
#######################################################
#                                                     #
#                        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   46 (  184),  selected   46 , name T0363TS035_5-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS035_5-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N      11           -
LGA    N      11      Q      12           #
LGA    Q      12      I      13          4.084
LGA    I      13      N      14           #
LGA    N      14      I      15          2.222
LGA    I      15      E      16          3.442
LGA    E      16      I      17          1.617
LGA    I      17      A      18          2.647
LGA    A      18      Y      19          1.288
LGA    Y      19      A      20          3.214
LGA    A      20      F      21          2.330
LGA    F      21      -       -           -
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      P      22          3.966
LGA    Y      25      E      23          2.932
LGA    Y      26      R      24          2.541
LGA    L      27      Y      25          2.406
LGA    K      28      Y      26          2.537
LGA    -       -      L      27           -
LGA    S      29      K      28          1.225
LGA    F      30      S      29          3.011
LGA    Q      31      F      30          1.640
LGA    V      32      Q      31          4.574
LGA    D      33      V      32          0.382
LGA    E      34      D      33          1.546
LGA    G      35      E      34          3.736
LGA    -       -      G      35           -
LGA    I      36      I      36          1.390
LGA    T      37      T      37          1.828
LGA    V      38      V      38          3.308
LGA    Q      39      Q      39          3.398
LGA    T      40      T      40          1.894
LGA    A      41      A      41          2.104
LGA    I      42      I      42          3.215
LGA    T      43      T      43          2.412
LGA    Q      44      Q      44          1.267
LGA    S      45      S      45          2.311
LGA    G      46      G      46          0.887
LGA    I      47      I      47          0.709
LGA    L      48      L      48          1.264
LGA    S      49      S      49          1.422
LGA    Q      50      Q      50          1.260
LGA    F      51      F      51          1.424
LGA    P      52      P      52          1.732
LGA    E      53      E      53          1.509
LGA    I      54      I      54          1.727
LGA    D      55      D      55          3.659
LGA    L      56      L      56          4.473

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     41    2.53    51.22     61.664     1.557

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.735209 * X  +  -0.140932 * Y  +  -0.663028 * Z  +  30.018156
  Y_new =  -0.393403 * X  +  -0.707836 * Y  +   0.586687 * Z  +  20.488426
  Z_new =  -0.551998 * X  +   0.692175 * Y  +   0.464965 * Z  +   4.747667 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.979287   -2.162306  [ DEG:    56.1090   -123.8910 ]
  Theta =   0.584759    2.556834  [ DEG:    33.5042    146.4958 ]
  Phi   =  -2.650269    0.491324  [ DEG:  -151.8492     28.1508 ]
 
# 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: T0363TS035_5-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS035_5-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   46   46   5.0   41   2.53   51.22  61.664
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS035_5-D1
PFRMAT TS
TARGET T0363
MODEL  5  REFINED
PARENT N/A
ATOM     41  N   ASN    11      16.776   6.934  14.923  1.00  0.00
ATOM     42  CA  ASN    11      17.200   5.767  14.174  1.00  0.00
ATOM     43  C   ASN    11      18.146   6.140  13.045  1.00  0.00
ATOM     44  O   ASN    11      18.930   5.316  12.575  1.00  0.00
ATOM     45  N   GLN    12      18.093   7.386  12.585  1.00  0.00
ATOM     46  CA  GLN    12      18.921   7.781  11.463  1.00  0.00
ATOM     47  C   GLN    12      19.138   9.286  11.429  1.00  0.00
