
#######################################################
#                                                     #
#                        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  132 (  132),  selected  132 , name T0302TS393_1
# Molecule2: number of CA atoms  132 ( 2145),  selected  132 , name T0302.pdb
# PARAMETERS: T0302TS393_1.T0302.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1           #
LGA    M       2      M       2          2.803
LGA    V       3      V       3          4.302
LGA    S       4      S       4          3.664
LGA    P       5      P       5          2.713
LGA    E       6      E       6          2.359
LGA    E       7      E       7          3.953
LGA    A       8      A       8          4.157
LGA    V       9      V       9          3.162
LGA    K      10      K      10          2.763
LGA    W      11      -       -           -
LGA    G      12      -       -           -
LGA    E      13      W      11          0.866
LGA    S      14      G      12           #
LGA    -       -      E      13           -
LGA    -       -      S      14           -
LGA    -       -      F      15           -
LGA    F      15      D      16           #
LGA    D      16      K      17          4.126
LGA    K      17      L      18          4.623
LGA    L      18      L      19          4.412
LGA    L      19      S      20          4.430
LGA    S      20      -       -           -
LGA    H      21      H      21          2.335
LGA    R      22      R      22          1.046
LGA    D      23      D      23          2.197
LGA    G      24      G      24          2.741
LGA    L      25      L      25          1.511
LGA    E      26      E      26          1.601
LGA    A      27      A      27          2.915
LGA    F      28      F      28          2.037
LGA    T      29      T      29          1.201
LGA    R      30      R      30          2.461
LGA    F      31      F      31          2.565
LGA    L      32      L      32          1.441
LGA    K      33      K      33          1.532
LGA    T      34      T      34          1.671
LGA    E      35      E      35          1.468
LGA    F      36      F      36          3.012
LGA    S      37      S      37          2.579
LGA    E      38      E      38          1.978
LGA    E      39      E      39          2.785
LGA    N      40      N      40          1.445
LGA    I      41      I      41          1.464
LGA    E      42      E      42          2.204
LGA    F      43      F      43          1.058
LGA    W      44      W      44          1.319
LGA    I      45      I      45          1.206
LGA    A      46      A      46          0.845
LGA    C      47      C      47          0.796
LGA    E      48      E      48          1.108
LGA    D      49      D      49          0.634
LGA    F      50      F      50          0.991
LGA    K      51      K      51          0.924
LGA    K      52      K      52          4.734
LGA    S      53      S      53          2.802
LGA    K      54      K      54          0.789
LGA    G      55      G      55          2.472
LGA    P      56      P      56          1.583
LGA    Q      57      Q      57          1.151
LGA    Q      58      Q      58          1.109
LGA    I      59      I      59          0.900
LGA    H      60      H      60          1.130
LGA    L      61      L      61          0.964
LGA    K      62      K      62          1.220
LGA    A      63      A      63          0.850
LGA    K      64      K      64          0.388
LGA    A      65      A      65          0.817
LGA    I      66      I      66          1.179
LGA    Y      67      Y      67          0.176
