
#######################################################
#                                                     #
#                        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_3
# Molecule2: number of CA atoms   56 (  935),  selected   56 , name T0351.pdb
# PARAMETERS: T0351TS599_3.T0351.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      I       2           -
LGA    -       -      L       3           -
LGA    M       1      Y       4          2.475
LGA    I       2      D       5          3.599
LGA    L       3      -       -           -
LGA    Y       4      -       -           -
LGA    D       5      A       6          1.010
LGA    A       6      I       7          4.277
LGA    I       7      M       8          4.304
LGA    M       8      Y       9           -
LGA    Y       9      K      10           -
LGA    K      10      Y      11           -
LGA    Y      11      P      12           -
LGA    P      12      N      13           -
LGA    N      13      -       -           -
LGA    A      14      -       -           -
LGA    V      15      -       -           -
LGA    S      16      A      14          5.950
LGA    R      17      V      15          3.611
LGA    K      18      S      16          1.924
LGA    D      19      R      17          1.722
LGA    F      20      K      18          2.525
LGA    -       -      D      19           -
LGA    -       -      F      20           -
LGA    E      21      E      21          5.590
LGA    L      22      L      22           -
LGA    R      23      R      23           -
LGA    N      24      N      24           -
LGA    D      25      D      25           -
LGA    G      26      G      26           -
LGA    N      27      N      27           -
LGA    G      28      G      28           -
LGA    S      29      S      29           -
LGA    Y      30      Y      30           -
LGA    -       -      I      31           -
LGA    I      31      E      32           #
LGA    E      32      -       -           -
LGA    K      33      -       -           -
LGA    W      34      -       -           -
LGA    N      35      -       -           -
LGA    L      36      K      33          2.768
LGA    R      37      W      34          1.723
LGA    A      38      N      35           -
LGA    -       -      L      36           -
LGA    -       -      R      37           -
LGA    -       -      A      38           -
LGA    -       -      P      39           -
LGA    P      39      L      40          5.514
LGA    L      40      P      41          3.164
LGA    P      41      T      42          6.182
LGA    T      42      Q      43          4.763
LGA    Q      43      A      44          2.489
LGA    -       -      E      45           -
LGA    -       -      L      46           -
LGA    -       -      E      47           -
LGA    A      44      T      48          2.353
LGA    E      45      W      49          2.030
LGA    L      46      W      50          2.472
LGA    E      47      E      51          2.147
LGA    T      48      E      52          1.531
LGA    W      49      L      53          2.105
LGA    W      50      Q      54           #
LGA    E      51      K      55          1.766
LGA    E      52      N      56          1.639
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      -       -           -
LGA    L      72      -       -           -
LGA    S      73      -       -           -
LGA    Q      74      -       -           -
LGA    E      75      -       -           -
LGA    K      76      -       -           -
LGA    L      77      -       -           -
LGA    A      78      -       -           -
LGA    R      79      -       -           -
LGA    K      80      -       -           -
