
#######################################################
#                                                     #
#                        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  128 (  128),  selected  128 , name T0322TS168_1-D1
# Molecule2: number of CA atoms  128 (  980),  selected  128 , name T0322_D1.pdb
# PARAMETERS: T0322TS168_1-D1.T0322_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G      16      G      16           -
LGA    F      17      F      17           -
LGA    S      18      S      18           -
LGA    Q      19      Q      19           -
LGA    L      20      L      20           -
LGA    N      21      N      21           -
LGA    W      22      W      22           -
LGA    S      23      S      23          1.875
LGA    R      24      R      24          3.152
LGA    G      25      G      25           -
LGA    F      26      -       -           -
LGA    G      27      F      26          4.074
LGA    R      28      G      27          2.914
LGA    Q      29      R      28          2.813
LGA    -       -      Q      29           -
LGA    -       -      I      30           -
LGA    I      30      G      31          1.770
LGA    G      31      P      32          2.699
LGA    P      32      L      33          2.312
LGA    L      33      F      34          1.016
LGA    F      34      E      35          1.596
LGA    E      35      H      36          3.012
LGA    H      36      R      37           -
LGA    -       -      E      38           -
LGA    -       -      G      39           -
LGA    R      37      P      40           #
LGA    E      38      G      41          4.527
LGA    G      39      -       -           -
LGA    P      40      -       -           -
LGA    G      41      -       -           -
LGA    Q      42      Q      42           #
LGA    A      43      A      43          1.428
LGA    R      44      R      44          0.631
LGA    L      45      L      45          1.725
LGA    A      46      A      46          1.073
LGA    F      47      F      47          2.324
LGA    R      48      R      48          1.769
LGA    V      49      V      49          1.370
LGA    E      50      E      50          1.362
LGA    E      51      E      51          1.388
LGA    H      52      H      52          0.682
LGA    H      53      H      53          0.935
LGA    T      54      T      54          4.288
LGA    N      55      N      55          1.519
LGA    G      56      G      56          3.129
LGA    L      57      L      57          4.211
LGA    G      58      G      58          2.719
LGA    N      59      N      59          2.151
LGA    C      60      C      60          1.318
LGA    H      61      H      61          0.709
LGA    G      62      G      62          1.232
LGA    G      63      G      63          1.124
LGA    M      64      M      64          0.734
LGA    L      65      L      65          1.168
LGA    M      66      M      66          0.957
LGA    S      67      S      67          0.544
LGA    F      68      F      68          1.400
LGA    A      69      A      69          1.522
LGA    D      70      D      70          0.436
LGA    M      71      M      71          1.757
LGA    A      72      A      72          2.601
LGA    W      73      W      73          2.768
LGA    G      74      G      74          2.961
LGA    R      75      R      75          3.417
LGA    I      76      I      76          2.785
LGA    I      77      I      77          1.272
LGA    S      78      S      78          2.625
LGA    L      79      L      79          2.861
