
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0351TS599_1
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351TS599_1.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    I       2      I       2           -
LGA    L       3      L       3           -
LGA    Y       4      Y       4           -
LGA    D       5      D       5           -
LGA    A       6      A       6           -
LGA    I       7      I       7           -
LGA    -       -      M       8           -
LGA    -       -      Y       9           -
LGA    -       -      K      10           -
LGA    M       8      Y      11          4.449
LGA    Y       9      P      12          4.627
LGA    K      10      N      13          3.745
LGA    Y      11      -       -           -
LGA    P      12      -       -           -
LGA    N      13      -       -           -
LGA    A      14      -       -           -
LGA    V      15      -       -           -
LGA    S      16      -       -           -
LGA    R      17      -       -           -
LGA    K      18      -       -           -
LGA    D      19      -       -           -
LGA    F      20      -       -           -
LGA    E      21      -       -           -
LGA    L      22      -       -           -
LGA    R      23      -       -           -
LGA    N      24      -       -           -
LGA    D      25      -       -           -
LGA    G      26      -       -           -
LGA    N      27      -       -           -
LGA    G      28      -       -           -
LGA    S      29      -       -           -
LGA    Y      30      -       -           -
LGA    I      31      -       -           -
LGA    E      32      -       -           -
LGA    K      33      -       -           -
LGA    W      34      -       -           -
LGA    N      35      -       -           -
LGA    L      36      -       -           -
LGA    R      37      -       -           -
LGA    A      38      A      14          4.334
LGA    P      39      V      15          3.613
LGA    L      40      S      16          4.918
LGA    -       -      R      17           -
LGA    -       -      K      18           -
LGA    -       -      D      19           -
LGA    P      41      F      20          2.950
LGA    T      42      E      21          3.231
LGA    -       -      L      22           -
LGA    -       -      R      23           -
LGA    -       -      N      24           -
LGA    -       -      D      25           -
LGA    -       -      G      26           -
LGA    -       -      N      27           -
LGA    -       -      G      28           -
LGA    -       -      S      29           -
LGA    -       -      Y      30           -
LGA    Q      43      I      31          3.442
LGA    A      44      E      32          3.014
LGA    E      45      K      33          1.832
LGA    L      46      W      34          2.915
LGA    E      47      -       -           -
LGA    T      48      -       -           -
LGA    W      49      N      35           #
LGA    W      50      L      36           -
LGA    E      51      R      37           -
LGA    E      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    K      55      -       -           -
LGA    N      56      -       -           -
LGA    P      57      -       -           -
LGA    P      58      -       -           -
LGA    Y      59      -       -           -
LGA    E      60      -       -           -
LGA    P      61      -       -           -
LGA    P      62      -       -           -
LGA    D      63      -       -           -
LGA    Q      64      -       -           -
LGA    V      65      -       -           -
LGA    E      66      -       -           -
LGA    L      67      -       -           -
LGA    L      68      -       -           -
LGA    A      69      -       -           -
LGA    Q      70      -       -           -
LGA    E      71      A      38           #
LGA    L      72      -       -           -
LGA    S      73      -       -           -
LGA    Q      74      -       -           -
LGA    E      75      P      39          2.693
LGA    K      76      L      40          1.781
LGA    L      77      P      41          4.006
