
#######################################################
#                                                     #
#                        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  101 (  101),  selected  101 , name T0323TS168_4-D1
# Molecule2: number of CA atoms  101 (  777),  selected  101 , name T0323_D1.pdb
# PARAMETERS: T0323TS168_4-D1.T0323_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    R       2      -       -           -
LGA    Y       3      -       -           -
LGA    F       4      -       -           -
LGA    S       5      -       -           -
LGA    T       6      -       -           -
LGA    D       7      -       -           -
LGA    S       8      -       -           -
LGA    P       9      -       -           -
LGA    E      10      -       -           -
LGA    V      11      -       -           -
LGA    K      12      -       -           -
LGA    T      13      -       -           -
LGA    I      14      -       -           -
LGA    V      15      -       -           -
LGA    A      16      -       -           -
LGA    Q      17      -       -           -
LGA    D      18      -       -           -
LGA    S      19      -       -           -
LGA    R      20      -       -           -
LGA    L      21      -       -           -
LGA    F      22      -       -           -
LGA    Q      23      -       -           -
LGA    F      24      -       -           -
LGA    I      25      -       -           -
LGA    E      26      -       -           -
LGA    I      27      -       -           -
LGA    A      28      M       1          1.860
LGA    G      29      -       -           -
LGA    E      30      -       -           -
LGA    V      31      -       -           -
LGA    Q      32      R       2           #
LGA    L      33      Y       3           -
LGA    L     150      -       -           -
LGA    D     151      -       -           -
LGA    V     152      F       4           #
LGA    -       -      S       5           -
LGA    -       -      T       6           -
LGA    -       -      D       7           -
LGA    -       -      S       8           -
LGA    -       -      P       9           -
LGA    L     153      E      10          1.525
LGA    S     154      V      11          1.558
LGA    V     155      K      12          2.256
LGA    G     156      T      13          1.357
LGA    D     157      I      14          2.540
LGA    V     158      V      15          3.124
LGA    G     159      A      16          2.445
LGA    -       -      Q      17           -
LGA    -       -      D      18           -
LGA    -       -      S      19           -
LGA    -       -      R      20           -
LGA    -       -      L      21           -
LGA    -       -      F      22           -
LGA    -       -      Q      23           -
LGA    -       -      F      24           -
LGA    -       -      I      25           -
LGA    -       -      E      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      G      29           -
LGA    -       -      E      30           -
LGA    -       -      V      31           -
LGA    -       -      Q      32           -
LGA    -       -      L      33           -
LGA    -       -      L     150           -
LGA    -       -      D     151           -
LGA    -       -      V     152           -
LGA    -       -      L     153           -
LGA    -       -      S     154           -
LGA    -       -      V     155           -
LGA    -       -      G     156           -
LGA    -       -      D     157           -
LGA    -       -      V     158           -
LGA    -       -      G     159           -
LGA    -       -      L     160           -
LGA    -       -      Q     161           -
LGA    -       -      R     162           -
LGA    -       -      G     163           -
LGA    -       -      A     164           -
LGA    -       -      K     165           -
LGA    -       -      W     166           -
LGA    -       -      L     167           -
LGA    -       -      Y     168           -
LGA    -       -      G     169           -
LGA    -       -      N     170           -