LGA    -       -      Q      80           -
LGA    Q      80      K      81          4.615
LGA    K      81      S      82          3.333
LGA    S      82      Y      83          4.045
LGA    Y      83      -       -           -
LGA    S      84      S      84          1.543
LGA    W      85      W      85          0.576
LGA    V      86      V      86          0.919
LGA    T      87      T      87          1.759
LGA    V      88      V      88          1.338
LGA    R      89      R      89          0.245
LGA    L      90      L      90          1.691
LGA    M      91      M      91          1.941
LGA    C      92      C      92          1.237
LGA    D      93      D      93          0.512
LGA    F      94      F      94          1.336
LGA    L      95      L      95          1.373
LGA    S      96      S      96          1.143
LGA    G      97      G      97          1.150
LGA    A      98      A      98          1.336
LGA    K      99      K      99          1.189
LGA    L     100      L     100          2.070
LGA    G     101      G     101          2.042
LGA    D     102      D     102          1.976
LGA    W     103      W     103          2.012
LGA    V     104      V     104          0.683
LGA    E     105      E     105          2.095
LGA    G     106      G     106          1.936
LGA    E     107      E     107          1.707
LGA    G     108      G     108          1.460
LGA    E     109      E     109          1.978
LGA    L     110      L     110          2.448
LGA    I     111      I     111          2.510
LGA    S     112      S     112          2.465
LGA    E     113      E     113          3.989
LGA    E     114      E     114          4.620
LGA    D     115      D     115          4.957
LGA    -       -      M     116           -
LGA    M     116      L     117          3.629
LGA    L     117      F     118          1.682
LGA    F     118      T     119          5.269
LGA    T     119      V     120          0.731
LGA    V     120      R     121          3.176
LGA    R     121      G     122          1.682
LGA    G     122      R     123          0.840
LGA    R     123      I     124          1.857
LGA    I     124      W     125          1.996
LGA    W     125      A     126          2.384
LGA    A     126      G     127          1.905
LGA    G     127      -       -           -
LGA    E     128      E     128          1.810
LGA    R     129      R     129          1.665
LGA    T     130      T     130          1.582
LGA    L     131      L     131          1.695
LGA    I     132      I     132          2.069
LGA    T     133      T     133          2.480
LGA    G     134      G     134          2.210
LGA    T     135      T     135          5.279
LGA    G     136      G     136          1.358
LGA    V     137      V     137          2.995
LGA    F     138      F     138          0.974
LGA    K     139      K     139          2.188
LGA    A     140      A     140          1.735
LGA    L     141      L     141          2.322
LGA    S     142      S     142           -
LGA    A     143      A     143           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  128  128    5.0    109    2.34    77.98     59.879     4.469

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.637825 * X  +  -0.676610 * Y  +   0.367938 * Z  +  10.392591
  Y_new =  -0.762740 * X  +   0.621168 * Y  +  -0.179940 * Z  +  -6.572701
  Z_new =  -0.106803 * X  +  -0.395411 * Y  +  -0.912274 * Z  + -14.942595 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.732599    0.408993  [ DEG:  -156.5664     23.4336 ]
