
#######################################################
#                                                     #
#                        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  145 (  145),  selected  145 , name T0380TS168_5
# Molecule2: number of CA atoms  142 ( 1146),  selected  142 , name T0380.pdb
# PARAMETERS: T0380TS168_5.T0380.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      I       2           -
LGA    -       -      D       3           -
LGA    M       1      E       4          4.231
LGA    I       2      K       5          3.249
LGA    -       -      F       6           -
LGA    D       3      L       7          4.060
LGA    E       4      I       8          2.008
LGA    K       5      E       9          2.413
LGA    F       6      S      10          2.430
LGA    L       7      N      11          1.941
LGA    I       8      E      12          1.871
LGA    E       9      L      13          3.081
LGA    S      10      V      14          3.657
LGA    N      11      E      15          3.648
LGA    E      12      S      16          3.779
LGA    L      13      -       -           -
LGA    V      14      -       -           -
LGA    E      15      -       -           -
LGA    S      16      S      17          2.214
LGA    S      17      K      18          2.923
LGA    K      18      I      19           #
LGA    I      19      V      20          2.048
LGA    V      20      M      21          4.748
LGA    M      21      V      22           #
LGA    -       -      G      23           -
LGA    -       -      T      24           -
LGA    -       -      N      25           -
LGA    -       -      G      26           -
LGA    -       -      E      27           -
LGA    -       -      N      28           -
LGA    -       -      G      29           -
LGA    -       -      Y      30           -
LGA    -       -      P      31           -
LGA    V      22      N      32           #
LGA    G      23      I      33          2.249
LGA    T      24      K      34           #
LGA    N      25      -       -           -
LGA    G      26      -       -           -
LGA    E      27      -       -           -
LGA    N      28      -       -           -
LGA    G      29      -       -           -
LGA    Y      30      -       -           -
LGA    P      31      -       -           -
LGA    N      32      -       -           -
LGA    I      33      -       -           -
LGA    K      34      -       -           -
LGA    A      35      A      35           #
LGA    M      36      M      36          1.474
LGA    M      37      M      37          1.398
LGA    R      38      R      38          3.361
LGA    L      39      L      39          2.789
LGA    K      40      K      40          3.011
LGA    H      41      H      41          4.425
LGA    D      42      D      42          3.709
LGA    G      43      G      43           #
LGA    -       -      L      44           -
LGA    L      44      K      45          4.485
LGA    K      45      K      46          1.911
LGA    K      46      F      47          2.737
LGA    F      47      W      48          4.678
LGA    W      48      L      49          3.214
LGA    L      49      S      50          3.757
LGA    S      50      T      51          3.012
LGA    T      51      N      52          4.663
LGA    N      52      T      53          2.673
LGA    T      53      -       -           -
LGA    S      54      S      54          5.193
LGA    T      55      T      55          3.267
LGA    R      56      R      56          2.019
LGA    M      57      M      57          2.016
LGA    V      58      V      58          1.491
LGA    E      59      E      59          0.633
LGA    R      60      R      60          0.794
LGA    L      61      L      61          1.164
LGA    K      62      K      62          2.326
LGA    K      63      K      63          2.743
LGA    N      64      N      64          2.409
LGA    N      65      N      65          2.739
LGA    K      66      K      66          5.302
LGA    I      67      I      67          5.353
LGA    C      68      C      68           #
LGA    L      69      L      69          4.555