LGA    Q      81      -       -           -
LGA    L      82      -       -           -
LGA    E      83      -       -           -
LGA    E      84      -       -           -
LGA    L      85      -       -           -
LGA    N      86      -       -           -
LGA    K      87      -       -           -
LGA    T      88      -       -           -
LGA    L      89      -       -           -
LGA    G      90      -       -           -
LGA    N      91      -       -           -
LGA    E      92      -       -           -
LGA    L      93      -       -           -
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     26    3.40     7.69     29.810     0.743

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.618567 * X  +   0.758895 * Y  +  -0.203598 * Z  + -10.375191
  Y_new =  -0.593483 * X  +  -0.281448 * Y  +   0.754033 * Z  +   3.495266
  Z_new =   0.514930 * X  +   0.587252 * Y  +   0.624486 * Z  +  -1.614989 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.754680   -2.386913  [ DEG:    43.2400   -136.7600 ]
  Theta =  -0.540926   -2.600667  [ DEG:   -30.9928   -149.0072 ]
  Phi   =  -2.376888    0.764705  [ DEG:  -136.1856     43.8144 ]
 
# 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_3                                  
REMARK     2: T0351.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0351TS599_3.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   26   3.40    7.69  29.810
REMARK  ---------------------------------------------------------- 
MOLECULE T0351TS599_3
PFRMAT TS                                                                       
TARGET T0351                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -0.293   0.887   6.515  1.00  0.00              
ATOM      2  CA  ILE     2       3.520  -0.467   5.384  1.00  0.00              
ATOM      3  CA  LEU     3       0.015  -1.973   7.145  1.00  0.00              
ATOM      4  CA  TYR     4       2.918  -1.848   4.133  1.00  0.00              
ATOM      5  CA  ASP     5       0.270  -3.049   1.723  1.00  0.00              
ATOM      6  CA  ALA     6      -2.318  -0.534   2.910  1.00  0.00              
ATOM      7  CA  ILE     7      -0.187   2.591   2.701  1.00  0.00              
ATOM      8  CA  MET     8      -2.572   5.256   1.360  1.00  0.00              
ATOM      9  CA  TYR     9      -1.044   8.256  -0.330  1.00  0.00              
ATOM     10  CA  LYS    10      -3.075  11.394  -0.727  1.00  0.00              
ATOM     11  CA  TYR    11      -1.906  14.023  -3.128  1.00  0.00              
ATOM     12  CA  PRO    12      -1.789  17.635  -2.055  1.00  0.00              
ATOM     13  CA  ASN    13       1.596  18.985  -3.228  1.00  0.00              
ATOM     14  CA  ALA    14       2.970  19.944   0.163  1.00  0.00              
ATOM     15  CA  VAL    15       1.911  17.143   2.420  1.00  0.00              
ATOM     16  CA  SER    16       3.879  13.937   2.542  1.00  0.00              
ATOM     17  CA  ARG    17       2.304  11.033   0.610  1.00  0.00              
ATOM     18  CA  LYS    18       0.899   9.067   3.494  1.00  0.00              
ATOM     19  CA  ASP    19      -0.821  12.069   5.088  1.00  0.00              
ATOM     20  CA  PHE    20      -2.647  14.243   2.559  1.00  0.00              
ATOM     21  CA  GLU    21      -5.598  16.094   4.157  1.00  0.00              
ATOM     22  CA  LEU    22      -8.757  16.621   2.033  1.00  0.00              
ATOM     23  CA  ARG    23     -10.691  19.818   2.082  1.00  0.00              
ATOM     24  CA  ASN    24     -14.377  20.092   1.412  1.00  0.00              
ATOM     25  CA  ASP    25     -14.767  23.325  -0.467  1.00  0.00              
ATOM     26  CA  GLY    26     -18.259  24.259   0.525  1.00  0.00              