LGA    E      68      E      68          1.435
LGA    K      69      K      69          1.864
LGA    F      70      F      70          0.780
LGA    -       -      I      71           -
LGA    I      71      Q      72          2.491
LGA    Q      72      T      73           #
LGA    T      73      D      74          5.253
LGA    D      74      A      75          5.015
LGA    A      75      -       -           -
LGA    P      76      P      76           #
LGA    K      77      K      77           -
LGA    E      78      -       -           -
LGA    V      79      E      78           #
LGA    N      80      V      79           -
LGA    L      81      N      80           #
LGA    D      82      L      81           -
LGA    F      83      D      82           #
LGA    H      84      F      83          3.942
LGA    T      85      H      84          3.743
LGA    -       -      T      85           -
LGA    K      86      K      86          2.921
LGA    E      87      E      87          2.950
LGA    V      88      V      88          1.803
LGA    I      89      I      89          1.439
LGA    T      90      T      90          1.847
LGA    N      91      N      91          1.480
LGA    S      92      S      92          1.498
LGA    I      93      I      93          1.546
LGA    T      94      T      94          1.803
LGA    Q      95      Q      95          2.230
LGA    P      96      P      96          2.095
LGA    T      97      T      97          1.093
LGA    L      98      L      98          3.522
LGA    H      99      H      99          5.233
LGA    S     100      S     100          3.240
LGA    F     101      F     101          1.032
LGA    D     102      D     102          0.672
LGA    A     103      A     103          0.904
LGA    A     104      A     104          1.096
LGA    Q     105      Q     105          1.050
LGA    S     106      S     106          1.137
LGA    R     107      R     107          0.697
LGA    V     108      V     108          0.493
LGA    Y     109      Y     109          0.518
LGA    Q     110      Q     110          1.224
LGA    L     111      L     111          1.055
LGA    M     112      M     112          1.185
LGA    E     113      E     113          1.403
LGA    Q     114      Q     114          1.392
LGA    D     115      D     115          2.163
LGA    S     116      S     116          1.237
LGA    Y     117      Y     117          0.607
LGA    T     118      T     118          1.270
LGA    R     119      R     119          1.945
LGA    F     120      F     120          1.875
LGA    L     121      L     121          2.682
LGA    K     122      K     122          4.859
LGA    S     123      S     123          5.044
LGA    D     124      D     124          4.206
LGA    I     125      I     125          3.558
LGA    Y     126      Y     126          1.624
LGA    L     127      L     127          2.020
LGA    D     128      D     128          2.632
LGA    L     129      L     129          2.707
LGA    M     130      M     130          2.070
LGA    E     131      E     131          1.374
LGA    G     132      G     132           #

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0    115    2.42    92.17     60.039     4.568

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.315831 * X  +   0.530096 * Y  +  -0.786923 * Z  + 122.749031
  Y_new =   0.947189 * X  +   0.127613 * Y  +  -0.294190 * Z  +  -3.971282
  Z_new =  -0.055527 * X  +  -0.838280 * Y  +  -0.542406 * Z  +   0.569254 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.145092    0.996500  [ DEG:  -122.9047     57.0953 ]
  Theta =   0.055556    3.086037  [ DEG:     3.1831    176.8169 ]