ATOM     48  O   GLN    12      18.270  10.061  11.826  1.00  0.00
ATOM     49  N   ILE    13      20.299   9.728  10.957  1.00  0.00
ATOM     50  CA  ILE    13      20.568  11.152  10.910  1.00  0.00
ATOM     51  C   ILE    13      20.787  11.633   9.485  1.00  0.00
ATOM     52  O   ILE    13      21.543  11.035   8.721  1.00  0.00
ATOM     53  N   ASN    14      20.132  12.724   9.097  1.00  0.00
ATOM     54  CA  ASN    14      20.321  13.245   7.757  1.00  0.00
ATOM     55  C   ASN    14      21.406  14.309   7.718  1.00  0.00
ATOM     56  O   ASN    14      21.265  15.381   8.305  1.00  0.00
ATOM     57  N   ILE    15      22.509  14.036   7.029  1.00  0.00
ATOM     58  CA  ILE    15      23.611  14.979   7.019  1.00  0.00
ATOM     59  C   ILE    15      23.904  15.485   5.615  1.00  0.00
ATOM     60  O   ILE    15      24.097  14.703   4.686  1.00  0.00
ATOM     61  N   GLU    16      23.941  16.802   5.433  1.00  0.00
ATOM     62  CA  GLU    16      24.225  17.343   4.118  1.00  0.00
ATOM     63  C   GLU    16      25.678  17.772   3.991  1.00  0.00
ATOM     64  O   GLU    16      26.286  18.248   4.949  1.00  0.00
ATOM     65  N   ILE    17      26.264  17.613   2.808  1.00  0.00
ATOM     66  CA  ILE    17      27.646  18.013   2.624  1.00  0.00
ATOM     67  C   ILE    17      27.788  19.039   1.512  1.00  0.00
ATOM     68  O   ILE    17      27.374  18.808   0.377  1.00  0.00
ATOM     69  N   ALA    18      28.374  20.194   1.813  1.00  0.00
ATOM     70  CA  ALA    18      28.488  21.233   0.809  1.00  0.00
ATOM     71  C   ALA    18      29.771  22.032   0.974  1.00  0.00
ATOM     72  O   ALA    18      30.287  22.186   2.080  1.00  0.00
ATOM     73  N   TYR    19      30.311  22.558  -0.122  1.00  0.00
ATOM     74  CA  TYR    19      31.581  23.255  -0.041  1.00  0.00
ATOM     75  C   TYR    19      31.796  24.166  -1.238  1.00  0.00
ATOM     76  O   TYR    19      31.170  24.000  -2.284  1.00  0.00
ATOM     77  N   ALA    20      32.685  25.147  -1.112  1.00  0.00
ATOM     78  CA  ALA    20      33.181  25.832  -2.289  1.00  0.00
ATOM     79  C   ALA    20      34.557  25.327  -2.694  1.00  0.00
ATOM     80  O   ALA    20      35.352  24.908  -1.854  1.00  0.00
ATOM     81  N   PHE    21      34.866  25.355  -3.987  1.00  0.00
ATOM     82  CA  PHE    21      36.218  25.054  -4.417  1.00  0.00
ATOM     83  C   PHE    21      36.666  25.975  -5.539  1.00  0.00
ATOM     84  O   PHE    21      36.096  25.973  -6.629  1.00  0.00
ATOM     85  N   PRO    22      37.696  26.781  -5.299  1.00  0.00
ATOM     86  CA  PRO    22      38.133  27.722  -6.312  1.00  0.00
ATOM     87  C   PRO    22      36.968  28.522  -6.872  1.00  0.00
ATOM     88  O   PRO    22      36.850  28.711  -8.082  1.00  0.00
ATOM     89  N   GLU    23      36.085  29.007  -6.005  1.00  0.00
ATOM     90  CA  GLU    23      35.047  29.914  -6.459  1.00  0.00
ATOM     91  C   GLU    23      33.782  29.166  -6.846  1.00  0.00
ATOM     92  O   GLU    23      32.717  29.760  -7.009  1.00  0.00
ATOM     93  N   ARG    24      33.870  27.848  -7.001  1.00  0.00
ATOM     94  CA  ARG    24      32.703  27.085  -7.401  1.00  0.00
ATOM     95  C   ARG    24      32.053  26.393  -6.214  1.00  0.00
ATOM     96  O   ARG    24      32.721  25.737  -5.417  1.00  0.00
ATOM     97  N   TYR    25      30.738  26.526  -6.072  1.00  0.00
ATOM     98  CA  TYR    25      30.072  25.951  -4.918  1.00  0.00
ATOM     99  C   TYR    25      29.245  24.734  -5.299  1.00  0.00
ATOM    100  O   TYR    25      28.520  24.743  -6.293  1.00  0.00
ATOM    101  N   TYR    26      29.335  23.662  -4.517  1.00  0.00
ATOM    102  CA  TYR    26      28.532  22.489  -4.801  1.00  0.00
ATOM    103  C   TYR    26      27.779  22.013  -3.570  1.00  0.00
ATOM    104  O   TYR    26      28.328  21.962  -2.470  1.00  0.00
ATOM    105  N   LEU    27      26.507  21.658  -3.726  1.00  0.00
ATOM    106  CA  LEU    27      25.805  20.984  -2.652  1.00  0.00
