
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0350TS599_4
# Molecule2: number of CA atoms  109 ( 1798),  selected  109 , name T0350.pdb
# PARAMETERS: T0350TS599_4.T0350.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      N       2           -
LGA    -       -      I       3           -
LGA    -       -      E       4           -
LGA    -       -      R       5           -
LGA    -       -      L       6           -
LGA    -       -      T       7           -
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    M       1      Q      10          3.969
LGA    N       2      P      11          3.834
LGA    -       -      V      12           -
LGA    -       -      W      13           -
LGA    I       3      D      14          1.534
LGA    E       4      R      15          1.810
LGA    R       5      Y      16          1.779
LGA    L       6      D      17          1.831
LGA    T       7      T      18          2.388
LGA    T       8      Q      19          2.974
LGA    L       9      I      20          3.531
LGA    Q      10      H      21          3.836
LGA    P      11      N      22          3.433
LGA    V      12      Q      23          3.244
LGA    W      13      -       -           -
LGA    D      14      -       -           -
LGA    R      15      -       -           -
LGA    Y      16      -       -           -
LGA    D      17      -       -           -
LGA    T      18      -       -           -
LGA    Q      19      -       -           -
LGA    I      20      -       -           -
LGA    H      21      K      24          5.281
LGA    N      22      D      25          2.938
LGA    Q      23      N      26          2.897
LGA    K      24      -       -           -
LGA    D      25      -       -           -
LGA    N      26      D      27          1.941
LGA    D      27      N      28          3.908
LGA    N      28      -       -           -
LGA    E      29      -       -           -
LGA    V      30      E      29          1.152
LGA    P      31      V      30          3.827
LGA    V      32      P      31          4.707
LGA    H      33      V      32           -
LGA    Q      34      H      33           -
LGA    V      35      Q      34           -
LGA    S      36      V      35           -
LGA    Y      37      S      36           -
LGA    T      38      Y      37           -
LGA    N      39      T      38           -
LGA    L      40      -       -           -
LGA    A      41      N      39           #
LGA    E      42      L      40           -
LGA    M      43      A      41           -
LGA    V      44      E      42          3.571
LGA    G      45      -       -           -
LGA    E      46      -       -           -
LGA    M      47      M      43          4.178
LGA    -       -      V      44           -
LGA    -       -      G      45           -
LGA    N      48      E      46           #
LGA    K      49      M      47           -
LGA    L      50      N      48           #
LGA    L      51      -       -           -
LGA    E      52      -       -           -
LGA    P      53      -       -           -
LGA    S      54      K      49           #
LGA    Q      55      L      50           -
LGA    V      56      L      51           -
LGA    H      57      -       -           -
LGA    L      58      -       -           -
LGA    K      59      E      52           #
LGA    F      60      P      53           #
LGA    E      61      S      54           #
LGA    L      62      Q      55          3.256
LGA    H      63      V      56          3.223
LGA    D      64      -       -           -
LGA    K      65      -       -           -
LGA    L      66      -       -           -
LGA    N      67      -       -           -
LGA    E      68      -       -           -
LGA    Y      69      -       -           -
LGA    Y      70      -       -           -
LGA    V      71      H      57          3.582
LGA    K      72      L      58          3.943
LGA    V      73      K      59          2.766
LGA    -       -      F      60           -
LGA    -       -      E      61           -
LGA    -       -      L      62           -
LGA    -       -      H      63           -
LGA    -       -      D      64           -
LGA    -       -      K      65           -
LGA    -       -      L      66           -
LGA    -       -      N      67           -
LGA    -       -      E      68           -
LGA    -       -      Y      69           -