  Phi   =   1.892643   -1.248950  [ DEG:   108.4405    -71.5595 ]
 
# 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: T0302TS393_1                                  
REMARK     2: T0302.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0302TS393_1.T0302.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  132  132   5.0  115   2.42   92.17  60.039
REMARK  ---------------------------------------------------------- 
MOLECULE T0302TS393_1
PFRMAT TS
TARGET T0302
MODEL 1
PARENT N/A
ATOM      1  CA  SER     1     146.059   4.118   9.815  1.00 25.00           C
ATOM      2  CA  MET     2     144.369   5.518   6.663  1.00 25.00           C
ATOM      3  CA  VAL     3     143.540   8.781   4.890  1.00 25.00           C
ATOM      4  CA  SER     4     145.183  10.819   2.209  1.00 25.00           C
ATOM      5  CA  PRO     5     143.992  12.377  -1.029  1.00 25.00           C
ATOM      6  CA  GLU     6     143.574  11.321  -4.686  1.00 25.00           C
ATOM      7  CA  GLU     7     144.573   7.733  -3.789  1.00 25.00           C
ATOM      8  CA  ALA     8     142.038   7.718  -0.920  1.00 25.00           C
ATOM      9  CA  VAL     9     139.312   8.992  -3.290  1.00 25.00           C
ATOM     10  CA  LYS    10     140.187   6.246  -5.812  1.00 25.00           C
ATOM     11  CA  TRP    11     140.001   3.608  -3.042  1.00 25.00           C
ATOM     12  CA  GLY    12     136.584   4.952  -1.958  1.00 25.00           C
ATOM     13  CA  GLU    13     135.349   4.806  -5.580  1.00 25.00           C
ATOM     14  CA  SER    14     136.588   1.195  -5.883  1.00 25.00           C
ATOM     15  CA  PHE    15     134.786   0.278  -2.631  1.00 25.00           C
ATOM     16  CA  ASP    16     131.565   1.889  -3.934  1.00 25.00           C
ATOM     17  CA  LYS    17     131.879  -0.072  -7.209  1.00 25.00           C
ATOM     18  CA  LEU    18     132.384  -3.320  -5.245  1.00 25.00           C
ATOM     19  CA  LEU    19     129.286  -2.550  -3.128  1.00 25.00           C
ATOM     20  CA  SER    20     131.779  -3.235  -0.301  1.00 25.00           C
ATOM     21  CA  HIS    21     135.438  -3.336   0.798  1.00 25.00           C
ATOM     22  CA  ARG    22     136.137  -1.105   3.872  1.00 25.00           C
ATOM     23  CA  ASP    23     136.355   2.001   6.103  1.00 25.00           C
ATOM     24  CA  GLY    24     134.491   4.057   3.463  1.00 25.00           C
ATOM     25  CA  LEU    25     131.773   1.368   3.250  1.00 25.00           C
ATOM     26  CA  GLU    26     131.432   1.375   7.065  1.00 25.00           C
ATOM     27  CA  ALA    27     131.122   5.192   7.055  1.00 25.00           C
ATOM     28  CA  PHE    28     128.423   4.990   4.345  1.00 25.00           C
ATOM     29  CA  THR    29     126.524   2.373   6.397  1.00 25.00           C
ATOM     30  CA  ARG    30     126.735   4.615   9.495  1.00 25.00           C
ATOM     31  CA  PHE    31     125.413   7.582   7.467  1.00 25.00           C
ATOM     32  CA  LEU    32     122.513   5.441   6.175  1.00 25.00           C
ATOM     33  CA  LYS    33     121.694   4.346   9.753  1.00 25.00           C
ATOM     34  CA  THR    34     121.731   7.999  10.904  1.00 25.00           C
ATOM     35  CA  GLU    35     118.351   8.178   9.150  1.00 25.00           C
ATOM     36  CA  PHE    36     117.282   6.065   6.170  1.00 25.00           C
ATOM     37  CA  SER    37     117.159   3.595   3.307  1.00 25.00           C
ATOM     38  CA  GLU    38     119.720   1.554   5.270  1.00 25.00           C
ATOM     39  CA  GLU    39     117.086  -1.214   5.009  1.00 25.00           C
ATOM     40  CA  ASN    40     118.434  -2.207   1.565  1.00 25.00           C
