
#######################################################
#                                                     #
#                        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   35 (  173),  selected   35 , name T0323TS102_5-D1
# Molecule2: number of CA atoms  101 (  777),  selected  101 , name T0323_D1.pdb
# PARAMETERS: T0323TS102_5-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           -
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    M       1      L     160          2.817
LGA    R       2      Q     161          2.175
LGA    -       -      R     162           -
LGA    -       -      G     163           -
LGA    Y       3      A     164          2.980
LGA    F       4      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    T       6      G     175           #
LGA    D       7      K     176          0.760
LGA    S       8      K     177          2.707
LGA    -       -      L     178           -
LGA    -       -      L     179           -
LGA    P       9      I     180          1.069
LGA    E      10      Y     181          0.599
LGA    V      11      H     182          0.724
LGA    K      12      G     183          1.295
LGA    Q      23      K     184          1.526
LGA    F      24      A     185          1.347
LGA    I      25      W     186          1.145
LGA    E      26      A     187          1.493
LGA    I      27      P     188          1.293
LGA    A      28      Y     189          1.933
LGA    -       -      E     190           -
LGA    G      29      T     191           #
LGA    E      30      V     192           -
LGA    V      31      A     193           -
LGA    -       -      C     194           -
LGA    -       -      L     195           -
LGA    -       -      Y     196           -
LGA    -       -      L     197           -
LGA    -       -      W     198           -
LGA    -       -      K     199           -
LGA    -       -      A     200           -
LGA    -       -      A     201           -
LGA    -       -      G     202           -
LGA    -       -      T     203           -
LGA    -       -      F     204           -
LGA    -       -      A     205           -
LGA    -       -      E     206           -
LGA    A     200      E     207          5.419
LGA    A     201      Y     208          2.127
LGA    G     202      R     209          1.450
LGA    T     203      -       -           -
LGA    F     204      S     210           #
LGA    A     205      L     211          3.820
LGA    E     206      E     212          2.527
LGA    S     210      E     213          3.004
LGA    L     211      L     214          2.692
LGA    E     212      L     215          4.437
LGA    E     213      -       -           -
LGA    L     214      H     216           #
LGA    L     215      H     217           -
LGA    H     216      -       -           -
LGA    H     217      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   35  101    5.0     23    2.46     8.70     17.159     0.899

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.978812 * X  +   0.199147 * Y  +  -0.047617 * Z  +  36.332405
  Y_new =  -0.048779 * X  +  -0.452637 * Y  +  -0.890359 * Z  +  55.255795
  Z_new =  -0.198865 * X  +  -0.869172 * Y  +   0.452761 * Z  +  34.196751 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.090560    2.051033  [ DEG:   -62.4845    117.5155 ]
  Theta =   0.200200    2.941393  [ DEG:    11.4706    168.5294 ]
  Phi   =  -3.091799    0.049794  [ DEG:  -177.1470      2.8530 ]
 
# 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: T0323TS102_5-D1                               
REMARK     2: T0323_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0323TS102_5-D1.T0323_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   35  101   5.0   23   2.46    8.70  17.159
REMARK  ---------------------------------------------------------- 
MOLECULE T0323TS102_5-D1
PFRMAT TS
TARGET T0323
MODEL 5
PARENT 1ch4_A
ATOM      1  N   MET     1      17.528  38.348  15.417  1.00  1.00
ATOM      2  CA  MET     1      17.330  39.651  14.810  1.00  1.00
ATOM      3  C   MET     1      16.676  40.706  15.701  1.00  1.00
ATOM      4  O   MET     1      17.028  41.905  15.649  1.00  1.00