LGA    -       -      Y      70           -
LGA    -       -      V      71           -
LGA    -       -      K      72           -
LGA    -       -      V      73           -
LGA    -       -      I      74           -
LGA    -       -      E      75           -
LGA    I      74      D      76           #
LGA    E      75      -       -           -
LGA    D      76      -       -           -
LGA    S      77      -       -           -
LGA    T      78      -       -           -
LGA    N      79      -       -           -
LGA    E      80      -       -           -
LGA    V      81      -       -           -
LGA    I      82      -       -           -
LGA    R      83      -       -           -
LGA    E      84      -       -           -
LGA    I      85      -       -           -
LGA    P      86      -       -           -
LGA    P      87      -       -           -
LGA    K      88      -       -           -
LGA    R      89      -       -           -
LGA    W      90      -       -           -
LGA    L      91      -       -           -
LGA    D      92      -       -           -
LGA    F      93      S      77          1.774
LGA    Y      94      T      78          1.975
LGA    A      95      N      79           -
LGA    A      96      E      80           -
LGA    M      97      V      81           -
LGA    T      98      I      82          4.641
LGA    E      99      R      83           -
LGA    F     100      E      84           -
LGA    L     101      I      85           -
LGA    G     102      P      86           -
LGA    L     103      P      87           -
LGA    F     104      K      88           -
LGA    V     105      R      89           -
LGA    -       -      W      90           -
LGA    -       -      L      91           -
LGA    -       -      D      92           -
LGA    D     106      F      93           #
LGA    E     107      Y      94          2.738
LGA    K     108      A      95          2.054
LGA    -       -      A      96           -
LGA    -       -      M      97           -
LGA    -       -      T      98           -
LGA    K     109      E      99          3.514
LGA    L     110      F     100           #
LGA    E     111      L     101           -
LGA    H     112      -       -           -
LGA    H     113      G     102           #
LGA    H     114      L     103           -
LGA    H     115      F     104           -
LGA    H     116      V     105           -
LGA    H     117      D     106           -
LGA    -       -      E     107           -
LGA    -       -      K     108           -
LGA    -       -      K     109           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117  109    5.0     33    3.25     6.06     18.770     0.985

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.234089 * X  +  -0.839575 * Y  +   0.490220 * Z  +   7.055075
  Y_new =  -0.896604 * X  +  -0.381390 * Y  +  -0.225042 * Z  +   2.685440
  Z_new =   0.375904 * X  +  -0.386853 * Y  +  -0.842045 * Z  + -18.327301 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.710932    0.430661  [ DEG:  -155.3250     24.6750 ]
  Theta =  -0.385372   -2.756220  [ DEG:   -22.0802   -157.9198 ]
  Phi   =  -1.315413    1.826180  [ DEG:   -75.3676    104.6324 ]
 
# 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: T0350TS599_4                                  
REMARK     2: T0350.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS599_4.T0350.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117  109   5.0   33   3.25    6.06  18.770
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS599_4
PFRMAT TS                                                                       
TARGET T0350                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       8.397 -10.153 -11.682  1.00  0.00              
ATOM      2  CA  ASN     2       6.581  -7.017 -13.806  1.00  0.00              
ATOM      3  CA  ILE     3       7.462 -11.122 -13.568  1.00  0.00              
ATOM      4  CA  GLU     4       4.000 -10.375 -14.231  1.00  0.00              
ATOM      5  CA  ARG     5       4.411  -9.620 -17.953  1.00  0.00              
ATOM      6  CA  LEU     6       6.273 -12.850 -18.741  1.00  0.00              
ATOM      7  CA  THR     7       3.742 -15.116 -16.999  1.00  0.00              
ATOM      8  CA  THR     8       0.816 -13.469 -18.788  1.00  0.00              
ATOM      9  CA  LEU     9       2.440 -13.793 -22.234  1.00  0.00              
