
#######################################################
#                                                     #
#                        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  123 (  123),  selected  123 , name T0382TS599_5
# Molecule2: number of CA atoms  121 (  929),  selected  121 , name T0382.pdb
# PARAMETERS: T0382TS599_5.T0382.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      K       3           -
LGA    S       2      L       4           -
LGA    K       3      D       5           -
LGA    L       4      L       6           -
LGA    D       5      H       7           -
LGA    L       6      Q       8           -
LGA    H       7      M       9           -
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    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          2.009
LGA    D      57      D      13          2.553
LGA    -       -      L      14           -
LGA    Q      58      V      15          1.280
LGA    R      59      A      16          1.801
LGA    T      60      L      17          1.070
LGA    A      61      F      18          0.739
LGA    L      62      A      19          2.228
LGA    L      63      K      20          2.323
LGA    S      64      V      21          1.671
LGA    L      65      T      22          1.841
LGA    F      66      V      23          2.327
LGA    E      67      E      24          2.106
LGA    Y      68      Q      25          2.151
LGA    P      69      D      26          2.957
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          4.436
LGA    R      74      Q      72          5.201
LGA    L      75      V      73           -
LGA    -       -      R      74           -
LGA    Q      76      L      75           #
LGA    A      77      Q      76          2.300
LGA    A      78      A      77          3.485
LGA    K      79      A      78          1.698
LGA    L      80      K      79          3.877
LGA    T      81      L      80          5.164
LGA    L      82      -       -           -
LGA    A      83      T      81          3.197
LGA    V      84      L      82          2.935
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    A      85      A      85          1.729
LGA    P      86      P      86          1.643
LGA    V      87      V      87          1.362
LGA    K      88      K      88          1.316
LGA    A      89      A      89          1.722
LGA    R      90      R      90          1.606
LGA    E      91      E      91          0.427
LGA    Q      92      Q      92          0.242
LGA    L      93      L      93          1.089
LGA    E      94      E      94          1.486
LGA    A      95      A      95          1.310
LGA    I      96      I      96          1.402
LGA    V      97      V      97          2.178
LGA    S      98      S      98          2.454
LGA    S      99      S      99          2.828
LGA    K     100      K     100          3.509
LGA    W     101      W     101          2.016
LGA    F     102      F     102          2.236
LGA    -       -      P     103           -
LGA    -       -      Q     104           -
LGA    P     103      A     105          0.611
LGA    Q     104      G     106          2.640
LGA    A     105      D     107          2.033
LGA    G     106      A     108          4.676
LGA    -       -      G     109           -
LGA    -       -      M     110           -
LGA    D     107      C     111          1.742
LGA    A     108      L     112          1.411
LGA    -       -      D     113           -
LGA    G     109      L     114          2.605
LGA    M     110      L     115          4.534
LGA    C     111      D     116           -
LGA    L     112      D     117           -
LGA    D     113      G     118           #
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    L     114      K     121          4.586