ATOM     27  CA  ASN    27     -20.619  22.372  -1.852  1.00  0.00              
ATOM     28  CA  GLY    28     -19.385  18.807  -1.586  1.00  0.00              
ATOM     29  CA  SER    29     -16.420  18.406  -3.947  1.00  0.00              
ATOM     30  CA  TYR    30     -13.314  17.576  -1.922  1.00  0.00              
ATOM     31  CA  ILE    31     -11.840  14.530  -3.523  1.00  0.00              
ATOM     32  CA  GLU    32     -12.319  15.457  -7.183  1.00  0.00              
ATOM     33  CA  LYS    33     -10.773  18.951  -6.776  1.00  0.00              
ATOM     34  CA  TRP    34      -7.703  17.611  -4.963  1.00  0.00              
ATOM     35  CA  ASN    35      -7.023  14.499  -7.081  1.00  0.00              
ATOM     36  CA  LEU    36      -6.658  11.932  -4.261  1.00  0.00              
ATOM     37  CA  ARG    37      -4.487   9.005  -5.147  1.00  0.00              
ATOM     38  CA  ALA    38      -4.659   5.937  -2.957  1.00  0.00              
ATOM     39  CA  PRO    39      -2.078   3.258  -3.458  1.00  0.00              
ATOM     40  CA  LEU    40      -4.155   0.201  -4.339  1.00  0.00              
ATOM     41  CA  PRO    41      -2.760  -2.918  -2.610  1.00  0.00              
ATOM     42  CA  THR    42      -2.338  -5.470  -5.391  1.00  0.00              
ATOM     43  CA  GLN    43      -3.320  -9.026  -4.708  1.00  0.00              
ATOM     44  CA  ALA    44       0.366 -10.082  -4.974  1.00  0.00              
ATOM     45  CA  GLU    45       1.361  -7.569  -2.306  1.00  0.00              
ATOM     46  CA  LEU    46      -1.345  -8.740   0.116  1.00  0.00              
ATOM     47  CA  GLU    47      -0.257 -12.331  -0.370  1.00  0.00              
ATOM     48  CA  THR    48       3.372 -11.287   0.293  1.00  0.00              
ATOM     49  CA  TRP    49       2.421  -9.406   3.468  1.00  0.00              
ATOM     50  CA  TRP    50       0.429 -12.398   4.695  1.00  0.00              
ATOM     51  CA  GLU    51       3.297 -14.796   4.018  1.00  0.00              
ATOM     52  CA  GLU    52       5.737 -12.496   5.865  1.00  0.00              
ATOM     53  CA  LEU    53       3.411 -12.435   8.890  1.00  0.00              
ATOM     54  CA  GLN    54       3.002 -16.243   9.063  1.00  0.00              
ATOM     55  CA  LYS    55       6.805 -16.699   8.979  1.00  0.00              
ATOM     56  CA  ASN    56       7.844 -14.238  11.682  1.00  0.00              
ATOM     57  CA  PRO    57       8.483 -16.000  15.033  1.00  0.00              
ATOM     58  CA  PRO    58       6.282 -14.083  17.413  1.00  0.00              
ATOM     59  CA  TYR    59       3.452 -13.647  14.878  1.00  0.00              
ATOM     60  CA  GLU    60       3.198 -17.378  13.996  1.00  0.00              
ATOM     61  CA  PRO    61       0.939 -17.863  17.003  1.00  0.00              
ATOM     62  CA  PRO    62      -2.276 -19.520  15.947  1.00  0.00              
ATOM     63  CA  ASP    63      -4.727 -16.884  17.224  1.00  0.00              
ATOM     64  CA  GLN    64      -3.157 -13.761  15.704  1.00  0.00              
ATOM     65  CA  VAL    65      -2.108 -14.970  12.223  1.00  0.00              
ATOM     66  CA  GLU    66      -5.490 -16.564  11.395  1.00  0.00              
ATOM     67  CA  LEU    67      -7.395 -13.460  12.591  1.00  0.00              
ATOM     68  CA  LEU    68      -5.096 -11.081  10.664  1.00  0.00              
ATOM     69  CA  ALA    69      -5.399 -13.103   7.445  1.00  0.00              
ATOM     70  CA  GLN    70      -9.204 -13.121   7.888  1.00  0.00              
ATOM     71  CA  GLU    71      -9.223  -9.351   8.422  1.00  0.00              
ATOM     72  CA  LEU    72      -7.075  -8.750   5.365  1.00  0.00              