LGA    Y      70      Y      70          2.897
LGA    F      71      F      71          1.498
LGA    V      72      V      72          3.415
LGA    D      73      D      73          3.609
LGA    D      74      D      74          3.324
LGA    N      75      N      75          3.690
LGA    K      76      K      76          4.021
LGA    -       -      F      77           -
LGA    F      77      A      78          2.239
LGA    A      78      G      79          2.015
LGA    G      79      L      80          0.822
LGA    L      80      M      81          1.417
LGA    M      81      L      82          3.588
LGA    L      82      V      83          4.197
LGA    V      83      G      84           #
LGA    G      84      -       -           -
LGA    T      85      T      85           #
LGA    I      86      I      86          1.938
LGA    E      87      E      87          3.377
LGA    I      88      I      88          2.321
LGA    L      89      L      89          2.575
LGA    H      90      H      90          4.862
LGA    D      91      D      91          2.690
LGA    R      92      R      92          2.398
LGA    A      93      A      93          0.947
LGA    S      94      S      94          0.714
LGA    K      95      K      95          1.794
LGA    E      96      E      96          2.483
LGA    M      97      M      97          2.384
LGA    L      98      L      98          2.299
LGA    W      99      W      99          3.085
LGA    T     100      T     100          3.535
LGA    D     101      D     101          5.235
LGA    -       -      G     102           -
LGA    G     102      C     103           #
LGA    C     103      E     104           -
LGA    -       -      I     105           -
LGA    -       -      Y     106           -
LGA    -       -      Y     107           -
LGA    -       -      P     108           -
LGA    -       -      L     109           -
LGA    -       -      G     110           -
LGA    -       -      I     111           -
LGA    -       -      D     112           -
LGA    -       -      D     113           -
LGA    -       -      P     114           -
LGA    -       -      D     115           -
LGA    -       -      Y     116           -
LGA    -       -      T     117           -
LGA    E     104      A     118           #
LGA    I     105      L     119          4.364
LGA    -       -      C     120           -
LGA    Y     106      F     121          0.958
LGA    Y     107      T     122          1.501
LGA    P     108      A     123          3.126
LGA    L     109      E     124          3.295
LGA    G     110      W     125          4.770
LGA    I     111      -       -           -
LGA    D     112      -       -           -
LGA    D     113      -       -           -
LGA    P     114      G     126           #
LGA    D     115      N     127           -
LGA    Y     116      Y     128           -
LGA    T     117      Y     129           -
LGA    A     118      R     130           -
LGA    L     119      H     131           -
LGA    C     120      L     132           -
LGA    F     121      K     133           -
LGA    T     122      N     134           -
LGA    A     123      I     135           -
LGA    E     124      T     136           -
LGA    W     125      F     137           -
LGA    G     126      K     138           -
LGA    N     127      I     139           -
LGA    Y     128      D     140           -
LGA    Y     129      E     141           -
LGA    R     130      I     142           -
LGA    H     131      Y     143           -
LGA    L     132      -       -           -
LGA    K     133      -       -           -
LGA    N     134      -       -           -
LGA    I     135      -       -           -
LGA    T     136      -       -           -
LGA    F     137      -       -           -
LGA    K     138      -       -           -
LGA    I     139      -       -           -
LGA    D     140      -       -           -
LGA    E     141      -       -           -
LGA    I     142      -       -           -
LGA    Y     143      -       -           -
LGA    N     144      -       -           -
