
#######################################################
#                                                     #
#                        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  157 (  157),  selected  157 , name T0322TS168_2
# Molecule2: number of CA atoms  142 ( 1089),  selected  142 , name T0322.pdb
# PARAMETERS: T0322TS168_2.T0322.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      A      12           -
LGA    S       2      I      13           -
LGA    D       3      P      14           -
LGA    D       4      E      15           -
LGA    L       5      G      16           -
LGA    T       6      F      17           -
LGA    D       7      S      18           -
LGA    A       8      Q      19           -
LGA    Q       9      L      20           -
LGA    T      10      N      21           -
LGA    A      11      -       -           -
LGA    A      12      -       -           -
LGA    I      13      -       -           -
LGA    P      14      -       -           -
LGA    E      15      -       -           -
LGA    G      16      -       -           -
LGA    F      17      -       -           -
LGA    S      18      -       -           -
LGA    Q      19      -       -           -
LGA    L      20      -       -           -
LGA    N      21      -       -           -
LGA    W      22      -       -           -
LGA    S      23      W      22           #
LGA    R      24      S      23          3.715
LGA    -       -      R      24           -
LGA    G      25      G      25          0.635
LGA    F      26      F      26          1.607
LGA    G      27      G      27          1.706
LGA    R      28      R      28          2.575
LGA    Q      29      Q      29          2.222
LGA    I      30      I      30          1.404
LGA    G      31      G      31          1.339
LGA    P      32      P      32          3.626
LGA    L      33      L      33          3.113
LGA    F      34      F      34          1.171
LGA    E      35      E      35          2.887
LGA    H      36      H      36          2.342
LGA    R      37      R      37           -
LGA    E      38      E      38           -
LGA    G      39      G      39          5.157
LGA    P      40      P      40          3.716
LGA    G      41      G      41           #
LGA    Q      42      Q      42          5.430
LGA    A      43      A      43          1.979
LGA    R      44      R      44          3.368
LGA    L      45      L      45          1.352
LGA    A      46      A      46          1.379
LGA    F      47      F      47          2.917
LGA    R      48      R      48          2.413
LGA    V      49      V      49          0.712
LGA    E      50      E      50          0.478
LGA    E      51      E      51          1.220
LGA    H      52      H      52          1.817
LGA    H      53      H      53          1.529
LGA    T      54      T      54          0.148
LGA    N      55      N      55          1.884
LGA    G      56      G      56          4.114
LGA    L      57      L      57          4.340
LGA    G      58      G      58           #
LGA    N      59      N      59          3.586
LGA    C      60      C      60          1.644
LGA    H      61      H      61          0.906
LGA    G      62      G      62          0.514
LGA    G      63      G      63          0.220
LGA    M      64      M      64          0.189
LGA    L      65      L      65          0.206
LGA    M      66      M      66          0.253
LGA    S      67      S      67          0.435
LGA    F      68      F      68          0.457
LGA    A      69      A      69          0.701
LGA    D      70      D      70          0.857
LGA    M      71      M      71          1.206
LGA    A      72      A      72          1.337
LGA    W      73      W      73          2.677
LGA    G      74      G      74          3.145
LGA    R      75      R      75          2.225
LGA    I      76      I      76          1.923
LGA    I      77      I      77          1.538
LGA    S      78      S      78          1.203
LGA    L      79      L      79          1.066
LGA    Q      80      Q      80          3.353
LGA    K      81      K      81          3.589
LGA    S      82      S      82          5.472
LGA    Y      83      Y      83          3.216