LGA    L     115      P     122          3.298
LGA    D     116      -       -           -
LGA    D     117      K     123          1.523
LGA    G     118      -       -           -
LGA    T     119      -       -           -
LGA    F     120      -       -           -
LGA    K     121      -       -           -
LGA    P     122      -       -           -
LGA    K     123      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  123  121    5.0     52    2.58    40.38     30.075     1.939

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.200303 * X  +  -0.800752 * Y  +  -0.564513 * Z  + -24.395069
  Y_new =  -0.912022 * X  +   0.058089 * Y  +  -0.406006 * Z  +  47.137550
  Z_new =   0.357902 * X  +   0.596172 * Y  +  -0.718669 * Z  +   1.547721 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.449091   -0.692502  [ DEG:   140.3226    -39.6774 ]
  Theta =  -0.366020   -2.775572  [ DEG:   -20.9714   -159.0286 ]
  Phi   =  -1.354604    1.786988  [ DEG:   -77.6131    102.3869 ]
 
# 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                                  
REMARK     2: T0382.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_5.T0382.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  123  121   5.0   52   2.58   40.38  30.075
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_5
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -32.030  42.194   6.316  1.00  0.00              
ATOM      2  CA  SER     2     -31.331  43.133  10.082  1.00  0.00              
ATOM      3  CA  LYS     3     -28.081  42.262  11.858  1.00  0.00              
ATOM      4  CA  LEU     4     -26.786  40.646   8.201  1.00  0.00              
ATOM      5  CA  ASP     5     -25.079  37.491   9.405  1.00  0.00              
ATOM      6  CA  LEU     6     -21.793  36.944   7.502  1.00  0.00              
ATOM      7  CA  HIS     7     -21.463  33.223   8.204  1.00  0.00              
ATOM      8  CA  GLN     8     -24.819  32.376   6.597  1.00  0.00              
ATOM      9  CA  MET     9     -24.603  34.402   3.450  1.00  0.00              
ATOM     10  CA  THR    10     -23.851  32.823   0.092  1.00  0.00              
ATOM     11  CA  THR    11     -23.866  35.205  -2.895  1.00  0.00              
ATOM     12  CA  GLN    12     -26.945  33.500  -4.415  1.00  0.00              
ATOM     13  CA  ASP    13     -28.833  33.890  -1.115  1.00  0.00              
ATOM     14  CA  LEU    14     -28.024  37.612  -1.003  1.00  0.00              
ATOM     15  CA  VAL    15     -29.220  38.076  -4.596  1.00  0.00              
ATOM     16  CA  ALA    16     -32.496  36.232  -3.825  1.00  0.00              
ATOM     17  CA  LEU    17     -33.081  38.433  -0.740  1.00  0.00              
ATOM     18  CA  PHE    18     -32.364  41.585  -2.814  1.00  0.00              
ATOM     19  CA  ALA    19     -34.832  40.397  -5.491  1.00  0.00              
ATOM     20  CA  LYS    20     -37.460  39.710  -2.846  1.00  0.00              
ATOM     21  CA  VAL    21     -37.037  43.302  -1.582  1.00  0.00              
ATOM     22  CA  THR    22     -37.382  44.654  -5.136  1.00  0.00              
ATOM     23  CA  VAL    23     -40.593  42.637  -5.728  1.00  0.00              
ATOM     24  CA  GLU    24     -42.118  43.835  -2.412  1.00  0.00              
ATOM     25  CA  GLN    25     -41.294  47.480  -3.267  1.00  0.00              
ATOM     26  CA  ASP    26     -43.308  47.268  -6.515  1.00  0.00              
ATOM     27  CA  ASP    27     -46.480  46.177  -4.730  1.00  0.00              
ATOM     28  CA  ALA    28     -46.077  48.776  -1.946  1.00  0.00              
ATOM     29  CA  LEU    29     -45.775  51.686  -4.361  1.00  0.00              
ATOM     30  CA  LEU    30     -49.003  50.884  -6.243  1.00  0.00              