ATOM     10  CA  GLN    10       3.205 -17.504 -21.583  1.00  0.00              
ATOM     11  CA  PRO    11      -0.468 -18.192 -20.695  1.00  0.00              
ATOM     12  CA  VAL    12      -1.446 -16.389 -23.867  1.00  0.00              
ATOM     13  CA  TRP    13       1.084 -18.496 -25.842  1.00  0.00              
ATOM     14  CA  ASP    14      -0.684 -21.581 -24.560  1.00  0.00              
ATOM     15  CA  ARG    15      -4.155 -20.235 -25.510  1.00  0.00              
ATOM     16  CA  TYR    16      -3.853 -19.666 -29.115  1.00  0.00              
ATOM     17  CA  ASP    17      -2.309 -16.520 -30.393  1.00  0.00              
ATOM     18  CA  THR    18      -5.613 -15.139 -31.786  1.00  0.00              
ATOM     19  CA  GLN    19      -7.252 -15.700 -28.389  1.00  0.00              
ATOM     20  CA  ILE    20      -4.448 -13.889 -26.536  1.00  0.00              
ATOM     21  CA  HIS    21      -4.511 -10.911 -28.912  1.00  0.00              
ATOM     22  CA  ASN    22      -8.253 -10.727 -28.346  1.00  0.00              
ATOM     23  CA  GLN    23      -7.778 -10.877 -24.556  1.00  0.00              
ATOM     24  CA  LYS    24      -5.225  -8.033 -24.671  1.00  0.00              
ATOM     25  CA  ASP    25      -7.678  -5.961 -26.800  1.00  0.00              
ATOM     26  CA  ASN    26     -10.481  -6.456 -24.298  1.00  0.00              
ATOM     27  CA  ASP    27      -8.088  -5.526 -21.441  1.00  0.00              
ATOM     28  CA  ASN    28      -7.509  -2.280 -23.218  1.00  0.00              
ATOM     29  CA  GLU    29     -10.944  -1.276 -24.311  1.00  0.00              
ATOM     30  CA  VAL    30     -12.488  -1.736 -20.801  1.00  0.00              
ATOM     31  CA  PRO    31      -9.641   0.320 -19.437  1.00  0.00              
ATOM     32  CA  VAL    32     -10.573   3.116 -21.814  1.00  0.00              
ATOM     33  CA  HIS    33     -14.354   2.814 -21.108  1.00  0.00              
ATOM     34  CA  GLN    34     -13.876   2.828 -17.332  1.00  0.00              
ATOM     35  CA  VAL    35     -11.858   6.088 -17.837  1.00  0.00              
ATOM     36  CA  SER    36     -14.167   7.920 -20.286  1.00  0.00              
ATOM     37  CA  TYR    37     -12.992   8.480 -23.881  1.00  0.00              
ATOM     38  CA  THR    38     -12.630  12.196 -23.448  1.00  0.00              
ATOM     39  CA  ASN    39     -10.613  11.719 -20.267  1.00  0.00              
ATOM     40  CA  LEU    40      -8.333   9.163 -21.965  1.00  0.00              
ATOM     41  CA  ALA    41      -7.717  11.502 -24.867  1.00  0.00              
ATOM     42  CA  GLU    42      -6.868  14.295 -22.370  1.00  0.00              
ATOM     43  CA  MET    43      -4.469  11.915 -20.545  1.00  0.00              
ATOM     44  CA  VAL    44      -2.780  11.040 -23.883  1.00  0.00              
ATOM     45  CA  GLY    45      -2.256  14.714 -24.737  1.00  0.00              
ATOM     46  CA  GLU    46      -0.799  15.287 -21.250  1.00  0.00              
ATOM     47  CA  MET    47       1.544  12.262 -21.728  1.00  0.00              
ATOM     48  CA  ASN    48       2.650  13.575 -25.105  1.00  0.00              
ATOM     49  CA  LYS    49       3.467  16.961 -23.470  1.00  0.00              
ATOM     50  CA  LEU    50       5.398  15.140 -20.736  1.00  0.00              
ATOM     51  CA  LEU    51       7.383  13.141 -23.354  1.00  0.00              
ATOM     52  CA  GLU    52       8.289  16.344 -25.215  1.00  0.00              
ATOM     53  CA  PRO    53       9.590  17.770 -21.910  1.00  0.00              
ATOM     54  CA  SER    54      11.564  14.579 -21.203  1.00  0.00              
ATOM     55  CA  GLN    55      13.118  14.472 -24.613  1.00  0.00              
ATOM     56  CA  VAL    56      14.339  18.117 -24.327  1.00  0.00              
ATOM     57  CA  HIS    57      16.393  17.397 -21.213  1.00  0.00              
ATOM     58  CA  LEU    58      14.994  14.815 -18.973  1.00  0.00              
ATOM     59  CA  LYS    59      16.268  14.072 -15.501  1.00  0.00              
ATOM     60  CA  PHE    60      15.333  10.454 -14.307  1.00  0.00              
ATOM     61  CA  GLU    61      15.098   9.449 -10.534  1.00  0.00              
ATOM     62  CA  LEU    62      14.787   5.767  -9.859  1.00  0.00              
ATOM     63  CA  HIS    63      13.067   4.553  -6.852  1.00  0.00              