LGA    S      84      S      84          3.356
LGA    W      85      W      85          1.508
LGA    V      86      V      86          1.598
LGA    T      87      T      87          2.075
LGA    V      88      V      88          2.228
LGA    R      89      R      89          1.291
LGA    L      90      L      90          0.807
LGA    M      91      M      91          1.689
LGA    C      92      C      92          1.940
LGA    D      93      D      93          1.956
LGA    F      94      F      94          0.836
LGA    L      95      L      95          1.858
LGA    S      96      S      96          1.130
LGA    G      97      G      97          1.317
LGA    A      98      A      98          2.287
LGA    K      99      K      99          2.406
LGA    L     100      L     100          2.809
LGA    G     101      G     101          2.090
LGA    D     102      D     102          1.725
LGA    W     103      W     103          3.412
LGA    V     104      V     104          0.927
LGA    E     105      E     105          1.724
LGA    G     106      G     106          1.794
LGA    E     107      E     107          1.680
LGA    G     108      G     108          2.290
LGA    E     109      E     109          3.125
LGA    L     110      -       -           -
LGA    I     111      L     110          1.903
LGA    S     112      I     111          1.144
LGA    E     113      S     112          0.756
LGA    E     114      E     113           #
LGA    D     115      E     114          3.445
LGA    -       -      D     115           -
LGA    -       -      M     116           -
LGA    M     116      L     117          3.328
LGA    L     117      F     118          1.665
LGA    F     118      T     119          4.111
LGA    T     119      V     120          1.373
LGA    V     120      R     121          2.657
LGA    R     121      G     122          2.806
LGA    G     122      R     123          1.130
LGA    R     123      I     124          4.268
LGA    I     124      W     125          1.453
LGA    W     125      A     126          3.625
LGA    A     126      G     127          2.714
LGA    G     127      -       -           -
LGA    E     128      E     128          1.861
LGA    R     129      R     129          1.772
LGA    T     130      T     130          1.190
LGA    L     131      L     131          1.550
LGA    I     132      I     132          2.620
LGA    T     133      T     133          3.116
LGA    G     134      G     134          3.248
LGA    T     135      T     135          1.995
LGA    G     136      G     136          2.063
LGA    V     137      V     137          2.740
LGA    F     138      F     138          2.399
LGA    K     139      K     139          1.074
LGA    A     140      A     140          2.813
LGA    L     141      L     141          3.734
LGA    S     142      S     142          5.264
LGA    A     143      -       -           -
LGA    R     144      -       -           -
LGA    K     145      -       -           -
LGA    P     146      -       -           -
LGA    R     147      A     143           #
LGA    P     148      R     144           -
LGA    G     149      K     145           -
LGA    E     150      P     146           -
LGA    L     151      R     147           -
LGA    -       -      P     148           -
LGA    -       -      G     149           -
LGA    A     152      E     150          5.507
LGA    Y     153      L     151          1.758
LGA    K     154      A     152          3.475
LGA    E     155      Y     153          3.348
LGA    E     156      -       -           -
LGA    A     157      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  157  142    5.0    116    2.49    82.76     54.003     4.471

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.640883 * X  +  -0.374994 * Y  +   0.669812 * Z  +   9.873600
  Y_new =  -0.227393 * X  +  -0.926140 * Y  +  -0.300928 * Z  +  -5.340401
  Z_new =   0.733186 * X  +   0.040549 * Y  +  -0.678819 * Z  + -15.120368 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.081928   -0.059664  [ DEG:   176.5815     -3.4185 ]
  Theta =  -0.822995   -2.318598  [ DEG:   -47.1541   -132.8459 ]
  Phi   =  -0.340955    2.800638  [ DEG:   -19.5353    160.4647 ]
 