ATOM     31  CA  GLY    31     -50.936  50.581  -2.994  1.00  0.00              
ATOM     32  CA  ASN    32     -49.596  53.683  -1.362  1.00  0.00              
ATOM     33  CA  GLN    33     -50.242  56.228  -4.040  1.00  0.00              
ATOM     34  CA  ILE    34     -47.230  58.438  -4.305  1.00  0.00              
ATOM     35  CA  SER    35     -44.391  60.470  -2.904  1.00  0.00              
ATOM     36  CA  ARG    36     -42.892  57.935  -0.477  1.00  0.00              
ATOM     37  CA  PHE    37     -43.655  55.302  -3.092  1.00  0.00              
ATOM     38  CA  ASN    38     -41.377  57.049  -5.628  1.00  0.00              
ATOM     39  CA  ARG    39     -38.623  57.102  -3.018  1.00  0.00              
ATOM     40  CA  LEU    40     -39.053  53.430  -2.203  1.00  0.00              
ATOM     41  CA  PHE    41     -39.027  52.624  -5.972  1.00  0.00              
ATOM     42  CA  GLY    42     -35.808  54.356  -6.443  1.00  0.00              
ATOM     43  CA  VAL    43     -34.157  52.465  -3.560  1.00  0.00              
ATOM     44  CA  MET    44     -35.388  49.100  -4.671  1.00  0.00              
ATOM     45  CA  ALA    45     -34.267  49.752  -8.189  1.00  0.00              
ATOM     46  CA  GLU    46     -30.815  50.811  -7.070  1.00  0.00              
ATOM     47  CA  ILE    47     -30.306  47.685  -4.920  1.00  0.00              
ATOM     48  CA  ALA    48     -31.492  45.333  -7.604  1.00  0.00              
ATOM     49  CA  ASP    49     -29.233  46.930 -10.108  1.00  0.00              
ATOM     50  CA  GLU    50     -26.264  46.724  -7.810  1.00  0.00              
ATOM     51  CA  LEU    51     -26.964  43.117  -6.935  1.00  0.00              
ATOM     52  CA  LYS    52     -27.349  41.987 -10.530  1.00  0.00              
ATOM     53  CA  ALA    53     -24.178  43.672 -11.611  1.00  0.00              
ATOM     54  CA  ARG    54     -22.078  42.192  -8.738  1.00  0.00              
ATOM     55  CA  ASP    55     -19.509  40.160 -10.393  1.00  0.00              
ATOM     56  CA  GLY    56     -18.846  36.690  -9.090  1.00  0.00              
ATOM     57  CA  ASP    57     -15.275  37.746  -8.100  1.00  0.00              
ATOM     58  CA  GLN    58     -16.650  40.574  -5.922  1.00  0.00              
ATOM     59  CA  ARG    59     -18.751  38.001  -4.012  1.00  0.00              
ATOM     60  CA  THR    60     -15.544  36.089  -3.234  1.00  0.00              
ATOM     61  CA  ALA    61     -13.853  39.261  -1.935  1.00  0.00              
ATOM     62  CA  LEU    62     -16.860  40.028   0.287  1.00  0.00              
ATOM     63  CA  LEU    63     -16.755  36.465   1.603  1.00  0.00              
ATOM     64  CA  SER    64     -13.108  37.088   2.470  1.00  0.00              
ATOM     65  CA  LEU    65     -13.963  40.171   4.532  1.00  0.00              
ATOM     66  CA  PHE    66     -16.540  38.157   6.452  1.00  0.00              
ATOM     67  CA  GLU    67     -13.818  35.676   7.386  1.00  0.00              
ATOM     68  CA  TYR    68     -12.170  38.720   9.105  1.00  0.00              
ATOM     69  CA  PRO    69     -11.548  37.888  12.609  1.00  0.00              
ATOM     70  CA  ASN    70     -13.057  40.837  14.364  1.00  0.00              
ATOM     71  CA  MET    71     -16.317  39.142  15.592  1.00  0.00              
ATOM     72  CA  GLN    72     -18.145  42.500  15.495  1.00  0.00              
ATOM     73  CA  VAL    73     -17.200  44.722  12.766  1.00  0.00              
ATOM     74  CA  ARG    74     -14.259  46.185  11.128  1.00  0.00              
ATOM     75  CA  LEU    75     -14.722  49.447   9.281  1.00  0.00              
ATOM     76  CA  GLN    76     -12.028  49.650   6.625  1.00  0.00              
ATOM     77  CA  ALA    77     -12.455  45.949   5.753  1.00  0.00              
