
#######################################################
#                                                     #
#                        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_5-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS599_5-D1.T0382_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L       4      L       4           -
LGA    D       5      D       5           -
LGA    L       6      L       6           -
LGA    H       7      H       7           -
LGA    Q       8      Q       8           -
LGA    M       9      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    E      24      -       -           -
LGA    Q      25      -       -           -
LGA    D      26      -       -           -
LGA    D      27      -       -           -
LGA    A      28      -       -           -
LGA    L      29      -       -           -
LGA    L      30      -       -           -
LGA    G      31      -       -           -
LGA    N      32      -       -           -
LGA    Q      33      -       -           -
LGA    I      34      -       -           -
LGA    S      35      -       -           -
LGA    R      36      -       -           -
LGA    F      37      -       -           -
LGA    N      38      -       -           -
LGA    R      39      -       -           -
LGA    L      40      -       -           -
LGA    F      41      -       -           -
LGA    G      42      -       -           -
LGA    V      43      -       -           -
LGA    M      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      -       -           -
LGA    I      47      -       -           -
LGA    A      48      -       -           -
LGA    D      49      -       -           -
LGA    E      50      -       -           -
LGA    L      51      -       -           -
LGA    K      52      -       -           -
LGA    A      53      -       -           -
LGA    R      54      -       -           -
LGA    D      55      T      10           #
LGA    -       -      T      11           -
LGA    G      56      Q      12          2.153
LGA    D      57      D      13          2.335
LGA    -       -      L      14           -
LGA    Q      58      V      15          1.112
LGA    R      59      A      16          1.731
LGA    T      60      L      17          1.139
LGA    A      61      F      18          0.672
LGA    L      62      A      19          2.141
LGA    L      63      K      20          2.286
LGA    S      64      V      21          1.653
LGA    L      65      T      22          1.816
LGA    F      66      V      23          2.295
LGA    E      67      E      24          2.081
LGA    Y      68      Q      25          2.118
LGA    P      69      D      26          2.998
LGA    -       -      D      27           -
LGA    -       -      A      28           -
LGA    -       -      L      29           -
LGA    N      70      L      30           #
LGA    M      71      G      31           -
LGA    -       -      N      32           -
LGA    -       -      Q      33           -
LGA    -       -      I      34           -
LGA    -       -      S      35           -
LGA    -       -      R      36           -
LGA    -       -      F      37           -
LGA    -       -      N      38           -
LGA    -       -      R      39           -
LGA    -       -      L      40           -
LGA    -       -      F      41           -
LGA    -       -      G      42           -
LGA    -       -      V      43           -
LGA    -       -      M      44           -
LGA    -       -      A      45           -
LGA    -       -      E      46           -
LGA    -       -      I      47           -
LGA    -       -      A      48           -
LGA    -       -      D      49           -
LGA    -       -      E      50           -
LGA    -       -      L      51           -
LGA    -       -      K      52           -
LGA    -       -      A      53           -
LGA    -       -      R      54           -
LGA    -       -      D      55           -
LGA    -       -      G      56           -
LGA    -       -      D      57           -
LGA    -       -      Q      58           -
LGA    -       -      R      59           -
LGA    -       -      T      60           -
LGA    -       -      A      61           -
LGA    -       -      L      62           -
LGA    -       -      L      63           -
LGA    -       -      S      64           -