LGA    A      78      T      42          2.812
LGA    R      79      -       -           -
LGA    K      80      Q      43          4.741
LGA    Q      81      A      44          3.213
LGA    L      82      E      45          2.124
LGA    E      83      L      46          2.487
LGA    E      84      E      47          1.309
LGA    L      85      T      48          0.484
LGA    N      86      W      49          1.299
LGA    K      87      W      50          0.972
LGA    T      88      E      51          0.941
LGA    L      89      E      52          1.604
LGA    G      90      L      53          1.705
LGA    N      91      Q      54          2.090
LGA    E      92      K      55          1.705
LGA    L      93      N      56          1.342
LGA    S      94      -       -           -
LGA    D      95      -       -           -
LGA    I      96      -       -           -
LGA    K      97      -       -           -
LGA    L      98      -       -           -
LGA    S      99      -       -           -
LGA    L     100      -       -           -
LGA    L     101      -       -           -
LGA    S     102      -       -           -
LGA    L     103      -       -           -
LGA    K     104      -       -           -
LGA    G     105      -       -           -
LGA    D     106      -       -           -
LGA    Y     107      -       -           -
LGA    A     108      -       -           -
LGA    E     109      -       -           -
LGA    L     110      -       -           -
LGA    E     111      -       -           -
LGA    H     112      -       -           -
LGA    H     113      -       -           -
LGA    H     114      -       -           -
LGA    H     115      -       -           -
LGA    H     116      -       -           -
LGA    H     117      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117   56    5.0     30    2.95     6.67     35.042     0.984

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.606919 * X  +   0.153656 * Y  +  -0.779768 * Z  +   4.823715
  Y_new =   0.281414 * X  +  -0.876020 * Y  +  -0.391657 * Z  +   3.616334
  Z_new =  -0.743273 * X  +  -0.457142 * Y  +   0.488433 * Z  +  -1.130381 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.752318    2.389275  [ DEG:   -43.1047    136.8954 ]
  Theta =   0.837950    2.303643  [ DEG:    48.0110    131.9890 ]
  Phi   =   2.707425   -0.434168  [ DEG:   155.1240    -24.8760 ]
 
# 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: T0351TS599_1                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351TS599_1.T0351.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117   56   5.0   30   2.95    6.67  35.042
REMARK  ---------------------------------------------------------- 
MOLECULE T0351TS599_1
PFRMAT TS                                                                       
TARGET T0351                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -0.110  14.395  -8.516  1.00  0.00              
ATOM      2  CA  ILE     2       3.419  14.047  -6.270  1.00  0.00              
ATOM      3  CA  LEU     3       1.862  10.856  -7.467  1.00  0.00              
ATOM      4  CA  TYR     4       1.906  14.083  -5.429  1.00  0.00              
ATOM      5  CA  ASP     5      -0.665  12.899  -2.848  1.00  0.00              
ATOM      6  CA  ALA     6       0.944   9.479  -2.610  1.00  0.00              
ATOM      7  CA  ILE     7       4.589  10.451  -2.030  1.00  0.00              
ATOM      8  CA  MET     8       6.417   7.676  -0.151  1.00  0.00              
ATOM      9  CA  TYR     9       9.574   8.303   1.770  1.00  0.00              
ATOM     10  CA  LYS    10      11.220   5.416   3.530  1.00  0.00              
ATOM     11  CA  TYR    11      13.347   5.959   6.558  1.00  0.00              
ATOM     12  CA  PRO    12      14.174   3.132   8.876  1.00  0.00              
ATOM     13  CA  ASN    13      15.351   4.896  12.057  1.00  0.00              
ATOM     14  CA  ALA    14      17.389   7.563  10.338  1.00  0.00              
ATOM     15  CA  VAL    15      20.434   5.549   9.130  1.00  0.00              
ATOM     16  CA  SER    16      23.006   8.117   8.191  1.00  0.00              