LGA    -       -      G     171           -
LGA    -       -      E     172           -
LGA    -       -      G     173           -
LGA    -       -      D     174           -
LGA    -       -      G     175           -
LGA    -       -      K     176           -
LGA    -       -      K     177           -
LGA    -       -      L     178           -
LGA    -       -      L     179           -
LGA    -       -      I     180           -
LGA    -       -      Y     181           -
LGA    -       -      H     182           -
LGA    -       -      G     183           -
LGA    -       -      K     184           -
LGA    L     160      A     185          5.163
LGA    Q     161      W     186          3.038
LGA    R     162      -       -           -
LGA    G     163      -       -           -
LGA    A     164      -       -           -
LGA    K     165      -       -           -
LGA    W     166      -       -           -
LGA    L     167      -       -           -
LGA    Y     168      -       -           -
LGA    G     169      -       -           -
LGA    N     170      -       -           -
LGA    G     171      -       -           -
LGA    E     172      -       -           -
LGA    G     173      -       -           -
LGA    D     174      -       -           -
LGA    G     175      -       -           -
LGA    K     176      -       -           -
LGA    K     177      -       -           -
LGA    L     178      -       -           -
LGA    L     179      -       -           -
LGA    I     180      -       -           -
LGA    Y     181      -       -           -
LGA    H     182      -       -           -
LGA    G     183      -       -           -
LGA    K     184      -       -           -
LGA    A     185      -       -           -
LGA    W     186      A     187          0.684
LGA    A     187      P     188          3.241
LGA    P     188      Y     189          0.545
LGA    Y     189      E     190          3.763
LGA    E     190      -       -           -
LGA    T     191      T     191          1.945
LGA    V     192      V     192          2.936
LGA    A     193      A     193          2.294
LGA    C     194      C     194          1.080
LGA    L     195      L     195          1.512
LGA    Y     196      Y     196          1.445
LGA    L     197      L     197          1.680
LGA    W     198      W     198          1.849
LGA    K     199      K     199          1.562
LGA    A     200      A     200          1.814
LGA    A     201      A     201          2.997
LGA    G     202      G     202          4.504
LGA    T     203      T     203           -
LGA    F     204      F     204           -
LGA    A     205      -       -           -
LGA    E     206      A     205          3.881
LGA    E     207      E     206           -
LGA    -       -      E     207           -
LGA    -       -      Y     208           -
LGA    Y     208      R     209           #
LGA    R     209      S     210          1.774
LGA    S     210      -       -           -
LGA    L     211      L     211          2.005
LGA    E     212      E     212          2.149
LGA    E     213      E     213          3.349
LGA    L     214      L     214          2.849
LGA    L     215      L     215          1.219
LGA    H     216      H     216          1.470
LGA    H     217      H     217          1.371

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  101  101    5.0     35    2.48    57.14     23.875     1.358

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.209327 * X  +  -0.869743 * Y  +  -0.446911 * Z  +  36.303814
  Y_new =   0.536428 * X  +  -0.279989 * Y  +   0.796148 * Z  +  30.415163
  Z_new =  -0.817574 * X  +  -0.406391 * Y  +   0.407945 * Z  +  16.072542 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.783490    2.358102  [ DEG:   -44.8907    135.1093 ]
  Theta =   0.957185    2.184407  [ DEG:    54.8427    125.1573 ]
  Phi   =   1.198745   -1.942847  [ DEG:    68.6831   -111.3169 ]
 
# 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: T0323TS168_4-D1                               
REMARK     2: T0323_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0323TS168_4-D1.T0323_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  101  101   5.0   35   2.48   57.14  23.875