LGA    -       -      L      65           -
LGA    -       -      F      66           -
LGA    -       -      E      67           -
LGA    -       -      Y      68           -
LGA    -       -      P      69           -
LGA    Q      72      N      70           #
LGA    V      73      M      71          4.458
LGA    R      74      Q      72          5.187
LGA    L      75      V      73           -
LGA    -       -      R      74           -
LGA    Q      76      L      75           #
LGA    A      77      Q      76          2.213
LGA    A      78      A      77          3.418
LGA    K      79      A      78          1.637
LGA    L      80      K      79          3.985
LGA    T      81      L      80          5.277
LGA    L      82      -       -           -
LGA    A      83      T      81          3.408
LGA    V      84      L      82          3.148
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    A      85      A      85          1.499
LGA    P      86      P      86          1.455
LGA    V      87      V      87          1.210
LGA    K      88      K      88          1.153
LGA    A      89      A      89          1.586
LGA    R      90      R      90          1.539
LGA    E      91      E      91          0.454
LGA    Q      92      Q      92          0.158
LGA    L      93      L      93          1.056
LGA    E      94      E      94          1.491
LGA    A      95      A      95          1.318
LGA    I      96      I      96          1.387
LGA    V      97      V      97          2.122
LGA    S      98      S      98          2.396
LGA    S      99      S      99          2.744
LGA    K     100      K     100          3.398
LGA    W     101      W     101          1.956
LGA    F     102      F     102          2.214
LGA    -       -      P     103           -
LGA    -       -      Q     104           -
LGA    P     103      A     105          0.709
LGA    Q     104      G     106          2.699
LGA    A     105      D     107          2.118
LGA    G     106      A     108          4.734
LGA    -       -      G     109           -
LGA    -       -      M     110           -
LGA    D     107      C     111          1.595
LGA    A     108      L     112          1.487
LGA    -       -      D     113           -
LGA    G     109      L     114          2.821
LGA    M     110      L     115          4.513
LGA    C     111      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    L     112      F     120           #
LGA    D     113      K     121          1.385
LGA    L     114      P     122          1.733
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    2.49    41.18     30.495     1.969

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.209170 * X  +  -0.792709 * Y  +  -0.572591 * Z  + -24.499668
  Y_new =  -0.908406 * X  +   0.059248 * Y  +  -0.413869 * Z  +  47.034477
  Z_new =   0.362003 * X  +   0.606714 * Y  +  -0.707709 * Z  +   1.590910 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.432879   -0.708713  [ DEG:   139.3937    -40.6063 ]
  Theta =  -0.370416   -2.771177  [ DEG:   -21.2232   -158.7767 ]
  Phi   =  -1.344481    1.797112  [ DEG:   -77.0331    102.9669 ]
 
# 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_5-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_5-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   2.49   41.18  30.495
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_5-D1
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      4  CA  LEU     4     -26.771  40.584   8.326  1.00  0.00              
ATOM      5  CA  ASP     5     -25.034  37.445   9.530  1.00  0.00              
ATOM      6  CA  LEU     6     -21.772  36.898   7.585  1.00  0.00              
ATOM      7  CA  HIS     7     -21.415  33.184   8.312  1.00  0.00              
ATOM      8  CA  GLN     8     -24.790  32.310   6.757  1.00  0.00              
ATOM      9  CA  MET     9     -24.626  34.313   3.592  1.00  0.00              
ATOM     10  CA  THR    10     -23.914  32.712   0.236  1.00  0.00              
ATOM     11  CA  THR    11     -23.980  35.070  -2.768  1.00  0.00              
ATOM     12  CA  GLN    12     -27.073  33.341  -4.233  1.00  0.00              
ATOM     13  CA  ASP    13     -28.916  33.749  -0.909  1.00  0.00              
ATOM     14  CA  LEU    14     -28.122  37.474  -0.837  1.00  0.00              
ATOM     15  CA  VAL    15     -29.369  37.906  -4.417  1.00  0.00              