  Theta =   0.107007    3.034586  [ DEG:     6.1310    173.8690 ]
  Phi   =  -2.267241    0.874352  [ DEG:  -129.9033     50.0967 ]
 
# 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: T0322TS168_1-D1                               
REMARK     2: T0322_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0322TS168_1-D1.T0322_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  128  128   5.0  109   2.34   77.98  59.879
REMARK  ---------------------------------------------------------- 
MOLECULE T0322TS168_1-D1
PFRMAT TS
TARGET T0322
MODEL 1
PARENT N/A
ATOM     16  CA  GLY    16      21.139 -11.952   8.995  1.00 25.00           C
ATOM     17  CA  PHE    17      19.626  -8.446   9.303  1.00 25.00           C
ATOM     18  CA  SER    18      18.007  -6.399   6.511  1.00 25.00           C
ATOM     19  CA  GLN    19      17.178  -3.415   8.817  1.00 25.00           C
ATOM     20  CA  LEU    20      13.447  -4.195   8.718  1.00 25.00           C
ATOM     21  CA  ASN    21      12.787  -2.440   5.407  1.00 25.00           C
ATOM     22  CA  TRP    22      11.144   0.692   4.064  1.00 25.00           C
ATOM     23  CA  SER    23      12.625   0.309   0.565  1.00 25.00           C
ATOM     24  CA  ARG    24      11.349  -0.757  -2.841  1.00 25.00           C
ATOM     25  CA  GLY    25      10.915  -4.551  -2.982  1.00 25.00           C
ATOM     26  CA  PHE    26       9.959  -5.163  -6.662  1.00 25.00           C
ATOM     27  CA  GLY    27       8.262  -1.755  -7.082  1.00 25.00           C
ATOM     28  CA  ARG    28       4.820  -3.401  -6.747  1.00 25.00           C
ATOM     29  CA  GLN    29       5.964  -5.204  -3.568  1.00 25.00           C
ATOM     30  CA  ILE    30       3.498  -7.902  -4.739  1.00 25.00           C
ATOM     31  CA  GLY    31       5.578 -10.551  -6.529  1.00 25.00           C
ATOM     32  CA  PRO    32       8.307  -9.385  -8.971  1.00 25.00           C
ATOM     33  CA  LEU    33       9.658 -12.891  -8.373  1.00 25.00           C
ATOM     34  CA  PHE    34      10.965 -14.466 -11.588  1.00 25.00           C
ATOM     35  CA  GLU    35      10.249 -17.853 -13.093  1.00 25.00           C
ATOM     36  CA  HIS    36       9.859 -19.048 -16.640  1.00 25.00           C
ATOM     37  CA  ARG    37      12.357 -17.735 -19.170  1.00 25.00           C
ATOM     38  CA  GLU    38      12.993 -19.126 -22.617  1.00 25.00           C
ATOM     39  CA  GLY    39      15.878 -18.427 -25.059  1.00 25.00           C
ATOM     40  CA  PRO    40      18.617 -16.882 -22.857  1.00 25.00           C
ATOM     41  CA  GLY    41      17.387 -13.362 -23.611  1.00 25.00           C
ATOM     42  CA  GLN    42      14.217 -13.511 -21.462  1.00 25.00           C
ATOM     43  CA  ALA    43      13.281 -12.116 -18.041  1.00 25.00           C
ATOM     44  CA  ARG    44      10.202 -13.723 -16.559  1.00 25.00           C
ATOM     45  CA  LEU    45       8.327 -10.856 -14.794  1.00 25.00           C
ATOM     46  CA  ALA    46       6.252 -12.744 -12.234  1.00 25.00           C
ATOM     47  CA  PHE    47       3.056 -10.844 -11.415  1.00 25.00           C
ATOM     48  CA  ARG    48       0.974 -12.886  -8.894  1.00 25.00           C
ATOM     49  CA  VAL    49      -2.542 -11.478  -9.314  1.00 25.00           C
ATOM     50  CA  GLU    50      -3.535 -11.531  -5.660  1.00 25.00           C
ATOM     51  CA  GLU    51      -6.148  -8.952  -4.723  1.00 25.00           C
ATOM     52  CA  HIS    52      -4.573  -5.461  -4.678  1.00 25.00           C
ATOM     53  CA  HIS    53      -4.203  -5.551  -8.488  1.00 25.00           C