# 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_2                                  
REMARK     2: T0322.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0322TS168_2.T0322.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  157  142   5.0  116   2.49   82.76  54.003
REMARK  ---------------------------------------------------------- 
MOLECULE T0322TS168_2
PFRMAT TS
TARGET T0322
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      19.822  17.541  -5.996  1.00 25.00           C
ATOM      2  CA  SER     2      23.459  16.772  -5.433  1.00 25.00           C
ATOM      3  CA  ASP     3      24.438  14.045  -7.963  1.00 25.00           C
ATOM      4  CA  ASP     4      26.016  11.582  -5.490  1.00 25.00           C
ATOM      5  CA  LEU     5      29.860  11.436  -5.575  1.00 25.00           C
ATOM      6  CA  THR     6      30.122  12.777  -2.056  1.00 25.00           C
ATOM      7  CA  ASP     7      32.264  10.397   0.098  1.00 25.00           C
ATOM      8  CA  ALA     8      28.868   9.495   1.622  1.00 25.00           C
ATOM      9  CA  GLN     9      28.176   7.094  -1.280  1.00 25.00           C
ATOM     10  CA  THR    10      31.606   5.464  -0.780  1.00 25.00           C
ATOM     11  CA  ALA    11      31.670   1.975   0.813  1.00 25.00           C
ATOM     12  CA  ALA    12      28.539   3.082   2.550  1.00 25.00           C
ATOM     13  CA  ILE    13      26.351   3.006   5.713  1.00 25.00           C
ATOM     14  CA  PRO    14      23.175   4.077   7.509  1.00 25.00           C
ATOM     15  CA  GLU    15      23.280   0.938   9.656  1.00 25.00           C
ATOM     16  CA  GLY    16      20.491   1.654  12.052  1.00 25.00           C
ATOM     17  CA  PHE    17      18.445   3.214   9.275  1.00 25.00           C
ATOM     18  CA  SER    18      15.229   1.137   9.418  1.00 25.00           C
ATOM     19  CA  GLN    19      12.378  -0.591   7.549  1.00 25.00           C
ATOM     20  CA  LEU    20      10.813   2.637   6.120  1.00 25.00           C
ATOM     21  CA  ASN    21       7.927   4.230   4.205  1.00 25.00           C
ATOM     22  CA  TRP    22       9.563   5.145   0.892  1.00 25.00           C
ATOM     23  CA  SER    23      11.889   2.235   0.238  1.00 25.00           C
ATOM     24  CA  ARG    24      10.575   0.803  -3.049  1.00 25.00           C
ATOM     25  CA  GLY    25       7.980   3.027  -4.687  1.00 25.00           C
ATOM     26  CA  PHE    26       7.334   0.719  -7.662  1.00 25.00           C
ATOM     27  CA  GLY    27       8.200  -2.813  -8.863  1.00 25.00           C
ATOM     28  CA  ARG    28       7.861  -4.140  -5.286  1.00 25.00           C
ATOM     29  CA  GLN    29       4.453  -2.424  -4.947  1.00 25.00           C
ATOM     30  CA  ILE    30       2.150  -4.844  -6.863  1.00 25.00           C
ATOM     31  CA  GLY    31       4.061  -7.428  -4.763  1.00 25.00           C
ATOM     32  CA  PRO    32       5.506  -8.727  -8.044  1.00 25.00           C
ATOM     33  CA  LEU    33       9.318  -8.831  -7.569  1.00 25.00           C
ATOM     34  CA  PHE    34       9.733 -12.423  -8.750  1.00 25.00           C
ATOM     35  CA  GLU    35       9.983 -15.636 -10.784  1.00 25.00           C
ATOM     36  CA  HIS    36      11.282 -17.362 -13.880  1.00 25.00           C
ATOM     37  CA  ARG    37      11.399 -16.987 -17.623  1.00 25.00           C
ATOM     38  CA  GLU    38      13.244 -19.423 -19.864  1.00 25.00           C
ATOM     39  CA  GLY    39      16.701 -20.431 -20.981  1.00 25.00           C
ATOM     40  CA  PRO    40      18.001 -17.756 -18.546  1.00 25.00           C
ATOM     41  CA  GLY    41      18.156 -15.050 -21.262  1.00 25.00           C
ATOM     42  CA  GLN    42      15.683 -12.323 -20.303  1.00 25.00           C
ATOM     43  CA  ALA    43      14.102 -12.442 -16.815  1.00 25.00           C
ATOM     44  CA  ARG    44      10.970 -11.634 -14.802  1.00 25.00           C
ATOM     45  CA  LEU    45       7.512 -12.067 -13.346  1.00 25.00           C
ATOM     46  CA  ALA    46       4.446 -13.300 -11.365  1.00 25.00           C
ATOM     47  CA  PHE    47       2.166 -10.266 -11.522  1.00 25.00           C
ATOM     48  CA  ARG    48       0.584 -11.637  -8.341  1.00 25.00           C
ATOM     49  CA  VAL    49      -3.247 -11.260  -8.134  1.00 25.00           C