ATOM     16  CA  ALA    16     -32.626  36.055  -3.587  1.00  0.00              
ATOM     17  CA  LEU    17     -33.179  38.276  -0.511  1.00  0.00              
ATOM     18  CA  PHE    18     -32.504  41.415  -2.619  1.00  0.00              
ATOM     19  CA  ALA    19     -35.003  40.196  -5.252  1.00  0.00              
ATOM     20  CA  LYS    20     -37.592  39.519  -2.566  1.00  0.00              
ATOM     21  CA  VAL    21     -37.167  43.121  -1.334  1.00  0.00              
ATOM     22  CA  THR    22     -37.566  44.445  -4.894  1.00  0.00              
ATOM     23  CA  VAL    23     -40.776  42.410  -5.427  1.00  0.00              
ATOM     24  CA  GLU    24     -42.261  43.627  -2.098  1.00  0.00              
ATOM     25  CA  GLN    25     -41.464  47.268  -2.993  1.00  0.00              
ATOM     26  CA  ASP    26     -43.522  47.023  -6.211  1.00  0.00              
ATOM     27  CA  ASP    27     -46.665  45.933  -4.374  1.00  0.00              
ATOM     28  CA  ALA    28     -46.234  48.555  -1.615  1.00  0.00              
ATOM     29  CA  LEU    29     -45.979  51.447  -4.056  1.00  0.00              
ATOM     30  CA  LEU    30     -49.229  50.617  -5.888  1.00  0.00              
ATOM     31  CA  GLY    31     -51.115  50.331  -2.609  1.00  0.00              
ATOM     32  CA  ASN    32     -49.766  53.451  -1.020  1.00  0.00              
ATOM     33  CA  GLN    33     -50.461  55.973  -3.708  1.00  0.00              
ATOM     34  CA  ILE    34     -47.462  58.193  -4.032  1.00  0.00              
ATOM     35  CA  SER    35     -44.612  60.248  -2.685  1.00  0.00              
ATOM     36  CA  ARG    36     -43.070  57.738  -0.260  1.00  0.00              
ATOM     37  CA  PHE    37     -43.857  55.081  -2.844  1.00  0.00              
ATOM     38  CA  ASN    38     -41.622  56.818  -5.425  1.00  0.00              
ATOM     39  CA  ARG    39     -38.833  56.903  -2.854  1.00  0.00              
ATOM     40  CA  LEU    40     -39.236  53.235  -2.005  1.00  0.00              
ATOM     41  CA  PHE    41     -39.257  52.402  -5.767  1.00  0.00              
ATOM     42  CA  GLY    42     -36.053  54.143  -6.296  1.00  0.00              
ATOM     43  CA  VAL    43     -34.354  52.281  -3.422  1.00  0.00              
ATOM     44  CA  MET    44     -35.585  48.902  -4.490  1.00  0.00              
ATOM     45  CA  ALA    45     -34.516  49.533  -8.028  1.00  0.00              
ATOM     46  CA  GLU    46     -31.054  50.614  -6.964  1.00  0.00              
ATOM     47  CA  ILE    47     -30.502  47.507  -4.799  1.00  0.00              
ATOM     48  CA  ALA    48     -31.714  45.130  -7.448  1.00  0.00              
ATOM     49  CA  ASP    49     -29.497  46.717  -9.995  1.00  0.00              
ATOM     50  CA  GLU    50     -26.496  46.541  -7.736  1.00  0.00              
ATOM     51  CA  LEU    51     -27.168  42.939  -6.825  1.00  0.00              
ATOM     52  CA  LYS    52     -27.598  41.779 -10.406  1.00  0.00              
ATOM     53  CA  ALA    53     -24.449  43.469 -11.543  1.00  0.00              
ATOM     54  CA  ARG    54     -22.303  42.021  -8.688  1.00  0.00              
ATOM     55  CA  ASP    55     -19.748  39.987 -10.363  1.00  0.00              
ATOM     56  CA  GLY    56     -19.052  36.529  -9.042  1.00  0.00              
ATOM     57  CA  ASP    57     -15.473  37.608  -8.110  1.00  0.00              
ATOM     58  CA  GLN    58     -16.830  40.447  -5.935  1.00  0.00              
ATOM     59  CA  ARG    59     -18.893  37.880  -3.977  1.00  0.00              
ATOM     60  CA  THR    60     -15.668  35.987  -3.229  1.00  0.00              
ATOM     61  CA  ALA    61     -13.972  39.176  -1.978  1.00  0.00              
ATOM     62  CA  LEU    62     -16.952  39.948   0.280  1.00  0.00              
ATOM     63  CA  LEU    63     -16.813  36.395   1.622  1.00  0.00              
ATOM     64  CA  SER    64     -13.158  37.040   2.433  1.00  0.00              
ATOM     65  CA  LEU    65     -13.998  40.135   4.483  1.00  0.00              
ATOM     66  CA  PHE    66     -16.539  38.125   6.454  1.00  0.00              
ATOM     67  CA  GLU    67     -13.794  35.663   7.369  1.00  0.00              
ATOM     68  CA  TYR    68     -12.135  38.726   9.042  1.00  0.00              
ATOM     69  CA  PRO    69     -11.462  37.924  12.543  1.00  0.00              