ATOM     54  CA  THR    54      -6.597  -2.620  -8.271  1.00 25.00           C
ATOM     55  CA  ASN    55      -9.705  -4.645  -9.003  1.00 25.00           C
ATOM     56  CA  GLY    56     -13.489  -4.203  -9.180  1.00 25.00           C
ATOM     57  CA  LEU    57     -14.650  -6.508 -11.938  1.00 25.00           C
ATOM     58  CA  GLY    58     -12.636  -9.238 -10.113  1.00 25.00           C
ATOM     59  CA  ASN    59     -10.744  -9.508 -13.387  1.00 25.00           C
ATOM     60  CA  CYS    60      -6.915  -9.320 -13.136  1.00 25.00           C
ATOM     61  CA  HIS    61      -6.754  -5.481 -13.257  1.00 25.00           C
ATOM     62  CA  GLY    62      -5.465  -5.576 -16.801  1.00 25.00           C
ATOM     63  CA  GLY    63      -3.825  -2.130 -16.482  1.00 25.00           C
ATOM     64  CA  MET    64      -1.868  -3.319 -13.412  1.00 25.00           C
ATOM     65  CA  LEU    65      -0.708  -6.427 -15.325  1.00 25.00           C
ATOM     66  CA  MET    66       0.413  -4.235 -18.257  1.00 25.00           C
ATOM     67  CA  SER    67       2.343  -1.963 -15.854  1.00 25.00           C
ATOM     68  CA  PHE    68       4.033  -5.021 -14.282  1.00 25.00           C
ATOM     69  CA  ALA    69       4.996  -6.306 -17.759  1.00 25.00           C
ATOM     70  CA  ASP    70       6.453  -2.878 -18.650  1.00 25.00           C
ATOM     71  CA  MET    71       8.464  -2.858 -15.392  1.00 25.00           C
ATOM     72  CA  ALA    72       9.789  -6.369 -16.159  1.00 25.00           C
ATOM     73  CA  TRP    73      10.797  -5.245 -19.679  1.00 25.00           C
ATOM     74  CA  GLY    74      12.603  -2.200 -18.216  1.00 25.00           C
ATOM     75  CA  ARG    75      14.448  -4.457 -15.731  1.00 25.00           C
ATOM     76  CA  ILE    76      15.482  -6.793 -18.585  1.00 25.00           C
ATOM     77  CA  ILE    77      16.759  -3.801 -20.606  1.00 25.00           C
ATOM     78  CA  SER    78      18.761  -2.580 -17.578  1.00 25.00           C
ATOM     79  CA  LEU    79      20.270  -6.071 -17.136  1.00 25.00           C
ATOM     80  CA  GLN    80      23.182  -4.051 -15.684  1.00 25.00           C
ATOM     81  CA  LYS    81      24.116  -1.208 -17.980  1.00 25.00           C
ATOM     82  CA  SER    82      24.055   1.824 -20.248  1.00 25.00           C
ATOM     83  CA  TYR    83      20.575   3.005 -19.204  1.00 25.00           C
ATOM     84  CA  SER    84      17.828   3.181 -16.534  1.00 25.00           C
ATOM     85  CA  TRP    85      15.531   2.411 -19.499  1.00 25.00           C
ATOM     86  CA  VAL    86      11.944   3.590 -19.990  1.00 25.00           C
ATOM     87  CA  THR    87       8.340   2.561 -20.728  1.00 25.00           C
ATOM     88  CA  VAL    88       9.203   3.777 -24.288  1.00 25.00           C
ATOM     89  CA  ARG    89       6.331   2.531 -26.478  1.00 25.00           C
ATOM     90  CA  LEU    90       2.983   1.369 -25.043  1.00 25.00           C
ATOM     91  CA  MET    91      -0.098  -0.490 -26.273  1.00 25.00           C
ATOM     92  CA  CYS    92      -1.794  -3.645 -24.995  1.00 25.00           C
ATOM     93  CA  ASP    93      -4.206  -6.125 -26.504  1.00 25.00           C
ATOM     94  CA  PHE    94      -6.057  -6.901 -23.324  1.00 25.00           C
ATOM     95  CA  LEU    95      -7.476 -10.260 -24.567  1.00 25.00           C
ATOM     96  CA  SER    96      -9.096 -12.933 -22.474  1.00 25.00           C
ATOM     97  CA  GLY    97      -8.546 -12.835 -18.715  1.00 25.00           C
ATOM     98  CA  ALA    98      -7.891 -14.057 -15.157  1.00 25.00           C