LGA    Y     145      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  145  142    5.0     83    3.14    56.63     31.585     2.562

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.690412 * X  +   0.184050 * Y  +  -0.699612 * Z  +  -5.859159
  Y_new =   0.421318 * X  +  -0.888454 * Y  +   0.182048 * Z  +  -5.054708
  Z_new =  -0.588067 * X  +  -0.420447 * Y  +  -0.690942 * Z  +  15.107270 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.594938    0.546655  [ DEG:  -148.6790     31.3210 ]
  Theta =   0.628667    2.512926  [ DEG:    36.0200    143.9800 ]
  Phi   =   0.547916   -2.593677  [ DEG:    31.3933   -148.6067 ]
 
# 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: T0380TS168_5                                  
REMARK     2: T0380.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0380TS168_5.T0380.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  145  142   5.0   83   3.14   56.63  31.585
REMARK  ---------------------------------------------------------- 
MOLECULE T0380TS168_5
PFRMAT TS
TARGET T0380
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1     -21.726   0.677   2.484  1.00 25.00           C
ATOM      2  CA  ILE     2     -21.285   4.023   4.226  1.00 25.00           C
ATOM      3  CA  ASP     3     -18.979   5.129   1.352  1.00 25.00           C
ATOM      4  CA  GLU     4     -15.675   6.615   2.416  1.00 25.00           C
ATOM      5  CA  LYS     5     -16.397   9.113   5.227  1.00 25.00           C
ATOM      6  CA  PHE     6     -16.394   6.268   7.790  1.00 25.00           C
ATOM      7  CA  LEU     7     -13.048   5.005   6.422  1.00 25.00           C
ATOM      8  CA  ILE     8     -11.588   8.537   6.667  1.00 25.00           C
ATOM      9  CA  GLU     9     -12.816   8.820  10.283  1.00 25.00           C
ATOM     10  CA  SER    10     -11.224   5.438  11.115  1.00 25.00           C
ATOM     11  CA  ASN    11      -7.923   6.577   9.543  1.00 25.00           C
ATOM     12  CA  GLU    12      -8.035   9.811  11.589  1.00 25.00           C
ATOM     13  CA  LEU    13      -8.672   7.797  14.784  1.00 25.00           C
ATOM     14  CA  VAL    14      -5.713   5.510  13.961  1.00 25.00           C
ATOM     15  CA  GLU    15      -3.478   8.566  13.385  1.00 25.00           C
ATOM     16  CA  SER    16      -2.839   6.308  10.320  1.00 25.00           C
ATOM     17  CA  SER    17      -4.232   3.093   8.764  1.00 25.00           C
ATOM     18  CA  LYS    18      -7.093   1.457  10.552  1.00 25.00           C
ATOM     19  CA  ILE    19      -6.090  -1.042  13.300  1.00 25.00           C
ATOM     20  CA  VAL    20      -4.046   0.411  16.157  1.00 25.00           C
ATOM     21  CA  MET    21      -4.330  -1.062  19.654  1.00 25.00           C
ATOM     22  CA  VAL    22      -4.401  -4.261  21.603  1.00 25.00           C
ATOM     23  CA  GLY    23      -5.954  -6.772  23.973  1.00 25.00           C
ATOM     24  CA  THR    24      -8.871  -9.119  24.785  1.00 25.00           C
ATOM     25  CA  ASN    25      -7.328 -12.365  26.085  1.00 25.00           C
ATOM     26  CA  GLY    26      -9.598 -15.435  26.658  1.00 25.00           C
ATOM     27  CA  GLU    27      -9.608 -18.422  29.027  1.00 25.00           C
ATOM     28  CA  ASN    28     -10.875 -17.429  32.475  1.00 25.00           C
ATOM     29  CA  GLY    29      -7.556 -15.827  33.329  1.00 25.00           C
ATOM     30  CA  TYR    30      -4.187 -16.720  31.770  1.00 25.00           C
ATOM     31  CA  PRO    31      -4.055 -15.838  28.088  1.00 25.00           C
ATOM     32  CA  ASN    32      -2.250 -12.511  27.566  1.00 25.00           C
ATOM     33  CA  ILE    33      -2.089 -10.215  24.478  1.00 25.00           C
ATOM     34  CA  LYS    34      -0.131  -7.039  23.577  1.00 25.00           C
ATOM     35  CA  ALA    35      -0.858  -7.438  19.855  1.00 25.00           C
ATOM     36  CA  MET    36      -1.601  -5.222  16.804  1.00 25.00           C
ATOM     37  CA  MET    37      -0.287  -2.482  14.517  1.00 25.00           C
ATOM     38  CA  ARG    38       0.137  -1.410  10.884  1.00 25.00           C
ATOM     39  CA  LEU    39      -2.687  -2.930   8.894  1.00 25.00           C
ATOM     40  CA  LYS    40      -4.375  -1.524   5.839  1.00 25.00           C