ATOM     70  CA  ASN    70     -12.959  40.880  14.297  1.00  0.00              
ATOM     71  CA  MET    71     -16.194  39.180  15.583  1.00  0.00              
ATOM     72  CA  GLN    72     -18.038  42.530  15.485  1.00  0.00              
ATOM     73  CA  VAL    73     -17.140  44.735  12.726  1.00  0.00              
ATOM     74  CA  ARG    74     -14.229  46.198  11.037  1.00  0.00              
ATOM     75  CA  LEU    75     -14.731  49.444   9.172  1.00  0.00              
ATOM     76  CA  GLN    76     -12.075  49.638   6.478  1.00  0.00              
ATOM     77  CA  ALA    77     -12.498  45.928   5.640  1.00  0.00              
ATOM     78  CA  ALA    78     -16.249  46.076   5.209  1.00  0.00              
ATOM     79  CA  LYS    79     -16.332  49.291   3.262  1.00  0.00              
ATOM     80  CA  LEU    80     -13.567  48.254   0.837  1.00  0.00              
ATOM     81  CA  THR    81     -15.122  44.872   0.037  1.00  0.00              
ATOM     82  CA  LEU    82     -18.435  46.740  -0.623  1.00  0.00              
ATOM     83  CA  ALA    83     -18.902  49.980  -2.385  1.00  0.00              
ATOM     84  CA  VAL    84     -17.161  53.257  -1.663  1.00  0.00              
ATOM     85  CA  ALA    85     -18.853  56.570  -2.121  1.00  0.00              
ATOM     86  CA  PRO    86     -18.361  58.996   0.811  1.00  0.00              
ATOM     87  CA  VAL    87     -22.016  59.637   1.763  1.00  0.00              
ATOM     88  CA  LYS    88     -22.783  55.903   1.551  1.00  0.00              
ATOM     89  CA  ALA    89     -19.631  54.959   3.496  1.00  0.00              
ATOM     90  CA  ARG    90     -20.670  57.271   6.379  1.00  0.00              
ATOM     91  CA  GLU    91     -24.076  55.667   6.263  1.00  0.00              
ATOM     92  CA  GLN    92     -22.688  52.093   6.394  1.00  0.00              
ATOM     93  CA  LEU    93     -20.499  52.962   9.354  1.00  0.00              
ATOM     94  CA  GLU    94     -23.462  54.462  11.137  1.00  0.00              
ATOM     95  CA  ALA    95     -25.602  51.367  10.479  1.00  0.00              
ATOM     96  CA  ILE    96     -22.848  49.069  11.808  1.00  0.00              
ATOM     97  CA  VAL    97     -22.448  51.182  14.882  1.00  0.00              
ATOM     98  CA  SER    98     -26.246  51.111  15.504  1.00  0.00              
ATOM     99  CA  SER    99     -26.574  47.328  15.053  1.00  0.00              
ATOM    100  CA  LYS   100     -24.112  46.539  17.849  1.00  0.00              
ATOM    101  CA  TRP   101     -21.384  44.982  15.788  1.00  0.00              
ATOM    102  CA  PHE   102     -18.280  46.614  17.375  1.00  0.00              
ATOM    103  CA  PRO   103     -16.979  49.215  15.008  1.00  0.00              
ATOM    104  CA  GLN   104     -13.268  48.682  15.181  1.00  0.00              
ATOM    105  CA  ALA   105     -11.043  49.154  12.260  1.00  0.00              
ATOM    106  CA  GLY   106     -11.150  51.953   9.789  1.00  0.00              
ATOM    107  CA  ASP   107     -11.092  55.512  10.947  1.00  0.00              
ATOM    108  CA  ALA   108     -13.854  57.531   9.384  1.00  0.00              
ATOM    109  CA  GLY   109     -11.745  60.366   7.926  1.00  0.00              
ATOM    110  CA  MET   110      -9.142  57.939   6.472  1.00  0.00              
ATOM    111  CA  CYS   111     -11.854  55.783   4.926  1.00  0.00              
ATOM    112  CA  LEU   112     -13.541  58.807   3.343  1.00  0.00              
ATOM    113  CA  ASP   113     -10.149  59.840   1.886  1.00  0.00              
ATOM    114  CA  LEU   114      -9.569  56.321   0.477  1.00  0.00              
ATOM    115  CA  LEU   115     -13.042  56.393  -1.062  1.00  0.00              
ATOM    116  CA  ASP   116     -12.380  59.761  -2.680  1.00  0.00              
ATOM    117  CA  ASP   117      -9.252  58.086  -4.089  1.00  0.00              
ATOM    118  CA  GLY   118     -10.912  55.375  -5.907  1.00  0.00              
ATOM    119  CA  THR   119     -10.025  52.312  -3.916  1.00  0.00              
ATOM    120  CA  PHE   120     -13.618  51.458  -4.636  1.00  0.00              
ATOM    121  CA  LYS   121     -14.624  47.866  -4.601  1.00  0.00              
ATOM    122  CA  PRO   122     -17.335  46.354  -6.507  1.00  0.00              
TER                                                                             
END