ATOM     41  CA  ILE    41     121.996  -2.326   2.968  1.00 25.00           C
ATOM     42  CA  GLU    42     120.806  -4.524   5.870  1.00 25.00           C
ATOM     43  CA  PHE    43     119.053  -6.872   3.404  1.00 25.00           C
ATOM     44  CA  TRP    44     122.248  -7.092   1.304  1.00 25.00           C
ATOM     45  CA  ILE    45     124.287  -7.899   4.444  1.00 25.00           C
ATOM     46  CA  ALA    46     121.780 -10.632   5.400  1.00 25.00           C
ATOM     47  CA  CYS    47     122.008 -12.108   1.873  1.00 25.00           C
ATOM     48  CA  GLU    48     125.831 -12.094   2.087  1.00 25.00           C
ATOM     49  CA  ASP    49     125.671 -13.854   5.484  1.00 25.00           C
ATOM     50  CA  PHE    50     123.298 -16.488   4.036  1.00 25.00           C
ATOM     51  CA  LYS    51     125.678 -17.045   1.086  1.00 25.00           C
ATOM     52  CA  LYS    52     127.558 -20.193   0.128  1.00 25.00           C
ATOM     53  CA  SER    53     128.477 -21.387   3.639  1.00 25.00           C
ATOM     54  CA  LYS    54     126.636 -24.489   4.991  1.00 25.00           C
ATOM     55  CA  GLY    55     123.640 -26.517   3.707  1.00 25.00           C
ATOM     56  CA  PRO    56     120.114 -27.914   3.306  1.00 25.00           C
ATOM     57  CA  GLN    57     117.814 -27.263   6.300  1.00 25.00           C
ATOM     58  CA  GLN    58     120.171 -24.512   7.543  1.00 25.00           C
ATOM     59  CA  ILE    59     120.187 -22.917   4.061  1.00 25.00           C
ATOM     60  CA  HIS    60     116.359 -23.021   3.970  1.00 25.00           C
ATOM     61  CA  LEU    61     116.207 -21.378   7.426  1.00 25.00           C
ATOM     62  CA  LYS    62     118.622 -18.644   6.259  1.00 25.00           C
ATOM     63  CA  ALA    63     116.469 -18.035   3.150  1.00 25.00           C
ATOM     64  CA  LYS    64     113.337 -17.780   5.339  1.00 25.00           C
ATOM     65  CA  ALA    65     115.112 -15.276   7.630  1.00 25.00           C
ATOM     66  CA  ILE    66     116.162 -13.200   4.589  1.00 25.00           C
ATOM     67  CA  TYR    67     112.558 -13.223   3.296  1.00 25.00           C
ATOM     68  CA  GLU    68     111.293 -12.091   6.730  1.00 25.00           C
ATOM     69  CA  LYS    69     113.872  -9.260   6.772  1.00 25.00           C
ATOM     70  CA  PHE    70     112.775  -8.175   3.267  1.00 25.00           C
ATOM     71  CA  ILE    71     109.113  -8.182   4.384  1.00 25.00           C
ATOM     72  CA  GLN    72     106.696  -9.985   6.767  1.00 25.00           C
ATOM     73  CA  THR    73     104.165  -9.940   9.607  1.00 25.00           C
ATOM     74  CA  ASP    74     104.543  -6.299  10.670  1.00 25.00           C
ATOM     75  CA  ALA    75     105.384  -4.871   7.279  1.00 25.00           C
ATOM     76  CA  PRO    76     104.365  -1.497   8.597  1.00 25.00           C
ATOM     77  CA  LYS    77     103.141  -0.253   5.233  1.00 25.00           C
ATOM     78  CA  GLU    78     101.414  -0.301   1.880  1.00 25.00           C
ATOM     79  CA  VAL    79     104.647  -1.378   0.101  1.00 25.00           C
ATOM     80  CA  ASN    80     103.263  -2.057  -3.414  1.00 25.00           C
ATOM     81  CA  LEU    81     105.391  -1.628  -6.538  1.00 25.00           C
ATOM     82  CA  ASP    82     104.465  -4.983  -8.142  1.00 25.00           C
ATOM     83  CA  PHE    83     105.246  -7.972  -5.912  1.00 25.00           C
ATOM     84  CA  HIS    84     106.614 -10.414  -8.526  1.00 25.00           C
ATOM     85  CA  THR    85     110.006 -10.455  -6.748  1.00 25.00           C
ATOM     86  CA  LYS    86     108.272 -11.149  -3.404  1.00 25.00           C
