
#######################################################
#                                                     #
#                        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   39 (  156),  selected   39 , name T0363TS125_5u-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS125_5u-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      11      N      11          1.961
LGA    Q      12      Q      12          2.400
LGA    I      13      I      13          1.685
LGA    N      14      N      14          1.554
LGA    I      15      I      15          0.997
LGA    E      16      E      16          1.984
LGA    I      17      I      17          1.662
LGA    A      18      A      18          1.719
LGA    F      21      Y      19          1.949
LGA    P      22      A      20          0.213
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    E      23      R      24          3.620
LGA    R      24      Y      25          2.516
LGA    -       -      Y      26           -
LGA    L      27      L      27          1.623
LGA    K      28      K      28          1.236
LGA    S      29      S      29          1.184
LGA    F      30      F      30          2.034
LGA    Q      31      Q      31          2.187
LGA    V      32      V      32          1.874
LGA    D      33      D      33          1.711
LGA    E      34      E      34          2.320
LGA    G      35      G      35          0.684
LGA    I      36      I      36          0.770
LGA    T      37      T      37          1.937
LGA    V      38      V      38          2.036
LGA    Q      39      Q      39          1.921
LGA    T      40      T      40          1.101
LGA    A      41      A      41          1.499
LGA    I      42      I      42          2.019
LGA    T      43      T      43          1.096
LGA    Q      44      Q      44          1.771
LGA    I      47      S      45          3.268
LGA    L      48      -       -           -
LGA    S      49      G      46          2.464
LGA    Q      50      I      47          3.762
LGA    F      51      L      48          3.718
LGA    E      53      S      49          0.778
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    I      54      P      52          3.538
LGA    D      55      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    L      56      L      56          4.623

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   39   46    5.0     37    2.20    72.97     67.104     1.610

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.817519 * X  +  -0.253875 * Y  +  -0.516924 * Z  +  27.663393
  Y_new =   0.573961 * X  +  -0.432793 * Y  +  -0.695168 * Z  +  12.711143
  Z_new =  -0.047236 * X  +  -0.865007 * Y  +   0.499531 * Z  +   8.005078 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.047095    2.094498  [ DEG:   -59.9941    120.0059 ]
  Theta =   0.047253    3.094339  [ DEG:     2.7074    177.2926 ]
  Phi   =   2.529474   -0.612119  [ DEG:   144.9282    -35.0718 ]
 
# 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: T0363TS125_5u-D1                              
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS125_5u-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   39   46   5.0   37   2.20   72.97  67.104
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS125_5u-D1
PFRMAT   TS
TARGET   T0363
MODEL    5  UNREFINED
PARENT   1wx8a   
ATOM     93  N   ASN    11      18.883   0.167  11.387    1.00  0.50
ATOM     94  CA  ASN    11      17.965   0.736  10.413    1.00  0.50