ATOM     78  CA  ALA    78     -16.199  46.116   5.272  1.00  0.00              
ATOM     79  CA  LYS    79     -16.242  49.346   3.348  1.00  0.00              
ATOM     80  CA  LEU    80     -13.448  48.315   0.953  1.00  0.00              
ATOM     81  CA  THR    81     -15.006  44.947   0.106  1.00  0.00              
ATOM     82  CA  LEU    82     -18.302  46.833  -0.584  1.00  0.00              
ATOM     83  CA  ALA    83     -18.730  50.089  -2.328  1.00  0.00              
ATOM     84  CA  VAL    84     -16.985  53.352  -1.557  1.00  0.00              
ATOM     85  CA  ALA    85     -18.657  56.677  -2.013  1.00  0.00              
ATOM     86  CA  PRO    86     -18.196  59.077   0.943  1.00  0.00              
ATOM     87  CA  VAL    87     -21.860  59.727   1.850  1.00  0.00              
ATOM     88  CA  LYS    88     -22.640  55.999   1.599  1.00  0.00              
ATOM     89  CA  ALA    89     -19.519  55.026   3.581  1.00  0.00              
ATOM     90  CA  ARG    90     -20.589  57.321   6.466  1.00  0.00              
ATOM     91  CA  GLU    91     -23.999  55.733   6.291  1.00  0.00              
ATOM     92  CA  GLN    92     -22.629  52.151   6.414  1.00  0.00              
ATOM     93  CA  LEU    93     -20.477  52.989   9.410  1.00  0.00              
ATOM     94  CA  GLU    94     -23.458  54.488  11.164  1.00  0.00              
ATOM     95  CA  ALA    95     -25.602  51.408  10.452  1.00  0.00              
ATOM     96  CA  ILE    96     -22.876  49.088  11.802  1.00  0.00              
ATOM     97  CA  VAL    97     -22.509  51.175  14.897  1.00  0.00              
ATOM     98  CA  SER    98     -26.316  51.116  15.466  1.00  0.00              
ATOM     99  CA  SER    99     -26.654  47.338  14.982  1.00  0.00              
ATOM    100  CA  LYS   100     -24.234  46.517  17.805  1.00  0.00              
ATOM    101  CA  TRP   101     -21.484  44.964  15.770  1.00  0.00              
ATOM    102  CA  PHE   102     -18.396  46.570  17.412  1.00  0.00              
ATOM    103  CA  PRO   103     -17.051  49.184  15.083  1.00  0.00              
ATOM    104  CA  GLN   104     -13.346  48.634  15.304  1.00  0.00              
ATOM    105  CA  ALA   105     -11.078  49.117  12.417  1.00  0.00              
ATOM    106  CA  GLY   106     -11.139  51.936   9.967  1.00  0.00              
ATOM    107  CA  ASP   107     -11.082  55.486  11.152  1.00  0.00              
ATOM    108  CA  ALA   108     -13.814  57.528   9.567  1.00  0.00              
ATOM    109  CA  GLY   109     -11.673  60.365   8.160  1.00  0.00              
ATOM    110  CA  MET   110      -9.061  57.938   6.723  1.00  0.00              
ATOM    111  CA  CYS   111     -11.759  55.806   5.123  1.00  0.00              
ATOM    112  CA  LEU   112     -13.412  58.849   3.540  1.00  0.00              
ATOM    113  CA  ASP   113      -9.996  59.878   2.139  1.00  0.00              
ATOM    114  CA  LEU   114      -9.412  56.367   0.711  1.00  0.00              
ATOM    115  CA  LEU   115     -12.862  56.466  -0.876  1.00  0.00              
ATOM    116  CA  ASP   116     -12.164  59.843  -2.459  1.00  0.00              
ATOM    117  CA  ASP   117      -9.024  58.166  -3.837  1.00  0.00              
ATOM    118  CA  GLY   118     -10.670  55.476  -5.698  1.00  0.00              
ATOM    119  CA  THR   119      -9.824  52.394  -3.718  1.00  0.00              
ATOM    120  CA  PHE   120     -13.409  51.561  -4.494  1.00  0.00              
ATOM    121  CA  LYS   121     -14.431  47.973  -4.501  1.00  0.00              
ATOM    122  CA  PRO   122     -17.122  46.488  -6.456  1.00  0.00              
ATOM    123  CA  LYS   123     -20.538  47.154  -5.599  1.00  0.00              
TER                                                                             
END