ATOM     87  CA  GLU    87     106.295 -14.018  -4.998  1.00 25.00           C
ATOM     88  CA  VAL    88     109.529 -15.477  -6.442  1.00 25.00           C
ATOM     89  CA  ILE    89     111.196 -15.252  -3.001  1.00 25.00           C
ATOM     90  CA  THR    90     108.196 -17.020  -1.406  1.00 25.00           C
ATOM     91  CA  ASN    91     108.384 -19.781  -4.054  1.00 25.00           C
ATOM     92  CA  SER    92     112.131 -20.204  -3.383  1.00 25.00           C
ATOM     93  CA  ILE    93     111.455 -20.447   0.379  1.00 25.00           C
ATOM     94  CA  THR    94     111.536 -24.221   0.346  1.00 25.00           C
ATOM     95  CA  GLN    95     114.171 -26.403  -1.430  1.00 25.00           C
ATOM     96  CA  PRO    96     116.914 -23.780  -1.547  1.00 25.00           C
ATOM     97  CA  THR    97     120.029 -22.210  -3.075  1.00 25.00           C
ATOM     98  CA  LEU    98     122.046 -18.970  -3.614  1.00 25.00           C
ATOM     99  CA  HIS    99     119.408 -18.121  -6.230  1.00 25.00           C
ATOM    100  CA  SER   100     116.353 -15.989  -5.346  1.00 25.00           C
ATOM    101  CA  PHE   101     118.262 -14.426  -2.416  1.00 25.00           C
ATOM    102  CA  ASP   102     121.218 -13.650  -4.723  1.00 25.00           C
ATOM    103  CA  ALA   103     118.847 -12.030  -7.258  1.00 25.00           C
ATOM    104  CA  ALA   104     117.277  -9.918  -4.475  1.00 25.00           C
ATOM    105  CA  GLN   105     120.758  -8.820  -3.314  1.00 25.00           C
ATOM    106  CA  SER   106     121.681  -7.862  -6.905  1.00 25.00           C
ATOM    107  CA  ARG   107     118.444  -5.840  -7.225  1.00 25.00           C
ATOM    108  CA  VAL   108     119.210  -4.048  -3.928  1.00 25.00           C
ATOM    109  CA  TYR   109     122.745  -3.240  -5.159  1.00 25.00           C
ATOM    110  CA  GLN   110     121.316  -1.861  -8.434  1.00 25.00           C
ATOM    111  CA  LEU   111     118.841   0.303  -6.472  1.00 25.00           C
ATOM    112  CA  MET   112     121.693   1.624  -4.283  1.00 25.00           C
ATOM    113  CA  GLU   113     123.742   2.452  -7.412  1.00 25.00           C
ATOM    114  CA  GLN   114     120.741   4.295  -8.918  1.00 25.00           C
ATOM    115  CA  ASP   115     120.555   6.962  -6.237  1.00 25.00           C
ATOM    116  CA  SER   116     121.603   8.036  -2.757  1.00 25.00           C
ATOM    117  CA  TYR   117     125.029   6.625  -3.566  1.00 25.00           C
ATOM    118  CA  THR   118     125.202   9.015  -6.553  1.00 25.00           C
ATOM    119  CA  ARG   119     125.246  12.019  -4.178  1.00 25.00           C
ATOM    120  CA  PHE   120     128.066  10.406  -2.150  1.00 25.00           C
ATOM    121  CA  LEU   121     130.054   9.784  -5.364  1.00 25.00           C
ATOM    122  CA  LYS   122     130.545  13.443  -6.183  1.00 25.00           C
ATOM    123  CA  SER   123     129.081  15.606  -3.404  1.00 25.00           C
ATOM    124  CA  ASP   124     129.569  17.495  -0.171  1.00 25.00           C
ATOM    125  CA  ILE   125     130.396  15.160   2.750  1.00 25.00           C
ATOM    126  CA  TYR   126     132.581  13.015   0.449  1.00 25.00           C
ATOM    127  CA  LEU   127     134.401  16.149  -0.785  1.00 25.00           C
ATOM    128  CA  ASP   128     134.991  17.261   2.831  1.00 25.00           C
ATOM    129  CA  LEU   129     136.373  13.795   3.697  1.00 25.00           C
ATOM    130  CA  MET   130     138.710  13.943   0.667  1.00 25.00           C
ATOM    131  CA  GLU   131     140.143  17.414   1.526  1.00 25.00           C
ATOM    132  CA  GLY   132     140.946  16.355   5.061  1.00 25.00           C
TER
END