ATOM     50  CA  GLU    50      -4.502 -10.629  -4.593  1.00 25.00           C
ATOM     51  CA  GLU    51      -7.916  -9.078  -4.064  1.00 25.00           C
ATOM     52  CA  HIS    52      -6.426  -5.661  -3.188  1.00 25.00           C
ATOM     53  CA  HIS    53      -5.097  -5.296  -6.761  1.00 25.00           C
ATOM     54  CA  THR    54      -8.220  -6.559  -8.498  1.00 25.00           C
ATOM     55  CA  ASN    55     -11.640  -6.356 -10.122  1.00 25.00           C
ATOM     56  CA  GLY    56     -14.621  -8.201  -8.705  1.00 25.00           C
ATOM     57  CA  LEU    57     -16.235  -7.615 -12.110  1.00 25.00           C
ATOM     58  CA  GLY    58     -14.353 -10.578 -13.502  1.00 25.00           C
ATOM     59  CA  ASN    59     -10.862  -9.700 -14.874  1.00 25.00           C
ATOM     60  CA  CYS    60      -7.562  -8.343 -13.595  1.00 25.00           C
ATOM     61  CA  HIS    61      -7.697  -4.509 -13.807  1.00 25.00           C
ATOM     62  CA  GLY    62      -5.924  -4.636 -17.216  1.00 25.00           C
ATOM     63  CA  GLY    63      -3.968  -1.724 -15.679  1.00 25.00           C
ATOM     64  CA  MET    64      -2.253  -4.131 -13.243  1.00 25.00           C
ATOM     65  CA  LEU    65      -1.332  -6.452 -16.145  1.00 25.00           C
ATOM     66  CA  MET    66       0.108  -3.485 -18.094  1.00 25.00           C
ATOM     67  CA  SER    67       2.160  -2.439 -15.034  1.00 25.00           C
ATOM     68  CA  PHE    68       3.482  -6.015 -14.668  1.00 25.00           C
ATOM     69  CA  ALA    69       4.445  -6.065 -18.375  1.00 25.00           C
ATOM     70  CA  ASP    70       6.262  -2.718 -17.973  1.00 25.00           C
ATOM     71  CA  MET    71       8.142  -4.076 -14.926  1.00 25.00           C
ATOM     72  CA  ALA    72       9.145  -7.197 -16.906  1.00 25.00           C
ATOM     73  CA  TRP    73      10.390  -5.000 -19.785  1.00 25.00           C
ATOM     74  CA  GLY    74      12.428  -2.888 -17.325  1.00 25.00           C
ATOM     75  CA  ARG    75      13.949  -6.063 -15.820  1.00 25.00           C
ATOM     76  CA  ILE    76      14.857  -7.319 -19.323  1.00 25.00           C
ATOM     77  CA  ILE    77      16.494  -3.953 -20.131  1.00 25.00           C
ATOM     78  CA  SER    78      18.492  -4.112 -16.868  1.00 25.00           C
ATOM     79  CA  LEU    79      19.634  -7.669 -17.713  1.00 25.00           C
ATOM     80  CA  GLN    80      22.911  -6.254 -18.929  1.00 25.00           C
ATOM     81  CA  LYS    81      24.069  -2.947 -17.378  1.00 25.00           C
ATOM     82  CA  SER    82      25.535  -1.640 -20.598  1.00 25.00           C
ATOM     83  CA  TYR    83      22.221   0.120 -21.102  1.00 25.00           C
ATOM     84  CA  SER    84      20.507   3.030 -19.316  1.00 25.00           C
ATOM     85  CA  TRP    85      17.108   1.254 -19.245  1.00 25.00           C
ATOM     86  CA  VAL    86      14.305   3.744 -20.024  1.00 25.00           C
ATOM     87  CA  THR    87      10.901   2.088 -20.443  1.00 25.00           C
ATOM     88  CA  VAL    88       9.270   4.443 -22.970  1.00 25.00           C
ATOM     89  CA  ARG    89       6.457   3.337 -25.372  1.00 25.00           C
ATOM     90  CA  LEU    90       3.781   0.710 -24.645  1.00 25.00           C
ATOM     91  CA  MET    91       0.462  -0.832 -25.748  1.00 25.00           C
ATOM     92  CA  CYS    92      -1.236  -3.524 -23.664  1.00 25.00           C
ATOM     93  CA  ASP    93      -4.194  -4.824 -25.671  1.00 25.00           C
ATOM     94  CA  PHE    94      -6.360  -7.686 -24.509  1.00 25.00           C
ATOM     95  CA  LEU    95      -8.638 -10.664 -24.216  1.00 25.00           C
ATOM     96  CA  SER    96      -9.060 -13.749 -21.949  1.00 25.00           C
ATOM     97  CA  GLY    97      -8.608 -13.284 -18.245  1.00 25.00           C
ATOM     98  CA  ALA    98      -8.191 -15.125 -14.947  1.00 25.00           C
ATOM     99  CA  LYS    99     -10.895 -14.475 -12.330  1.00 25.00           C
ATOM    100  CA  LEU   100      -8.323 -15.525  -9.831  1.00 25.00           C
ATOM    101  CA  GLY   101      -6.328 -17.885  -7.656  1.00 25.00           C
ATOM    102  CA  ASP   102      -3.401 -18.356 -10.003  1.00 25.00           C
ATOM    103  CA  TRP   103      -2.817 -15.030 -11.821  1.00 25.00           C