ATOM     99  CA  LYS    99      -9.174 -14.937 -11.761  1.00 25.00           C
ATOM    100  CA  LEU   100      -8.375 -15.614  -8.129  1.00 25.00           C
ATOM    101  CA  GLY   101      -5.432 -17.987  -8.042  1.00 25.00           C
ATOM    102  CA  ASP   102      -4.915 -18.139 -11.838  1.00 25.00           C
ATOM    103  CA  TRP   103      -1.705 -16.132 -12.062  1.00 25.00           C
ATOM    104  CA  VAL   104       0.918 -14.510 -14.288  1.00 25.00           C
ATOM    105  CA  GLU   105       3.536 -16.917 -15.476  1.00 25.00           C
ATOM    106  CA  GLY   106       5.174 -13.976 -17.142  1.00 25.00           C
ATOM    107  CA  GLU   107       7.002 -13.643 -20.460  1.00 25.00           C
ATOM    108  CA  GLY   108       9.311 -11.297 -22.361  1.00 25.00           C
ATOM    109  CA  GLU   109      11.015 -13.009 -25.313  1.00 25.00           C
ATOM    110  CA  LEU   110      13.700 -10.433 -25.757  1.00 25.00           C
ATOM    111  CA  ILE   111      13.481 -10.298 -29.542  1.00 25.00           C
ATOM    112  CA  SER   112      14.338  -7.525 -32.058  1.00 25.00           C
ATOM    113  CA  GLU   113      16.414  -4.981 -34.063  1.00 25.00           C
ATOM    114  CA  GLU   114      16.717  -1.956 -36.346  1.00 25.00           C
ATOM    115  CA  ASP   115      17.631  -0.183 -33.111  1.00 25.00           C
ATOM    116  CA  MET   116      16.863  -1.841 -29.810  1.00 25.00           C
ATOM    117  CA  LEU   117      15.246  -3.492 -26.799  1.00 25.00           C
ATOM    118  CA  PHE   118      13.040  -5.539 -24.475  1.00 25.00           C
ATOM    119  CA  THR   119      10.782  -5.809 -27.507  1.00 25.00           C
ATOM    120  CA  VAL   120       7.968  -7.376 -25.503  1.00 25.00           C
ATOM    121  CA  ARG   121       5.880 -10.226 -27.029  1.00 25.00           C
ATOM    122  CA  GLY   122       3.587 -11.697 -24.376  1.00 25.00           C
ATOM    123  CA  ARG   123       2.725 -10.986 -20.729  1.00 25.00           C
ATOM    124  CA  ILE   124       0.611 -13.839 -19.419  1.00 25.00           C
ATOM    125  CA  TRP   125      -0.476 -17.430 -18.645  1.00 25.00           C
ATOM    126  CA  ALA   126      -0.508 -20.156 -15.992  1.00 25.00           C
ATOM    127  CA  GLY   127      -2.619 -23.277 -15.550  1.00 25.00           C
ATOM    128  CA  GLU   128      -3.185 -22.972 -19.235  1.00 25.00           C
ATOM    129  CA  ARG   129      -3.528 -20.168 -21.762  1.00 25.00           C
ATOM    130  CA  THR   130      -1.970 -17.285 -23.621  1.00 25.00           C
ATOM    131  CA  LEU   131      -3.571 -13.985 -22.401  1.00 25.00           C
ATOM    132  CA  ILE   132      -2.792 -10.432 -21.404  1.00 25.00           C
ATOM    133  CA  THR   133      -0.860  -9.211 -24.374  1.00 25.00           C
ATOM    134  CA  GLY   134       2.133  -6.914 -25.138  1.00 25.00           C
ATOM    135  CA  THR   135       2.990  -3.583 -23.480  1.00 25.00           C
ATOM    136  CA  GLY   136       6.231  -2.502 -25.245  1.00 25.00           C
ATOM    137  CA  VAL   137       9.789  -1.643 -24.381  1.00 25.00           C
ATOM    138  CA  PHE   138      13.050   0.100 -23.710  1.00 25.00           C
ATOM    139  CA  LYS   139      15.709   1.700 -25.979  1.00 25.00           C
ATOM    140  CA  ALA   140      18.135   3.521 -23.670  1.00 25.00           C
ATOM    141  CA  LEU   141      18.517   6.818 -21.811  1.00 25.00           C
ATOM    142  CA  SER   142      19.190  10.546 -21.736  1.00 25.00           C
ATOM    143  CA  ALA   143      21.878  10.464 -19.038  1.00 25.00           C
TER
END