ATOM     73  CA  SER    73      -9.300 -10.913   3.229  1.00  0.00              
ATOM     74  CA  GLN    74     -12.435  -9.123   4.431  1.00  0.00              
ATOM     75  CA  GLU    75     -10.830  -5.726   3.662  1.00  0.00              
ATOM     76  CA  LYS    76      -9.777  -6.793   0.232  1.00  0.00              
ATOM     77  CA  LEU    77     -13.267  -8.149  -0.543  1.00  0.00              
ATOM     78  CA  ALA    78     -14.943  -4.954   0.639  1.00  0.00              
ATOM     79  CA  ARG    79     -12.726  -2.731  -1.482  1.00  0.00              
ATOM     80  CA  LYS    80     -13.487  -4.940  -4.505  1.00  0.00              
ATOM     81  CA  GLN    81     -17.220  -4.833  -3.871  1.00  0.00              
ATOM     82  CA  LEU    82     -17.125  -1.052  -3.586  1.00  0.00              
ATOM     83  CA  GLU    83     -15.187  -0.820  -6.851  1.00  0.00              
ATOM     84  CA  GLU    84     -17.767  -3.033  -8.580  1.00  0.00              
ATOM     85  CA  LEU    85     -20.542  -0.791  -7.198  1.00  0.00              
ATOM     86  CA  ASN    86     -18.747   2.328  -8.421  1.00  0.00              
ATOM     87  CA  LYS    87     -18.436   0.841 -11.941  1.00  0.00              
ATOM     88  CA  THR    88     -22.170  -0.034 -11.880  1.00  0.00              
ATOM     89  CA  LEU    89     -23.148   3.478 -10.702  1.00  0.00              
ATOM     90  CA  GLY    90     -20.936   5.132 -13.341  1.00  0.00              
ATOM     91  CA  ASN    91     -22.577   3.035 -16.119  1.00  0.00              
ATOM     92  CA  GLU    92     -26.117   3.786 -14.868  1.00  0.00              
ATOM     93  CA  LEU    93     -25.190   7.528 -14.763  1.00  0.00              
ATOM     94  CA  SER    94     -23.836   7.321 -18.337  1.00  0.00              
ATOM     95  CA  ASP    95     -27.067   5.856 -19.725  1.00  0.00              
ATOM     96  CA  ILE    96     -29.191   8.619 -18.155  1.00  0.00              
ATOM     97  CA  LYS    97     -26.834  11.580 -18.791  1.00  0.00              
ATOM     98  CA  LEU    98     -26.117  13.647 -15.697  1.00  0.00              
ATOM     99  CA  SER    99     -23.081  15.900 -15.274  1.00  0.00              
ATOM    100  CA  LEU   100     -22.199  16.492 -11.626  1.00  0.00              
ATOM    101  CA  LEU   101     -20.212  19.537 -10.660  1.00  0.00              
ATOM    102  CA  SER   102     -19.141  18.927  -7.003  1.00  0.00              
ATOM    103  CA  LEU   103     -17.919  22.080  -5.196  1.00  0.00              
ATOM    104  CA  LYS   104     -20.353  24.206  -7.294  1.00  0.00              
ATOM    105  CA  GLY   105     -23.720  22.588  -7.104  1.00  0.00              
ATOM    106  CA  ASP   106     -24.238  20.585 -10.246  1.00  0.00              
ATOM    107  CA  TYR   107     -25.210  17.395  -8.419  1.00  0.00              
ATOM    108  CA  ALA   108     -28.543  18.799  -7.214  1.00  0.00              
ATOM    109  CA  GLU   109     -29.396  20.015 -10.689  1.00  0.00              
ATOM    110  CA  LEU   110     -28.617  16.714 -12.488  1.00  0.00              
ATOM    111  CA  GLU   111     -30.535  14.637  -9.928  1.00  0.00              
ATOM    112  CA  HIS   112     -33.469  16.973 -10.135  1.00  0.00              
ATOM    113  CA  HIS   113     -33.723  17.006 -13.909  1.00  0.00              
ATOM    114  CA  HIS   114     -34.216  13.242 -13.808  1.00  0.00              
ATOM    115  CA  HIS   115     -31.083  11.799 -15.411  1.00  0.00              
ATOM    116  CA  HIS   116     -28.103   9.929 -13.074  1.00  0.00              
ATOM    117  CA  HIS   117     -24.148  11.184 -12.239  1.00  0.00              
TER                                                                             
END