ATOM     64  CA  ASP    64      14.190   1.273  -5.448  1.00  0.00              
ATOM     65  CA  LYS    65      14.038   2.215  -1.753  1.00  0.00              
ATOM     66  CA  LEU    66      10.568   3.650  -1.825  1.00  0.00              
ATOM     67  CA  ASN    67       9.296   0.904  -4.138  1.00  0.00              
ATOM     68  CA  GLU    68       8.068   3.456  -6.662  1.00  0.00              
ATOM     69  CA  TYR    69       9.411   3.325 -10.169  1.00  0.00              
ATOM     70  CA  TYR    70      10.524   6.480 -11.852  1.00  0.00              
ATOM     71  CA  VAL    71      12.339   6.227 -15.119  1.00  0.00              
ATOM     72  CA  LYS    72      14.674   9.230 -15.969  1.00  0.00              
ATOM     73  CA  VAL    73      15.891   9.798 -19.368  1.00  0.00              
ATOM     74  CA  ILE    74      19.053  11.748 -19.401  1.00  0.00              
ATOM     75  CA  GLU    75      20.073  13.807 -22.384  1.00  0.00              
ATOM     76  CA  ASP    76      23.678  13.746 -23.457  1.00  0.00              
ATOM     77  CA  SER    77      23.727  17.454 -24.367  1.00  0.00              
ATOM     78  CA  THR    78      22.771  18.856 -20.961  1.00  0.00              
ATOM     79  CA  ASN    79      24.044  15.771 -19.087  1.00  0.00              
ATOM     80  CA  GLU    80      26.581  17.501 -16.914  1.00  0.00              
ATOM     81  CA  VAL    81      26.330  15.055 -13.966  1.00  0.00              
ATOM     82  CA  ILE    82      26.617  12.068 -16.337  1.00  0.00              
ATOM     83  CA  ARG    83      29.652  13.598 -18.018  1.00  0.00              
ATOM     84  CA  GLU    84      31.526  13.757 -14.698  1.00  0.00              
ATOM     85  CA  ILE    85      30.853  10.203 -13.751  1.00  0.00              
ATOM     86  CA  PRO    86      33.332   7.416 -14.521  1.00  0.00              
ATOM     87  CA  PRO    87      32.057   5.251 -17.424  1.00  0.00              
ATOM     88  CA  LYS    88      31.605   2.271 -15.141  1.00  0.00              
ATOM     89  CA  ARG    89      29.510   4.274 -12.723  1.00  0.00              
ATOM     90  CA  TRP    90      27.206   5.657 -15.462  1.00  0.00              
ATOM     91  CA  LEU    91      26.616   2.208 -16.846  1.00  0.00              
ATOM     92  CA  ASP    92      25.834   1.019 -13.347  1.00  0.00              
ATOM     93  CA  PHE    93      23.369   3.804 -12.656  1.00  0.00              
ATOM     94  CA  TYR    94      21.604   3.089 -15.970  1.00  0.00              
ATOM     95  CA  ALA    95      21.408  -0.646 -15.202  1.00  0.00              
ATOM     96  CA  ALA    96      20.036  -0.059 -11.763  1.00  0.00              
ATOM     97  CA  MET    97      17.348   2.277 -13.163  1.00  0.00              
ATOM     98  CA  THR    98      16.420  -0.237 -15.776  1.00  0.00              
ATOM     99  CA  GLU    99      16.024  -3.107 -13.319  1.00  0.00              
ATOM    100  CA  PHE   100      13.784  -1.006 -11.061  1.00  0.00              
ATOM    101  CA  LEU   101      11.484   0.222 -13.843  1.00  0.00              
ATOM    102  CA  GLY   102      11.055  -3.373 -15.049  1.00  0.00              
ATOM    103  CA  LEU   103      10.171  -4.391 -11.500  1.00  0.00              
ATOM    104  CA  PHE   104       7.317  -1.895 -10.991  1.00  0.00              
ATOM    105  CA  VAL   105       5.596  -2.077 -14.333  1.00  0.00              
ATOM    106  CA  ASP   106       1.796  -2.576 -14.648  1.00  0.00              
ATOM    107  CA  GLU   107       1.007  -0.687 -17.812  1.00  0.00              
ATOM    108  CA  LYS   108      -2.299   0.656 -16.482  1.00  0.00              
ATOM    109  CA  LYS   109      -0.654   2.066 -13.378  1.00  0.00              
ATOM    110  CA  LEU   110       2.074   3.805 -15.311  1.00  0.00              
ATOM    111  CA  GLU   111      -0.351   5.452 -17.665  1.00  0.00              
ATOM    112  CA  HIS   112      -2.461   6.769 -14.857  1.00  0.00              
ATOM    113  CA  HIS   113       0.415   8.231 -12.856  1.00  0.00              
ATOM    114  CA  HIS   114       1.493  10.531 -15.656  1.00  0.00              
ATOM    115  CA  HIS   115       4.887   9.150 -16.745  1.00  0.00              
ATOM    116  CA  HIS   116       9.038   9.887 -16.265  1.00  0.00              
ATOM    117  CA  HIS   117      10.234   8.445 -19.332  1.00  0.00              
TER                                                                             
END