ATOM     95  C   ASN    11      18.577   1.983   9.773    1.00  0.50
ATOM     96  O   ASN    11      18.770   2.997  10.441    1.00  0.50
ATOM    104  N   GLN    12      18.865   1.867   8.484    1.00  0.50
ATOM    105  CA  GLN    12      19.450   2.973   7.746    1.00  0.50
ATOM    106  C   GLN    12      18.384   4.045   7.511    1.00  0.50
ATOM    107  O   GLN    12      17.197   3.737   7.432    1.00  0.50
ATOM    112  N   ILE    13      18.848   5.282   7.405    1.00  0.50
ATOM    113  CA  ILE    13      17.949   6.401   7.181    1.00  0.50
ATOM    114  C   ILE    13      18.524   7.299   6.084    1.00  0.50
ATOM    115  O   ILE    13      19.731   7.301   5.848    1.00  0.50
ATOM    120  N   ASN    14      17.632   8.041   5.443    1.00  0.50
ATOM    121  CA  ASN    14      18.036   8.941   4.377    1.00  0.50
ATOM    122  C   ASN    14      18.286  10.345   4.933    1.00  0.50
ATOM    123  O   ASN    14      17.342  11.085   5.206    1.00  0.50
ATOM    131  N   ILE    15      19.562  10.669   5.085    1.00  0.50
ATOM    132  CA  ILE    15      19.947  11.969   5.604    1.00  0.50
ATOM    133  C   ILE    15      20.439  12.848   4.451    1.00  0.50
ATOM    134  O   ILE    15      21.443  12.536   3.813    1.00  0.50
ATOM    138  N   GLU    16      19.707  13.929   4.220    1.00  0.50
ATOM    139  CA  GLU    16      20.056  14.854   3.155    1.00  0.50
ATOM    140  C   GLU    16      21.260  15.701   3.572    1.00  0.50
ATOM    141  O   GLU    16      21.151  16.550   4.456    1.00  0.50
ATOM    144  N   ILE    17      22.382  15.441   2.917    1.00  0.50
ATOM    145  CA  ILE    17      23.606  16.168   3.208    1.00  0.50
ATOM    146  C   ILE    17      23.662  17.429   2.344    1.00  0.50
ATOM    147  O   ILE    17      23.627  17.347   1.117    1.00  0.50
ATOM    151  N   ALA    18      23.748  18.566   3.018    1.00  0.50
ATOM    152  CA  ALA    18      23.810  19.843   2.326    1.00  0.50
ATOM    153  C   ALA    18      25.266  20.311   2.258    1.00  0.50
ATOM    154  O   ALA    18      25.895  20.545   3.289    1.00  0.50
ATOM    160  N   PHE    21      25.758  20.434   1.033    1.00  0.50
ATOM    161  CA  PHE    21      27.126  20.871   0.818    1.00  0.50
ATOM    162  C   PHE    21      27.149  22.273   0.209    1.00  0.50
ATOM    163  O   PHE    21      26.162  22.717  -0.376    1.00  0.50
ATOM    167  N   PRO    22      28.318  22.951   0.371    1.00  0.50
ATOM    168  CA  PRO    22      28.482  24.295  -0.157    1.00  0.50
ATOM    169  C   PRO    22      28.667  24.269  -1.676    1.00  0.50
ATOM    170  O   PRO    22      29.747  24.573  -2.178    1.00  0.50
ATOM    174  N   GLU    23      27.595  23.904  -2.363    1.00  0.50
ATOM    175  CA  GLU    23      27.625  23.834  -3.815    1.00  0.50
ATOM    176  C   GLU    23      26.397  23.085  -4.336    1.00  0.50
ATOM    177  O   GLU    23      25.585  23.650  -5.067    1.00  0.50
ATOM    183  N   ARG    24      26.302  21.824  -3.940    1.00  0.50
ATOM    184  CA  ARG    24      25.187  20.992  -4.358    1.00  0.50
ATOM    185  C   ARG    24      24.588  20.295  -3.134    1.00  0.50
ATOM    186  O   ARG    24      24.933  20.623  -1.999    1.00  0.50
ATOM    191  N   LEU    27      23.703  19.347  -3.406    1.00  0.50
ATOM    192  CA  LEU    27      23.055  18.602  -2.341    1.00  0.50
ATOM    193  C   LEU    27      23.220  17.108  -2.629    1.00  0.50
ATOM    194  O   LEU    27      23.197  16.690  -3.787    1.00  0.50
ATOM    197  N   LYS    28      23.384  16.345  -1.559    1.00  0.50
ATOM    198  CA  LYS    28      23.554  14.908  -1.683    1.00  0.50