ATOM    107  C   LEU    27      25.574  19.516  -2.967  1.00  0.00
ATOM    108  O   LEU    27      25.062  19.167  -4.030  1.00  0.00
ATOM    109  N   LYS    28      25.946  18.624  -2.053  1.00  0.00
ATOM    110  CA  LYS    28      25.613  17.224  -2.227  1.00  0.00
ATOM    111  C   LYS    28      24.829  16.684  -1.041  1.00  0.00
ATOM    112  O   LYS    28      25.006  17.128   0.092  1.00  0.00
ATOM    113  N   SER    29      23.948  15.717  -1.278  1.00  0.00
ATOM    114  CA  SER    29      23.182  15.151  -0.184  1.00  0.00
ATOM    115  C   SER    29      23.468  13.668  -0.011  1.00  0.00
ATOM    116  O   SER    29      23.496  12.909  -0.979  1.00  0.00
ATOM    117  N   PHE    30      23.683  13.224   1.224  1.00  0.00
ATOM    118  CA  PHE    30      23.902  11.809   1.457  1.00  0.00
ATOM    119  C   PHE    30      23.019  11.282   2.577  1.00  0.00
ATOM    120  O   PHE    30      22.772  11.968   3.567  1.00  0.00
ATOM    121  N   GLN    31      22.525  10.056   2.442  1.00  0.00
ATOM    122  CA  GLN    31      21.685   9.494   3.483  1.00  0.00
ATOM    123  C   GLN    31      22.439   8.474   4.321  1.00  0.00
ATOM    124  O   GLN    31      23.050   7.546   3.793  1.00  0.00
ATOM    125  N   VAL    32      22.411   8.623   5.642  1.00  0.00
ATOM    126  CA  VAL    32      23.138   7.699   6.491  1.00  0.00
ATOM    127  C   VAL    32      22.251   6.560   6.965  1.00  0.00
ATOM    128  O   VAL    32      21.179   6.780   7.526  1.00  0.00
ATOM    129  N   ASP    33      22.679   5.319   6.751  1.00  0.00
ATOM    130  CA  ASP    33      21.877   4.191   7.184  1.00  0.00
ATOM    131  C   ASP    33      21.746   4.145   8.697  1.00  0.00
ATOM    132  O   ASP    33      22.426   4.875   9.416  1.00  0.00
ATOM    133  N   GLU    34      20.870   3.288   9.213  1.00  0.00
ATOM    134  CA  GLU    34      20.734   3.166  10.651  1.00  0.00
ATOM    135  C   GLU    34      22.040   2.744  11.303  1.00  0.00
ATOM    136  O   GLU    34      22.884   2.103  10.678  1.00  0.00
ATOM    137  N   GLY    35      22.234   3.092  12.572  1.00  0.00
ATOM    138  CA  GLY    35      23.366   2.560  13.305  1.00  0.00
ATOM    139  C   GLY    35      24.638   3.339  13.012  1.00  0.00
ATOM    140  O   GLY    35      25.743   2.884  13.304  1.00  0.00
ATOM    141  N   ILE    36      24.510   4.527  12.430  1.00  0.00
ATOM    142  CA  ILE    36      25.686   5.331  12.155  1.00  0.00
ATOM    143  C   ILE    36      25.425   6.807  12.405  1.00  0.00
ATOM    144  O   ILE    36      24.288   7.271  12.345  1.00  0.00
ATOM    145  N   THR    37      26.473   7.575  12.692  1.00  0.00
ATOM    146  CA  THR    37      26.303   9.007  12.839  1.00  0.00
ATOM    147  C   THR    37      26.205   9.702  11.491  1.00  0.00
ATOM    148  O   THR    37      26.538   9.127  10.455  1.00  0.00
ATOM    149  N   VAL    38      25.748  10.950  11.474  1.00  0.00
ATOM    150  CA  VAL    38      25.631  11.662  10.216  1.00  0.00
ATOM    151  C   VAL    38      26.992  11.928   9.595  1.00  0.00
ATOM    152  O   VAL    38      27.185  11.761   8.391  1.00  0.00
ATOM    153  N   GLN    39      27.964  12.347  10.400  1.00  0.00
ATOM    154  CA  GLN    39      29.288  12.604   9.867  1.00  0.00
ATOM    155  C   GLN    39      29.907  11.349   9.275  1.00  0.00
ATOM    156  O   GLN    39      30.558  11.392   8.233  1.00  0.00
ATOM    157  N   THR    40      29.717  10.205   9.928  1.00  0.00
ATOM    158  CA  THR    40      30.280   8.973   9.409  1.00  0.00
ATOM    159  C   THR    40      29.716   8.634   8.039  1.00  0.00
ATOM    160  O   THR    40      30.448   8.255   7.127  1.00  0.00
ATOM    161  N   ALA    41      28.403   8.762   7.866  1.00  0.00
ATOM    162  CA  ALA    41      27.808   8.456   6.580  1.00  0.00
ATOM    163  C   ALA    41      28.410   9.301   5.469  1.00  0.00
ATOM    164  O   ALA    41      28.809   8.787   4.426  1.00  0.00
ATOM    165  N   ILE    42      28.487  10.613   5.669  1.00  0.00
