852  42.066  16.593  1.00  0.00              
ATOM     78  CA  ALA    78     -10.498  44.652  14.129  1.00  0.00              
ATOM     79  CA  LYS    79     -10.611  42.049  11.309  1.00  0.00              
ATOM     80  CA  LEU    80     -14.153  40.917  12.239  1.00  0.00              
ATOM     81  CA  THR    81     -15.516  44.405  12.412  1.00  0.00              
ATOM     82  CA  LEU    82     -14.202  45.508   9.056  1.00  0.00              
ATOM     83  CA  ALA    83     -15.595  48.244   6.738  1.00  0.00              
ATOM     84  CA  VAL    84     -14.632  47.862   3.136  1.00  0.00              
ATOM     85  CA  ALA    85     -13.252  50.863   1.207  1.00  0.00              
ATOM     86  CA  PRO    86     -10.376  49.921  -1.097  1.00  0.00              
ATOM     87  CA  VAL    87      -7.899  52.598  -0.050  1.00  0.00              
ATOM     88  CA  LYS    88      -8.480  52.196   3.717  1.00  0.00              
ATOM     89  CA  ALA    89      -8.359  48.446   3.496  1.00  0.00              
ATOM     90  CA  ARG    90      -4.991  48.575   1.662  1.00  0.00              
ATOM     91  CA  GLU    91      -3.545  50.851   4.273  1.00  0.00              
ATOM     92  CA  GLN    92      -4.677  48.716   7.215  1.00  0.00              
ATOM     93  CA  LEU    93      -3.286  45.562   5.727  1.00  0.00              
ATOM     94  CA  GLU    94       0.033  47.222   5.055  1.00  0.00              
ATOM     95  CA  ALA    95       0.232  48.545   8.586  1.00  0.00              
ATOM     96  CA  ILE    96      -0.498  45.078  10.050  1.00  0.00              
ATOM     97  CA  VAL    97       2.051  43.432   7.877  1.00  0.00              
ATOM     98  CA  SER    98       4.719  46.039   8.854  1.00  0.00              
ATOM     99  CA  SER    99       4.133  45.907  12.564  1.00  0.00              
ATOM    100  CA  LYS   100       4.794  42.129  12.820  1.00  0.00              
ATOM    101  CA  TRP   101       1.396  40.867  13.089  1.00  0.00              
ATOM    102  CA  PHE   102       1.387  39.934  16.731  1.00  0.00              
ATOM    103  CA  PRO   103      -0.932  42.460  18.277  1.00  0.00              
ATOM    104  CA  GLN   104      -3.059  40.391  20.713  1.00  0.00              
ATOM    105  CA  ALA   105      -3.368  42.357  23.934  1.00  0.00              
ATOM    106  CA  GLY   106      -7.029  42.792  24.542  1.00  0.00              
ATOM    107  CA  ASP   107      -8.738  39.550  23.581  1.00  0.00              
ATOM    108  CA  ALA   108     -11.428  40.281  20.978  1.00  0.00              
ATOM    109  CA  GLY   109     -14.449  39.113  22.985  1.00  0.00              
ATOM    110  CA  MET   110     -13.235  41.244  25.893  1.00  0.00              
ATOM    111  CA  CYS   111     -12.763  44.340  23.760  1.00  0.00              
ATOM    112  CA  LEU   112     -16.156  44.279  22.123  1.00  0.00              
ATOM    113  CA  ASP   113     -17.781  43.876  25.552  1.00  0.00              
ATOM    114  CA  LEU   114     -15.762  46.779  27.002  1.00  0.00              
ATOM    115  CA  LEU   115     -16.632  49.126  24.139  1.00  0.00              
ATOM    116  CA  ASP   116     -20.342  48.345  24.367  1.00  0.00              
ATOM    117  CA  ASP   117     -20.352  48.803  28.185  1.00  0.00              
ATOM    118  CA  GLY   118     -18.645  52.155  28.189  1.00  0.00              
ATOM    119  CA  THR   119     -15.427  50.941  29.802  1.00  0.00              
ATOM    120  CA  PHE   120     -12.782  50.657  27.155  1.00  0.00              
ATOM    121  CA  LYS   121      -9.530  52.116  27.619  1.00  0.00              
ATOM    122  CA  PRO   122      -7.493  51.047  24.102  1.00  0.00              
TER                                                                             
END