REMARK  ---------------------------------------------------------- 
MOLECULE T0323TS168_4-D1
PFRMAT TS
TARGET T0323
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      27.842  13.919  -6.988  1.00 25.00           C
ATOM      2  CA  ARG     2      30.716  12.247  -5.108  1.00 25.00           C
ATOM      3  CA  TYR     3      33.013  13.851  -2.560  1.00 25.00           C
ATOM      4  CA  PHE     4      34.453  11.826   0.282  1.00 25.00           C
ATOM      5  CA  SER     5      33.413   8.188   0.922  1.00 25.00           C
ATOM      6  CA  THR     6      31.099   9.563   3.687  1.00 25.00           C
ATOM      7  CA  ASP     7      32.146   7.072   6.420  1.00 25.00           C
ATOM      8  CA  SER     8      32.865   9.924   8.878  1.00 25.00           C
ATOM      9  CA  PRO     9      32.037   9.287  12.562  1.00 25.00           C
ATOM     10  CA  GLU    10      32.241  13.043  13.283  1.00 25.00           C
ATOM     11  CA  VAL    11      29.914  13.762  10.329  1.00 25.00           C
ATOM     12  CA  LYS    12      27.433  11.142  11.613  1.00 25.00           C
ATOM     13  CA  THR    13      27.537  12.719  15.102  1.00 25.00           C
ATOM     14  CA  ILE    14      26.897  16.176  13.585  1.00 25.00           C
ATOM     15  CA  VAL    15      23.930  14.784  11.603  1.00 25.00           C
ATOM     16  CA  ALA    16      22.516  13.196  14.788  1.00 25.00           C
ATOM     17  CA  GLN    17      23.693  15.233  17.750  1.00 25.00           C
ATOM     18  CA  ASP    18      23.549  18.759  16.314  1.00 25.00           C
ATOM     19  CA  SER    19      20.021  18.337  14.889  1.00 25.00           C
ATOM     20  CA  ARG    20      19.724  22.081  14.145  1.00 25.00           C
ATOM     21  CA  LEU    21      22.824  21.906  11.903  1.00 25.00           C
ATOM     22  CA  PHE    22      21.340  18.904  10.044  1.00 25.00           C
ATOM     23  CA  GLN    23      18.052  20.804   9.551  1.00 25.00           C
ATOM     24  CA  PHE    24      19.974  23.829   8.199  1.00 25.00           C
ATOM     25  CA  ILE    25      21.890  21.560   5.780  1.00 25.00           C
ATOM     26  CA  GLU    26      18.598  20.007   4.590  1.00 25.00           C
ATOM     27  CA  ILE    27      17.121  23.497   4.040  1.00 25.00           C
ATOM     28  CA  ALA    28      19.953  24.322   1.646  1.00 25.00           C
ATOM     29  CA  GLY    29      21.064  24.347  -2.030  1.00 25.00           C
ATOM     30  CA  GLU    30      23.625  23.123  -4.584  1.00 25.00           C
ATOM     31  CA  VAL    31      26.189  24.629  -2.217  1.00 25.00           C
ATOM     32  CA  GLN    32      26.677  28.197  -3.284  1.00 25.00           C
ATOM     33  CA  LEU    33      29.925  27.949  -1.393  1.00 25.00           C
ATOM    150  CA  LEU   150      29.003  34.653   3.996  1.00 25.00           C
ATOM    151  CA  ASP   151      26.542  35.380   6.812  1.00 25.00           C
ATOM    152  CA  VAL   152      28.225  32.969   9.197  1.00 25.00           C
ATOM    153  CA  LEU   153      30.533  32.332  12.136  1.00 25.00           C
ATOM    154  CA  SER   154      29.321  31.792  15.687  1.00 25.00           C
ATOM    155  CA  VAL   155      32.271  32.084  18.036  1.00 25.00           C
ATOM    156  CA  GLY   156      34.905  34.256  16.300  1.00 25.00           C
ATOM    157  CA  ASP   157      32.150  36.501  14.873  1.00 25.00           C
ATOM    158  CA  VAL   158      30.589  36.839  18.353  1.00 25.00           C
ATOM    159  CA  GLY   159      34.002  37.767  19.821  1.00 25.00           C
ATOM    160  CA  LEU   160      34.494  40.396  17.080  1.00 25.00           C
ATOM    161  CA  GLN   161      31.026  41.845  17.815  1.00 25.00           C
ATOM    162  CA  ARG   162      31.855  42.002  21.550  1.00 25.00           C
ATOM    163  CA  GLY   163      35.151  43.788  20.768  1.00 25.00           C
ATOM    164  CA  ALA   164      33.294  46.300  18.554  1.00 25.00           C
ATOM    165  CA  LYS   165      30.759  46.931  21.354  1.00 25.00           C