ATOM    199  C   LYS    28      22.789  14.202  -0.562    1.00  0.50
ATOM    200  O   LYS    28      22.519  14.797   0.480    1.00  0.50
ATOM    207  N   SER    29      22.461  12.942  -0.814    1.00  0.50
ATOM    208  CA  SER    29      21.733  12.150   0.162    1.00  0.50
ATOM    209  C   SER    29      22.577  10.956   0.612    1.00  0.50
ATOM    210  O   SER    29      23.070  10.193  -0.217    1.00  0.50
ATOM    216  N   PHE    30      22.717  10.832   1.923    1.00  0.50
ATOM    217  CA  PHE    30      23.494   9.744   2.494    1.00  0.50
ATOM    218  C   PHE    30      22.596   8.783   3.276    1.00  0.50
ATOM    219  O   PHE    30      21.659   9.210   3.948    1.00  0.50
ATOM    227  N   GLN    31      22.917   7.502   3.164    1.00  0.50
ATOM    228  CA  GLN    31      22.151   6.476   3.854    1.00  0.50
ATOM    229  C   GLN    31      23.047   5.660   4.789    1.00  0.50
ATOM    230  O   GLN    31      23.786   4.785   4.339    1.00  0.50
ATOM    238  N   VAL    32      22.950   5.975   6.072    1.00  0.50
ATOM    239  CA  VAL    32      23.742   5.281   7.074    1.00  0.50
ATOM    240  C   VAL    32      22.854   4.938   8.272    1.00  0.50
ATOM    241  O   VAL    32      21.752   5.469   8.404    1.00  0.50
ATOM    246  N   ASP    33      23.367   4.054   9.114    1.00  0.50
ATOM    247  CA  ASP    33      22.635   3.634  10.296    1.00  0.50
ATOM    248  C   ASP    33      22.190   4.870  11.082    1.00  0.50
ATOM    249  O   ASP    33      23.005   5.734  11.401    1.00  0.50
ATOM    251  N   GLU    34      20.897   4.916  11.369    1.00  0.50
ATOM    252  CA  GLU    34      20.334   6.032  12.110    1.00  0.50
ATOM    253  C   GLU    34      20.947   6.102  13.510    1.00  0.50
ATOM    254  O   GLU    34      20.963   7.163  14.132    1.00  0.50
ATOM    260  N   GLY    35      21.436   4.958  13.965    1.00  0.50
ATOM    261  CA  GLY    35      22.050   4.877  15.280    1.00  0.50
ATOM    262  C   GLY    35      23.572   4.935  15.134    1.00  0.50
ATOM    263  O   GLY    35      24.295   4.258  15.863    1.00  0.50
ATOM    268  N   ILE    36      24.012   5.749  14.186    1.00  0.50
ATOM    269  CA  ILE    36      25.435   5.902  13.934    1.00  0.50
ATOM    270  C   ILE    36      25.926   7.232  14.511    1.00  0.50
ATOM    271  O   ILE    36      25.569   8.298  14.014    1.00  0.50
ATOM    274  N   THR    37      26.740   7.124  15.551    1.00  0.50
ATOM    275  CA  THR    37      27.284   8.304  16.201    1.00  0.50
ATOM    276  C   THR    37      27.653   9.341  15.138    1.00  0.50
ATOM    277  O   THR    37      28.014   8.985  14.017    1.00  0.50
ATOM    282  N   VAL    38      27.550  10.604  15.527    1.00  0.50
ATOM    283  CA  VAL    38      27.869  11.695  14.623    1.00  0.50
ATOM    284  C   VAL    38      29.157  11.364  13.866    1.00  0.50
ATOM    285  O   VAL    38      29.230  11.540  12.650    1.00  0.50
ATOM    289  N   GLN    39      30.141  10.890  14.615    1.00  0.50
ATOM    290  CA  GLN    39      31.423  10.533  14.031    1.00  0.50
ATOM    291  C   GLN    39      31.216   9.658  12.793    1.00  0.50
ATOM    292  O   GLN    39      31.492  10.084  11.673    1.00  0.50
ATOM    300  N   THR    40      30.730   8.449  13.037    1.00  0.50
ATOM    301  CA  THR    40      30.483   7.509  11.957    1.00  0.50
ATOM    302  C   THR    40      29.924   8.241  10.735    1.00  0.50
ATOM    303  O   THR    40      30.494   8.165   9.647    1.00  0.50
ATOM    311  N   ALA    41      28.815   8.932  10.954    1.00  0.50