ATOM     17  CA  ARG    17      24.233   7.204   4.757  1.00  0.00              
ATOM     18  CA  LYS    18      27.806   6.189   5.383  1.00  0.00              
ATOM     19  CA  ASP    19      27.092   4.058   8.499  1.00  0.00              
ATOM     20  CA  PHE    20      24.092   2.038   7.986  1.00  0.00              
ATOM     21  CA  GLU    21      23.357  -1.566   8.762  1.00  0.00              
ATOM     22  CA  LEU    22      19.780  -2.521   9.522  1.00  0.00              
ATOM     23  CA  ARG    23      19.346  -5.343  12.013  1.00  0.00              
ATOM     24  CA  ASN    24      16.465  -7.556  12.365  1.00  0.00              
ATOM     25  CA  ASP    25      15.262  -7.832  15.959  1.00  0.00              
ATOM     26  CA  GLY    26      14.768 -11.585  16.294  1.00  0.00              
ATOM     27  CA  ASN    27      10.956 -11.593  16.575  1.00  0.00              
ATOM     28  CA  GLY    28       9.888  -9.992  13.280  1.00  0.00              
ATOM     29  CA  SER    29       9.710  -6.336  14.338  1.00  0.00              
ATOM     30  CA  TYR    30      11.837  -4.609  11.698  1.00  0.00              
ATOM     31  CA  ILE    31       9.445  -2.005  10.245  1.00  0.00              
ATOM     32  CA  GLU    32       7.882  -0.934  13.516  1.00  0.00              
ATOM     33  CA  LYS    33      11.156  -0.620  15.465  1.00  0.00              
ATOM     34  CA  TRP    34      12.769   1.482  12.718  1.00  0.00              
ATOM     35  CA  ASN    35       9.908   3.835  11.787  1.00  0.00              
ATOM     36  CA  LEU    36       8.948   3.243   8.208  1.00  0.00              
ATOM     37  CA  ARG    37       7.223   5.933   6.325  1.00  0.00              
ATOM     38  CA  ALA    38       4.822   4.803   3.654  1.00  0.00              
ATOM     39  CA  PRO    39       2.760   7.463   1.826  1.00  0.00              
ATOM     40  CA  LEU    40      -0.668   5.918   1.880  1.00  0.00              
ATOM     41  CA  PRO    41      -2.797   7.547  -0.845  1.00  0.00              
ATOM     42  CA  THR    42      -6.181   8.141   0.667  1.00  0.00              
ATOM     43  CA  GLN    43      -9.217   8.023  -1.521  1.00  0.00              
ATOM     44  CA  ALA    44     -10.019  11.598  -0.453  1.00  0.00              
ATOM     45  CA  GLU    45      -6.641  12.779  -1.769  1.00  0.00              
ATOM     46  CA  LEU    46      -7.244  11.030  -5.095  1.00  0.00              
ATOM     47  CA  GLU    47     -10.693  12.648  -5.367  1.00  0.00              
ATOM     48  CA  THR    48      -9.209  16.069  -4.611  1.00  0.00              
ATOM     49  CA  TRP    49      -6.501  15.651  -7.269  1.00  0.00              
ATOM     50  CA  TRP    50      -9.097  14.647  -9.868  1.00  0.00              
ATOM     51  CA  GLU    51     -11.341  17.644  -9.122  1.00  0.00              
ATOM     52  CA  GLU    52      -8.359  20.041  -9.368  1.00  0.00              
ATOM     53  CA  LEU    53      -7.679  18.716 -12.886  1.00  0.00              
ATOM     54  CA  GLN    54     -11.313  19.172 -13.989  1.00  0.00              
ATOM     55  CA  LYS    55     -11.293  22.808 -12.807  1.00  0.00              
ATOM     56  CA  ASN    56      -8.102  23.897 -14.517  1.00  0.00              
ATOM     57  CA  PRO    57      -8.845  25.831 -17.765  1.00  0.00              
ATOM     58  CA  PRO    58      -6.857  23.955 -20.324  1.00  0.00              
ATOM     59  CA  TYR    59      -7.576  20.528 -18.773  1.00  0.00              
ATOM     60  CA  GLU    60     -11.372  20.844 -18.628  1.00  0.00              
ATOM     61  CA  PRO    61     -11.670  19.752 -22.271  1.00  0.00              
ATOM     62  CA  PRO    62     -13.832  16.654 -22.544  1.00  0.00              
ATOM     63  CA  ASP    63     -11.352  14.228 -24.108  1.00  0.00              
ATOM     64  CA  GLN    64      -8.469  14.795 -21.704  1.00  0.00              
ATOM     65  CA  VAL    65     -10.227  14.879 -18.318  1.00  0.00              
ATOM     66  CA  GLU    66     -12.168  11.656 -18.869  1.00  0.00              
ATOM     67  CA  LEU    67      -9.005   9.855 -20.019  1.00  0.00              