ATOM    104  CA  VAL   104       0.027 -14.036 -14.124  1.00 25.00           C
ATOM    105  CA  GLU   105       2.939 -13.484 -16.508  1.00 25.00           C
ATOM    106  CA  GLY   106       4.957 -10.712 -18.025  1.00 25.00           C
ATOM    107  CA  GLU   107       8.172 -12.398 -18.989  1.00 25.00           C
ATOM    108  CA  GLY   108       9.430  -9.828 -21.491  1.00 25.00           C
ATOM    109  CA  GLU   109      11.415 -12.350 -23.528  1.00 25.00           C
ATOM    110  CA  LEU   110      14.499 -10.647 -24.992  1.00 25.00           C
ATOM    111  CA  ILE   111      13.604 -10.630 -28.630  1.00 25.00           C
ATOM    112  CA  SER   112      13.894  -7.648 -30.960  1.00 25.00           C
ATOM    113  CA  GLU   113      16.479  -5.638 -32.967  1.00 25.00           C
ATOM    114  CA  GLU   114      15.860  -3.667 -36.214  1.00 25.00           C
ATOM    115  CA  ASP   115      15.654  -0.411 -34.261  1.00 25.00           C
ATOM    116  CA  MET   116      14.759  -0.789 -30.587  1.00 25.00           C
ATOM    117  CA  LEU   117      15.819  -3.648 -28.362  1.00 25.00           C
ATOM    118  CA  PHE   118      13.605  -5.629 -26.003  1.00 25.00           C
ATOM    119  CA  THR   119      10.182  -7.268 -26.258  1.00 25.00           C
ATOM    120  CA  VAL   120       7.116  -9.471 -25.920  1.00 25.00           C
ATOM    121  CA  ARG   121       4.051 -11.580 -26.659  1.00 25.00           C
ATOM    122  CA  GLY   122       3.826 -11.817 -22.825  1.00 25.00           C
ATOM    123  CA  ARG   123       4.549 -15.308 -21.501  1.00 25.00           C
ATOM    124  CA  ILE   124       0.889 -15.800 -20.544  1.00 25.00           C
ATOM    125  CA  TRP   125       1.577 -18.309 -17.796  1.00 25.00           C
ATOM    126  CA  ALA   126      -0.644 -19.883 -15.100  1.00 25.00           C
ATOM    127  CA  GLY   127      -1.253 -23.042 -17.128  1.00 25.00           C
ATOM    128  CA  GLU   128      -4.017 -22.639 -19.697  1.00 25.00           C
ATOM    129  CA  ARG   129      -3.217 -19.842 -22.049  1.00 25.00           C
ATOM    130  CA  THR   130      -3.749 -16.121 -22.529  1.00 25.00           C
ATOM    131  CA  LEU   131      -3.780 -13.492 -19.830  1.00 25.00           C
ATOM    132  CA  ILE   132      -2.007 -10.151 -20.624  1.00 25.00           C
ATOM    133  CA  THR   133      -0.906  -8.660 -23.910  1.00 25.00           C
ATOM    134  CA  GLY   134       2.524  -7.165 -24.127  1.00 25.00           C
ATOM    135  CA  THR   135       4.942  -4.901 -26.087  1.00 25.00           C
ATOM    136  CA  GLY   136       7.289  -2.835 -23.895  1.00 25.00           C
ATOM    137  CA  VAL   137      10.659  -1.078 -24.482  1.00 25.00           C
ATOM    138  CA  PHE   138      14.368  -0.862 -23.899  1.00 25.00           C
ATOM    139  CA  LYS   139      15.635   2.450 -25.140  1.00 25.00           C
ATOM    140  CA  ALA   140      19.144   0.886 -24.989  1.00 25.00           C
ATOM    141  CA  LEU   141      20.173   4.521 -24.472  1.00 25.00           C
ATOM    142  CA  SER   142      22.302   7.433 -23.265  1.00 25.00           C
ATOM    143  CA  ALA   143      25.996   7.285 -24.091  1.00 25.00           C
ATOM    144  CA  ARG   144      27.700   9.571 -26.618  1.00 25.00           C
ATOM    145  CA  LYS   145      27.003   6.843 -29.112  1.00 25.00           C
ATOM    146  CA  PRO   146      25.667   3.393 -28.515  1.00 25.00           C
ATOM    147  CA  ARG   147      27.571   1.759 -25.666  1.00 25.00           C
ATOM    148  CA  PRO   148      27.220  -1.899 -26.805  1.00 25.00           C
ATOM    149  CA  GLY   149      25.181  -4.925 -25.790  1.00 25.00           C
ATOM    150  CA  GLU   150      24.449  -8.187 -23.955  1.00 25.00           C
ATOM    151  CA  LEU   151      21.043  -9.234 -22.633  1.00 25.00           C
ATOM    152  CA  ALA   152      23.109 -11.289 -20.185  1.00 25.00           C
ATOM    153  CA  TYR   153      24.185 -11.874 -16.641  1.00 25.00           C
ATOM    154  CA  LYS   154      26.734 -10.566 -14.131  1.00 25.00           C
ATOM    155  CA  GLU   155      26.641 -11.632 -10.434  1.00 25.00           C
ATOM    156  CA  GLU   156      24.187 -10.221  -7.958  1.00 25.00           C
ATOM    157  CA  ALA   157      22.147  -7.089  -8.547  1.00 25.00           C
TER
END