ATOM    312  CA  ALA    41      28.173   9.677   9.885    1.00  0.50
ATOM    313  C   ALA    41      29.185  10.550   9.140    1.00  0.50
ATOM    314  O   ALA    41      29.157  10.630   7.914    1.00  0.50
ATOM    322  N   ILE    42      30.055  11.183   9.915    1.00  0.50
ATOM    323  CA  ILE    42      31.072  12.048   9.345    1.00  0.50
ATOM    324  C   ILE    42      31.969  11.228   8.413    1.00  0.50
ATOM    325  O   ILE    42      32.142  11.578   7.246    1.00  0.50
ATOM    331  N   THR    43      32.515  10.154   8.964    1.00  0.50
ATOM    332  CA  THR    43      33.387   9.282   8.197    1.00  0.50
ATOM    333  C   THR    43      32.777   9.043   6.815    1.00  0.50
ATOM    334  O   THR    43      33.461   9.169   5.800    1.00  0.50
ATOM    340  N   GLN    44      31.496   8.704   6.818    1.00  0.50
ATOM    341  CA  GLN    44      30.786   8.448   5.577    1.00  0.50
ATOM    342  C   GLN    44      31.036   9.579   4.579    1.00  0.50
ATOM    343  O   GLN    44      31.188   9.335   3.382    1.00  0.50
ATOM    349  N   ILE    47      31.071  10.794   5.106    1.00  0.50
ATOM    350  CA  ILE    47      31.300  11.965   4.277    1.00  0.50
ATOM    351  C   ILE    47      32.763  11.989   3.828    1.00  0.50
ATOM    352  O   ILE    47      33.051  12.193   2.650    1.00  0.50
ATOM    357  N   LEU    48      33.647  11.776   4.792    1.00  0.50
ATOM    358  CA  LEU    48      35.073  11.771   4.510    1.00  0.50
ATOM    359  C   LEU    48      35.384  10.759   3.406    1.00  0.50
ATOM    360  O   LEU    48      36.354  10.921   2.667    1.00  0.50
ATOM    363  N   SER    49      34.544   9.738   3.329    1.00  0.50
ATOM    364  CA  SER    49      34.718   8.700   2.326    1.00  0.50
ATOM    365  C   SER    49      34.436   9.284   0.941    1.00  0.50
ATOM    366  O   SER    49      35.266   9.179   0.038    1.00  0.50
ATOM    372  N   GLN    50      33.262   9.884   0.814    1.00  0.50
ATOM    373  CA  GLN    50      32.860  10.484  -0.446    1.00  0.50
ATOM    374  C   GLN    50      33.585  11.812  -0.678    1.00  0.50
ATOM    375  O   GLN    50      34.396  11.928  -1.594    1.00  0.50
ATOM    384  N   PHE    51      33.265  12.779   0.169    1.00  0.50
ATOM    385  CA  PHE    51      33.875  14.094   0.068    1.00  0.50
ATOM    386  C   PHE    51      35.384  13.937  -0.128    1.00  0.50
ATOM    387  O   PHE    51      36.033  14.809  -0.702    1.00  0.50
ATOM    392  N   GLU    53      35.899  12.818   0.363    1.00  0.50
ATOM    393  CA  GLU    53      37.320  12.537   0.250    1.00  0.50
ATOM    394  C   GLU    53      38.113  13.570   1.052    1.00  0.50
ATOM    395  O   GLU    53      39.228  13.930   0.675    1.00  0.50
ATOM    402  N   ILE    54      37.510  14.017   2.143    1.00  0.50
ATOM    403  CA  ILE    54      38.146  15.001   3.001    1.00  0.50
ATOM    404  C   ILE    54      38.618  14.295   4.274    1.00  0.50
ATOM    405  O   ILE    54      38.891  13.096   4.258    1.00  0.50
ATOM    408  N   ASP    55      38.701  15.070   5.345    1.00  0.50
ATOM    409  CA  ASP    55      39.135  14.534   6.624    1.00  0.50
ATOM    410  C   ASP    55      38.005  14.681   7.645    1.00  0.50
ATOM    411  O   ASP    55      37.452  15.768   7.812    1.00  0.50
ATOM    416  N   LEU    56      37.694  13.572   8.301    1.00  0.50
ATOM    417  CA  LEU    56      36.640  13.564   9.300    1.00  0.50
ATOM    418  C   LEU    56      37.076  14.404  10.502    1.00  0.50
ATOM    419  O   LEU    56      36.262  14.728  11.366    1.00  0.50
TER
END