ATOM     68  CA  LEU    68      -7.067  11.206 -17.027  1.00  0.00              
ATOM     69  CA  ALA    69      -9.774  10.170 -14.599  1.00  0.00              
ATOM     70  CA  GLN    70      -9.741   6.675 -16.151  1.00  0.00              
ATOM     71  CA  GLU    71      -5.964   6.521 -15.898  1.00  0.00              
ATOM     72  CA  LEU    72      -6.123   7.580 -12.203  1.00  0.00              
ATOM     73  CA  SER    73      -8.739   4.959 -11.465  1.00  0.00              
ATOM     74  CA  GLN    74      -6.609   2.227 -13.129  1.00  0.00              
ATOM     75  CA  GLU    75      -3.568   3.358 -11.095  1.00  0.00              
ATOM     76  CA  LYS    76      -5.562   3.346  -7.866  1.00  0.00              
ATOM     77  CA  LEU    77      -6.878  -0.181  -8.593  1.00  0.00              
ATOM     78  CA  ALA    78      -3.359  -1.463  -9.365  1.00  0.00              
ATOM     79  CA  ARG    79      -2.014  -0.034  -6.117  1.00  0.00              
ATOM     80  CA  LYS    80      -4.854  -1.828  -4.239  1.00  0.00              
ATOM     81  CA  GLN    81      -3.894  -5.170  -5.832  1.00  0.00              
ATOM     82  CA  LEU    82      -0.240  -4.640  -4.843  1.00  0.00              
ATOM     83  CA  GLU    83      -1.365  -3.822  -1.298  1.00  0.00              
ATOM     84  CA  GLU    84      -3.222  -7.128  -1.173  1.00  0.00              
ATOM     85  CA  LEU    85      -0.054  -8.898  -2.433  1.00  0.00              
ATOM     86  CA  ASN    86       1.981  -7.090   0.256  1.00  0.00              
ATOM     87  CA  LYS    87      -0.392  -8.287   2.975  1.00  0.00              
ATOM     88  CA  THR    88      -0.175 -11.875   1.748  1.00  0.00              
ATOM     89  CA  LEU    89       3.629 -11.795   1.555  1.00  0.00              
ATOM     90  CA  GLY    90       4.035  -9.836   4.795  1.00  0.00              
ATOM     91  CA  ASN    91       2.595 -12.720   6.825  1.00  0.00              
ATOM     92  CA  GLU    92       4.932 -15.185   5.103  1.00  0.00              
ATOM     93  CA  LEU    93       7.985 -12.947   5.773  1.00  0.00              
ATOM     94  CA  SER    94       7.148 -12.532   9.466  1.00  0.00              
ATOM     95  CA  ASP    95       6.788 -16.301   9.780  1.00  0.00              
ATOM     96  CA  ILE    96      10.269 -16.885   8.220  1.00  0.00              
ATOM     97  CA  LYS    97      12.151 -14.110   9.951  1.00  0.00              
ATOM     98  CA  LEU    98      13.894 -11.775   7.582  1.00  0.00              
ATOM     99  CA  SER    99      16.725  -9.575   8.686  1.00  0.00              
ATOM    100  CA  LEU   100      17.626  -6.471   6.776  1.00  0.00              
ATOM    101  CA  LEU   101      21.210  -5.429   6.725  1.00  0.00              
ATOM    102  CA  SER   102      21.796  -2.094   4.982  1.00  0.00              
ATOM    103  CA  LEU   103      25.300  -1.177   4.075  1.00  0.00              
ATOM    104  CA  LYS   104      26.173   2.564   4.131  1.00  0.00              
ATOM    105  CA  GLY   105      28.350   2.623   0.953  1.00  0.00              
ATOM    106  CA  ASP   106      25.472   0.567  -0.597  1.00  0.00              
ATOM    107  CA  TYR   107      22.849   3.167   0.030  1.00  0.00              
ATOM    108  CA  ALA   108      21.015   2.841  -3.220  1.00  0.00              
ATOM    109  CA  GLU   109      20.316  -0.864  -2.600  1.00  0.00              
ATOM    110  CA  LEU   110      19.101  -0.574   0.937  1.00  0.00              
ATOM    111  CA  GLU   111      16.957   2.485   0.295  1.00  0.00              
ATOM    112  CA  HIS   112      14.993   1.383  -2.713  1.00  0.00              
ATOM    113  CA  HIS   113      13.745  -1.889  -1.270  1.00  0.00              
ATOM    114  CA  HIS   114      12.433   0.155   1.689  1.00  0.00              
ATOM    115  CA  HIS   115      10.915   3.251  -0.756  1.00  0.00              
ATOM    116  CA  HIS   116       8.642   5.811  -3.201  1.00  0.00              
ATOM    117  CA  HIS   117      10.312   8.915  -3.919  1.00  0.00              
TER                                                                             
END