ATOM    166  CA  ILE    42      29.053  11.471   4.646  1.00  0.00
ATOM    167  C   ILE    42      30.507  11.122   4.366  1.00  0.00
ATOM    168  O   ILE    42      30.947  11.111   3.218  1.00  0.00
ATOM    169  N   THR    43      31.280  10.831   5.408  1.00  0.00
ATOM    170  CA  THR    43      32.670  10.473   5.202  1.00  0.00
ATOM    171  C   THR    43      32.804   9.129   4.506  1.00  0.00
ATOM    172  O   THR    43      33.675   8.935   3.659  1.00  0.00
ATOM    173  N   GLN    44      31.945   8.172   4.847  1.00  0.00
ATOM    174  CA  GLN    44      32.015   6.873   4.207  1.00  0.00
ATOM    175  C   GLN    44      31.763   6.972   2.711  1.00  0.00
ATOM    176  O   GLN    44      32.361   6.246   1.917  1.00  0.00
ATOM    177  N   SER    45      30.876   7.870   2.296  1.00  0.00
ATOM    178  CA  SER    45      30.582   7.999   0.881  1.00  0.00
ATOM    179  C   SER    45      31.718   8.680   0.135  1.00  0.00
ATOM    180  O   SER    45      31.681   8.821  -1.087  1.00  0.00
ATOM    181  N   GLY    46      32.750   9.116   0.852  1.00  0.00
ATOM    182  CA  GLY    46      33.876   9.747   0.192  1.00  0.00
ATOM    183  C   GLY    46      33.775  11.263   0.238  1.00  0.00
ATOM    184  O   GLY    46      34.608  11.973  -0.322  1.00  0.00
ATOM    185  N   ILE    47      32.752  11.790   0.906  1.00  0.00
ATOM    186  CA  ILE    47      32.609  13.229   0.996  1.00  0.00
ATOM    187  C   ILE    47      33.781  13.863   1.728  1.00  0.00
ATOM    188  O   ILE    47      34.354  14.851   1.273  1.00  0.00
ATOM    189  N   LEU    48      34.159  13.309   2.876  1.00  0.00
ATOM    190  CA  LEU    48      35.263  13.878   3.626  1.00  0.00
ATOM    191  C   LEU    48      36.538  13.915   2.802  1.00  0.00
ATOM    192  O   LEU    48      37.298  14.882   2.851  1.00  0.00
ATOM    193  N   SER    49      36.802  12.866   2.028  1.00  0.00
ATOM    194  CA  SER    49      38.002  12.848   1.215  1.00  0.00
ATOM    195  C   SER    49      37.948  13.892   0.112  1.00  0.00
ATOM    196  O   SER    49      38.975  14.404  -0.330  1.00  0.00
ATOM    197  N   GLN    50      36.748  14.231  -0.355  1.00  0.00
ATOM    198  CA  GLN    50      36.634  15.219  -1.409  1.00  0.00
ATOM    199  C   GLN    50      36.731  16.634  -0.863  1.00  0.00
ATOM    200  O   GLN    50      36.921  17.592  -1.612  1.00  0.00
ATOM    201  N   PHE    51      36.604  16.795   0.451  1.00  0.00
ATOM    202  CA  PHE    51      36.673  18.124   1.028  1.00  0.00
ATOM    203  C   PHE    51      37.625  18.171   2.212  1.00  0.00
ATOM    204  O   PHE    51      37.209  18.359   3.355  1.00  0.00
ATOM    205  N   PRO    52      38.920  18.002   1.966  1.00  0.00
ATOM    206  CA  PRO    52      39.876  18.030   3.056  1.00  0.00
ATOM    207  C   PRO    52      39.797  19.333   3.835  1.00  0.00
ATOM    208  O   PRO    52      40.164  19.395   5.007  1.00  0.00
ATOM    209  N   GLU    53      39.319  20.399   3.201  1.00  0.00
ATOM    210  CA  GLU    53      39.237  21.675   3.886  1.00  0.00
ATOM    211  C   GLU    53      37.959  21.791   4.702  1.00  0.00
ATOM    212  O   GLU    53      37.750  22.769   5.418  1.00  0.00
ATOM    213  N   ILE    54      37.080  20.797   4.611  1.00  0.00
ATOM    214  CA  ILE    54      35.854  20.842   5.384  1.00  0.00
ATOM    215  C   ILE    54      35.902  19.885   6.564  1.00  0.00
ATOM    216  O   ILE    54      36.543  18.837   6.507  1.00  0.00
ATOM    217  N   ASP    55      35.225  20.225   7.658  1.00  0.00
ATOM    218  CA  ASP    55      35.192  19.330   8.798  1.00  0.00
ATOM    219  C   ASP    55      33.799  18.769   9.030  1.00  0.00
ATOM    220  O   ASP    55      32.836  19.514   9.205  1.00  0.00
ATOM    221  N   LEU    56      33.662  17.446   9.037  1.00  0.00
ATOM    222  CA  LEU    56      32.401  16.851   9.433  1.00  0.00
ATOM    223  C   LEU    56      32.528  16.092  10.745  1.00  0.00
ATOM    224  O   LEU    56      33.262  15.111  10.843  1.00  0.00
TER
END