ATOM      5  CB  MET     1      16.409  39.449  13.592  1.00  1.00
ATOM      6  N   ARG     2      15.666  40.288  16.487  1.00  1.00
ATOM      7  CA  ARG     2      15.049  41.149  17.477  1.00  1.00
ATOM      8  C   ARG     2      16.091  41.572  18.531  1.00  1.00
ATOM      9  O   ARG     2      16.094  42.761  18.857  1.00  1.00
ATOM     10  CB  ARG     2      13.890  40.433  18.175  1.00  1.00
ATOM     11  N   TYR     3      17.000  40.726  19.066  1.00  1.00
ATOM     12  CA  TYR     3      18.051  41.148  19.997  1.00  1.00
ATOM     13  C   TYR     3      18.920  42.259  19.410  1.00  1.00
ATOM     14  O   TYR     3      19.108  43.295  20.047  1.00  1.00
ATOM     15  CB  TYR     3      18.938  39.956  20.369  1.00  1.00
ATOM     16  N   PHE     4      19.352  42.179  18.157  1.00  1.00
ATOM     17  CA  PHE     4      20.253  43.191  17.610  1.00  1.00
ATOM     18  C   PHE     4      19.495  44.457  17.350  1.00  1.00
ATOM     19  O   PHE     4      20.007  45.518  17.633  1.00  1.00
ATOM     20  CB  PHE     4      20.905  42.665  16.315  1.00  1.00
ATOM     21  N   THR     6      18.236  44.382  16.903  1.00  1.00
ATOM     22  CA  THR     6      17.431  45.572  16.639  1.00  1.00
ATOM     23  C   THR     6      17.038  46.263  17.926  1.00  1.00
ATOM     24  O   THR     6      17.229  47.470  18.045  1.00  1.00
ATOM     25  CB  THR     6      16.128  45.205  15.852  1.00  1.00
ATOM     26  N   ASP     7      16.445  45.541  18.881  1.00  1.00
ATOM     27  CA  ASP     7      15.907  46.105  20.112  1.00  1.00
ATOM     28  C   ASP     7      17.010  46.469  21.089  1.00  1.00
ATOM     29  O   ASP     7      16.917  47.497  21.768  1.00  1.00
ATOM     30  CB  ASP     7      14.935  45.095  20.817  1.00  1.00
ATOM     31  N   SER     8      18.030  45.628  21.221  1.00  1.00
ATOM     32  CA  SER     8      19.076  45.885  22.190  1.00  1.00
ATOM     33  C   SER     8      20.365  46.170  21.438  1.00  1.00
ATOM     34  O   SER     8      21.297  45.367  21.459  1.00  1.00
ATOM     35  CB  SER     8      19.219  44.669  23.119  1.00  1.00
ATOM     36  N   PRO     9      20.516  47.345  20.821  1.00  1.00
ATOM     37  CA  PRO     9      21.466  47.608  19.744  1.00  1.00
ATOM     38  C   PRO     9      22.928  47.452  20.146  1.00  1.00
ATOM     39  O   PRO     9      23.809  47.272  19.308  1.00  1.00
ATOM     40  CB  PRO     9      21.096  49.001  19.290  1.00  1.00
ATOM     41  N   GLU    10      23.239  47.488  21.445  1.00  1.00
ATOM     42  CA  GLU    10      24.604  47.303  21.908  1.00  1.00
ATOM     43  C   GLU    10      25.078  45.881  21.624  1.00  1.00
ATOM     44  O   GLU    10      26.276  45.633  21.525  1.00  1.00
ATOM     45  CB  GLU    10      24.706  47.609  23.420  1.00  1.00
ATOM     46  N   VAL    11      24.178  44.925  21.380  1.00  1.00
ATOM     47  CA  VAL    11      24.578  43.531  21.150  1.00  1.00
ATOM     48  C   VAL    11      25.250  43.406  19.794  1.00  1.00
ATOM     49  O   VAL    11      25.943  42.429  19.496  1.00  1.00
ATOM     50  CB  VAL    11      23.340  42.597  21.211  1.00  1.00
ATOM     51  N   LYS    12      25.061  44.416  18.932  1.00  1.00
ATOM     52  CA  LYS    12      25.648  44.429  17.607  1.00  1.00
ATOM     53  C   LYS    12      27.167  44.381  17.664  1.00  1.00
ATOM     54  O   LYS    12      27.762  43.774  16.770  1.00  1.00
ATOM     55  CB  LYS    12      25.199  45.672  16.863  1.00  1.00
ATOM     56  N   GLN    23      27.824  44.926  18.702  1.00  1.00
ATOM     57  CA  GLN    23      29.272  44.806  18.844  1.00  1.00
ATOM     58  C   GLN    23      29.767  43.356  18.837  1.00  1.00
ATOM     59  O   GLN    23      30.927  43.114  18.507  1.00  1.00
ATOM     60  CB  GLN    23      29.692  45.517  20.133  1.00  1.00
ATOM     61  N   PHE    24      28.961  42.340  19.127  1.00  1.00
ATOM     62  CA  PHE    24      29.450  40.972  19.068  1.00  1.00
ATOM     63  C   PHE    24      29.366  40.386  17.671  1.00  1.00
ATOM     64  O   PHE    24      29.953  39.340  17.394  1.00  1.00
ATOM     65  CB  PHE    24      28.649  40.067  19.985  1.00  1.00
ATOM     66  N   ILE    25      28.671  41.052  16.752  1.00  1.00
ATOM     67  CA  ILE    25      28.341  40.440  15.492  1.00  1.00