ATOM     41  CA  HIS    41      -4.107  -2.403   2.162  1.00 25.00           C
ATOM     42  CA  ASP    42      -7.002  -3.999   0.349  1.00 25.00           C
ATOM     43  CA  GLY    43      -9.629  -6.531  -0.863  1.00 25.00           C
ATOM     44  CA  LEU    44     -13.037  -6.685   0.897  1.00 25.00           C
ATOM     45  CA  LYS    45     -11.227  -7.687   4.090  1.00 25.00           C
ATOM     46  CA  LYS    46     -10.396  -6.002   7.431  1.00 25.00           C
ATOM     47  CA  PHE    47      -7.290  -4.956   9.373  1.00 25.00           C
ATOM     48  CA  TRP    48      -5.106  -5.725  12.356  1.00 25.00           C
ATOM     49  CA  LEU    49      -2.618  -8.627  12.847  1.00 25.00           C
ATOM     50  CA  SER    50       1.140  -8.597  13.391  1.00 25.00           C
ATOM     51  CA  THR    51       0.840 -10.785  16.492  1.00 25.00           C
ATOM     52  CA  ASN    52       4.016 -12.953  16.217  1.00 25.00           C
ATOM     53  CA  THR    53       3.192 -16.635  16.745  1.00 25.00           C
ATOM     54  CA  SER    54       5.352 -17.897  19.587  1.00 25.00           C
ATOM     55  CA  THR    55       4.459 -14.653  21.331  1.00 25.00           C
ATOM     56  CA  ARG    56       1.737 -15.860  23.677  1.00 25.00           C
ATOM     57  CA  MET    57      -0.558 -14.906  20.764  1.00 25.00           C
ATOM     58  CA  VAL    58      -0.611 -18.549  19.582  1.00 25.00           C
ATOM     59  CA  GLU    59      -1.488 -19.711  23.123  1.00 25.00           C
ATOM     60  CA  ARG    60      -4.321 -17.139  23.293  1.00 25.00           C
ATOM     61  CA  LEU    61      -5.649 -18.344  19.909  1.00 25.00           C
ATOM     62  CA  LYS    62      -5.545 -21.972  21.132  1.00 25.00           C
ATOM     63  CA  LYS    63      -7.442 -20.981  24.308  1.00 25.00           C
ATOM     64  CA  ASN    64     -10.628 -19.136  23.443  1.00 25.00           C
ATOM     65  CA  ASN    65     -11.378 -17.206  20.240  1.00 25.00           C
ATOM     66  CA  LYS    66      -8.914 -14.704  21.630  1.00 25.00           C
ATOM     67  CA  ILE    67      -7.130 -11.495  20.462  1.00 25.00           C
ATOM     68  CA  CYS    68      -5.793  -8.329  18.862  1.00 25.00           C
ATOM     69  CA  LEU    69      -6.947  -5.250  16.877  1.00 25.00           C
ATOM     70  CA  TYR    70      -9.763  -2.680  16.371  1.00 25.00           C
ATOM     71  CA  PHE    71     -10.476   0.874  15.331  1.00 25.00           C
ATOM     72  CA  VAL    72     -10.640   2.871  18.596  1.00 25.00           C
ATOM     73  CA  ASP    73     -12.362   6.167  17.975  1.00 25.00           C
ATOM     74  CA  ASP    74     -14.246   9.440  17.687  1.00 25.00           C
ATOM     75  CA  ASN    75     -14.810  12.712  15.798  1.00 25.00           C
ATOM     76  CA  LYS    76     -17.603  11.016  13.790  1.00 25.00           C
ATOM     77  CA  PHE    77     -19.172   8.248  15.922  1.00 25.00           C
ATOM     78  CA  ALA    78     -16.463   5.840  14.761  1.00 25.00           C
ATOM     79  CA  GLY    79     -16.843   2.039  14.809  1.00 25.00           C
ATOM     80  CA  LEU    80     -15.023  -1.149  16.005  1.00 25.00           C
ATOM     81  CA  MET    81     -13.413  -2.633  12.874  1.00 25.00           C
ATOM     82  CA  LEU    82     -13.246  -5.963  14.744  1.00 25.00           C
ATOM     83  CA  VAL    83     -10.233  -7.387  12.910  1.00 25.00           C
ATOM     84  CA  GLY    84      -7.620  -9.720  14.394  1.00 25.00           C
ATOM     85  CA  THR    85      -6.706 -13.026  15.966  1.00 25.00           C
ATOM     86  CA  ILE    86      -7.444 -15.595  13.321  1.00 25.00           C
ATOM     87  CA  GLU    87      -4.745 -17.847  14.897  1.00 25.00           C
ATOM     88  CA  ILE    88      -2.186 -15.161  14.277  1.00 25.00           C
ATOM     89  CA  LEU    89      -2.306 -15.479  10.492  1.00 25.00           C
ATOM     90  CA  HIS    90      -1.022 -16.636   7.087  1.00 25.00           C
ATOM     91  CA  ASP    91       1.137 -19.361   5.720  1.00 25.00           C
ATOM     92  CA  ARG    92       4.630 -17.941   5.470  1.00 25.00           C