ATOM    166  CA  TRP   166      33.613  47.489  23.845  1.00 25.00           C
ATOM    167  CA  LEU   167      35.273  49.954  21.429  1.00 25.00           C
ATOM    168  CA  TYR   168      32.732  51.361  18.958  1.00 25.00           C
ATOM    169  CA  GLY   169      29.463  53.226  18.648  1.00 25.00           C
ATOM    170  CA  ASN   170      30.068  53.028  14.848  1.00 25.00           C
ATOM    171  CA  GLY   171      30.755  56.585  13.730  1.00 25.00           C
ATOM    172  CA  GLU   172      33.238  59.065  12.168  1.00 25.00           C
ATOM    173  CA  GLY   173      34.048  58.342   8.480  1.00 25.00           C
ATOM    174  CA  ASP   174      35.315  55.813   5.985  1.00 25.00           C
ATOM    175  CA  GLY   175      38.153  53.317   6.613  1.00 25.00           C
ATOM    176  CA  LYS   176      40.452  50.676   5.211  1.00 25.00           C
ATOM    177  CA  LYS   177      41.056  46.906   4.915  1.00 25.00           C
ATOM    178  CA  LEU   178      41.052  46.581   8.731  1.00 25.00           C
ATOM    179  CA  LEU   179      37.766  48.537   8.919  1.00 25.00           C
ATOM    180  CA  ILE   180      36.226  46.257   6.254  1.00 25.00           C
ATOM    181  CA  TYR   181      37.363  43.166   8.208  1.00 25.00           C
ATOM    182  CA  HIS   182      35.823  44.593  11.411  1.00 25.00           C
ATOM    183  CA  GLY   183      32.536  45.262   9.561  1.00 25.00           C
ATOM    184  CA  LYS   184      32.533  41.676   8.217  1.00 25.00           C
ATOM    185  CA  ALA   185      33.136  40.326  11.750  1.00 25.00           C
ATOM    186  CA  TRP   186      30.245  42.455  13.084  1.00 25.00           C
ATOM    187  CA  ALA   187      27.963  41.139  10.305  1.00 25.00           C
ATOM    188  CA  PRO   188      28.961  37.541  11.153  1.00 25.00           C
ATOM    189  CA  TYR   189      28.213  38.179  14.854  1.00 25.00           C
ATOM    190  CA  GLU   190      24.790  39.630  13.937  1.00 25.00           C
ATOM    191  CA  THR   191      24.042  36.561  11.771  1.00 25.00           C
ATOM    192  CA  VAL   192      25.041  34.250  14.657  1.00 25.00           C
ATOM    193  CA  ALA   193      22.757  36.195  17.037  1.00 25.00           C
ATOM    194  CA  CYS   194      19.867  35.904  14.541  1.00 25.00           C
ATOM    195  CA  LEU   195      20.471  32.134  14.245  1.00 25.00           C
ATOM    196  CA  TYR   196      20.466  31.808  18.060  1.00 25.00           C
ATOM    197  CA  LEU   197      17.180  33.765  18.248  1.00 25.00           C
ATOM    198  CA  TRP   198      15.641  31.485  15.584  1.00 25.00           C
ATOM    199  CA  LYS   199      16.778  28.394  17.538  1.00 25.00           C
ATOM    200  CA  ALA   200      15.237  29.821  20.740  1.00 25.00           C
ATOM    201  CA  ALA   201      11.951  30.490  18.891  1.00 25.00           C
ATOM    202  CA  GLY   202      12.150  34.272  18.905  1.00 25.00           C
ATOM    203  CA  THR   203      13.569  37.814  19.093  1.00 25.00           C
ATOM    204  CA  PHE   204      15.219  39.016  22.341  1.00 25.00           C
ATOM    205  CA  ALA   205      13.207  38.050  25.454  1.00 25.00           C
ATOM    206  CA  GLU   206      12.591  34.560  24.003  1.00 25.00           C
ATOM    207  CA  GLU   207      16.331  34.175  23.275  1.00 25.00           C
ATOM    208  CA  TYR   208      17.163  35.237  26.859  1.00 25.00           C
ATOM    209  CA  ARG   209      14.648  32.690  28.222  1.00 25.00           C
ATOM    210  CA  SER   210      16.204  29.950  26.045  1.00 25.00           C
ATOM    211  CA  LEU   211      19.693  30.885  27.317  1.00 25.00           C
ATOM    212  CA  GLU   212      18.440  30.738  30.934  1.00 25.00           C
ATOM    213  CA  GLU   213      16.901  27.291  30.285  1.00 25.00           C
ATOM    214  CA  LEU   214      20.202  26.074  28.774  1.00 25.00           C
ATOM    215  CA  LEU   215      22.110  27.379  31.828  1.00 25.00           C
ATOM    216  CA  HIS   216      19.660  25.581  34.159  1.00 25.00           C
ATOM    217  CA  HIS   217      19.538  22.163  32.434  1.00 25.00           C
TER
END