ATOM     93  CA  ALA    93       4.694 -15.884   2.240  1.00 25.00           C
ATOM     94  CA  SER    94       1.589 -13.952   3.380  1.00 25.00           C
ATOM     95  CA  LYS    95       3.233 -13.261   6.769  1.00 25.00           C
ATOM     96  CA  GLU    96       6.397 -12.013   5.008  1.00 25.00           C
ATOM     97  CA  MET    97       4.284  -9.718   2.786  1.00 25.00           C
ATOM     98  CA  LEU    98       2.484  -8.344   5.875  1.00 25.00           C
ATOM     99  CA  TRP    99       5.852  -7.697   7.580  1.00 25.00           C
ATOM    100  CA  THR   100       7.112  -5.876   4.455  1.00 25.00           C
ATOM    101  CA  ASP   101       3.936  -3.736   4.391  1.00 25.00           C
ATOM    102  CA  GLY   102       1.067  -4.600   2.083  1.00 25.00           C
ATOM    103  CA  CYS   103      -1.339  -5.666   4.873  1.00 25.00           C
ATOM    104  CA  GLU   104      -3.958  -8.258   5.770  1.00 25.00           C
ATOM    105  CA  ILE   105      -5.486  -9.790   8.898  1.00 25.00           C
ATOM    106  CA  TYR   106      -8.871 -11.199   9.679  1.00 25.00           C
ATOM    107  CA  TYR   107     -12.587 -10.718   9.939  1.00 25.00           C
ATOM    108  CA  PRO   108     -15.805 -12.254   8.621  1.00 25.00           C
ATOM    109  CA  LEU   109     -19.411 -13.439   8.419  1.00 25.00           C
ATOM    110  CA  GLY   110     -22.352 -11.903  10.301  1.00 25.00           C
ATOM    111  CA  ILE   111     -24.553 -11.689  13.326  1.00 25.00           C
ATOM    112  CA  ASP   112     -22.943 -14.070  15.803  1.00 25.00           C
ATOM    113  CA  ASP   113     -20.156 -11.734  17.040  1.00 25.00           C
ATOM    114  CA  PRO   114     -17.051  -9.705  16.015  1.00 25.00           C
ATOM    115  CA  ASP   115     -14.965 -12.368  14.279  1.00 25.00           C
ATOM    116  CA  TYR   116     -11.891 -14.562  14.699  1.00 25.00           C
ATOM    117  CA  THR   117     -11.391 -12.548  17.853  1.00 25.00           C
ATOM    118  CA  ALA   118     -10.780  -8.823  18.238  1.00 25.00           C
ATOM    119  CA  LEU   119     -10.128  -5.880  20.558  1.00 25.00           C
ATOM    120  CA  CYS   120      -9.649  -2.225  21.437  1.00 25.00           C
ATOM    121  CA  PHE   121      -9.043   0.454  24.054  1.00 25.00           C
ATOM    122  CA  THR   122     -10.646  -2.109  26.433  1.00 25.00           C
ATOM    123  CA  ALA   123     -14.295  -1.080  26.132  1.00 25.00           C
ATOM    124  CA  GLU   124     -13.835   0.230  29.684  1.00 25.00           C
ATOM    125  CA  TRP   125     -10.910   2.608  30.018  1.00 25.00           C
ATOM    126  CA  GLY   126      -8.099   3.839  27.725  1.00 25.00           C
ATOM    127  CA  ASN   127      -6.305   0.589  28.558  1.00 25.00           C
ATOM    128  CA  TYR   128      -3.128  -1.454  27.925  1.00 25.00           C
ATOM    129  CA  TYR   129      -2.769   0.132  24.458  1.00 25.00           C
ATOM    130  CA  ARG   130      -3.188   3.620  25.982  1.00 25.00           C
ATOM    131  CA  HIS   131      -0.404   4.063  28.522  1.00 25.00           C
ATOM    132  CA  LEU   132       1.864   3.941  25.550  1.00 25.00           C
ATOM    133  CA  LYS   133       3.784   1.309  27.488  1.00 25.00           C
ATOM    134  CA  ASN   134       4.843  -1.375  25.066  1.00 25.00           C
ATOM    135  CA  ILE   135       6.574   1.068  22.622  1.00 25.00           C
ATOM    136  CA  THR   136       3.120   1.170  21.110  1.00 25.00           C
ATOM    137  CA  PHE   137       0.532   0.086  18.625  1.00 25.00           C
ATOM    138  CA  LYS   138       3.086   1.010  15.898  1.00 25.00           C
ATOM    139  CA  ILE   139       4.039   2.264  12.420  1.00 25.00           C
ATOM    140  CA  ASP   140       5.898   4.737  10.135  1.00 25.00           C
ATOM    141  CA  GLU   141       9.045   6.696   9.499  1.00 25.00           C
ATOM    142  CA  ILE   142      11.469   9.157   8.022  1.00 25.00           C
ATOM    143  CA  TYR   143      12.948  12.304   6.382  1.00 25.00           C
ATOM    144  CA  ASN   144      11.000  14.151   3.674  1.00 25.00           C
ATOM    145  CA  TYR   145       7.669  15.384   2.269  1.00 25.00           C
TER
END