ATOM     68  C   ILE    25      28.662  41.354  14.347  1.00  1.00
ATOM     69  O   ILE    25      28.101  41.164  13.271  1.00  1.00
ATOM     70  CB  ILE    25      26.883  40.119  15.481  1.00  1.00
ATOM     71  N   GLU    26      29.559  42.334  14.517  1.00  1.00
ATOM     72  CA  GLU    26      29.963  43.221  13.415  1.00  1.00
ATOM     73  C   GLU    26      30.618  42.463  12.240  1.00  1.00
ATOM     74  O   GLU    26      30.441  42.864  11.078  1.00  1.00
ATOM     75  CB  GLU    26      30.973  44.251  13.848  1.00  1.00
ATOM     76  N   ILE    27      31.357  41.360  12.475  1.00  1.00
ATOM     77  CA  ILE    27      31.887  40.548  11.391  1.00  1.00
ATOM     78  C   ILE    27      30.774  40.158  10.407  1.00  1.00
ATOM     79  O   ILE    27      30.992  40.091   9.205  1.00  1.00
ATOM     80  CB  ILE    27      32.528  39.321  11.998  1.00  1.00
ATOM     81  N   ALA    28      29.538  40.013  10.891  1.00  1.00
ATOM     82  CA  ALA    28      28.392  39.655  10.067  1.00  1.00
ATOM     83  C   ALA    28      28.001  40.659   8.999  1.00  1.00
ATOM     84  O   ALA    28      27.246  40.324   8.078  1.00  1.00
ATOM     85  CB  ALA    28      27.172  39.417  10.940  1.00  1.00
ATOM     86  N   GLY    29      28.448  41.906   9.089  1.00  1.00
ATOM     87  CA  GLY    29      28.088  42.844   8.057  1.00  1.00
ATOM     88  C   GLY    29      27.259  44.032   8.504  1.00  1.00
ATOM     89  O   GLY    29      27.425  44.658   9.559  1.00  1.00
ATOM     90  N   GLU    30      26.371  44.404   7.599  1.00  1.00
ATOM     91  CA  GLU    30      25.573  45.584   7.822  1.00  1.00
ATOM     92  C   GLU    30      24.404  45.206   8.685  1.00  1.00
ATOM     93  O   GLU    30      23.607  44.300   8.397  1.00  1.00
ATOM     94  CB  GLU    30      25.014  46.174   6.525  1.00  1.00
ATOM     95  N   VAL    31      24.368  45.887   9.808  1.00  1.00
ATOM     96  CA  VAL    31      23.300  45.687  10.754  1.00  1.00
ATOM     97  C   VAL    31      22.742  47.083  11.020  1.00  1.00
ATOM     98  O   VAL    31      22.112  47.303  12.041  1.00  1.00
ATOM     99  CB  VAL    31      23.894  45.020  12.020  1.00  1.00
ATOM    491  N   ALA   200       7.220  27.727  32.147  1.00  1.00
ATOM    492  CA  ALA   200       8.087  26.581  31.993  1.00  1.00
ATOM    493  C   ALA   200       9.253  26.889  31.070  1.00  1.00
ATOM    494  O   ALA   200      10.395  26.531  31.374  1.00  1.00
ATOM    495  CB  ALA   200       7.283  25.423  31.428  1.00  1.00
ATOM    496  N   ALA   201       9.061  27.581  29.949  1.00  1.00
ATOM    497  CA  ALA   201      10.194  27.830  29.085  1.00  1.00
ATOM    498  C   ALA   201      11.105  28.863  29.690  1.00  1.00
ATOM    499  O   ALA   201      12.328  28.816  29.534  1.00  1.00
ATOM    500  CB  ALA   201       9.750  28.321  27.758  1.00  1.00
ATOM    501  N   GLY   202      10.505  29.785  30.423  1.00  1.00
ATOM    502  CA  GLY   202      11.296  30.761  31.109  1.00  1.00
ATOM    503  C   GLY   202      12.268  30.093  32.085  1.00  1.00
ATOM    504  O   GLY   202      13.430  30.527  32.092  1.00  1.00
ATOM    505  N   THR   203      11.942  29.063  32.895  1.00  1.00
ATOM    506  CA  THR   203      12.988  28.487  33.745  1.00  1.00
ATOM    507  C   THR   203      13.940  27.497  33.089  1.00  1.00
ATOM    508  O   THR   203      15.003  27.221  33.664  1.00  1.00
ATOM    509  CB  THR   203      12.418  27.817  34.972  1.00  1.00
ATOM    510  N   PHE   204      13.617  26.958  31.893  1.00  1.00
ATOM    511  CA  PHE   204      14.519  26.116  31.104  1.00  1.00
ATOM    512  C   PHE   204      15.530  27.121  30.584  1.00  1.00
ATOM    513  O   PHE   204      16.719  26.964  30.882  1.00  1.00
ATOM    514  CB  PHE   204      13.786  25.417  29.915  1.00  1.00
ATOM    515  N   ALA   205      15.078  28.206  29.924  1.00  1.00
ATOM    516  CA  ALA   205      15.955  29.221  29.390  1.00  1.00
ATOM    517  C   ALA   205      16.792  29.824  30.517  1.00  1.00
ATOM    518  O   ALA   205      17.973  30.115  30.330  1.00  1.00
ATOM    519  CB  ALA   205      15.170  30.325  28.734  1.00  1.00
ATOM    520  N   GLU   206      16.274  29.947  31.736  1.00  1.00
ATOM    521  CA  GLU   206      17.057  30.502  32.808  1.00  1.00
ATOM    522  C   GLU   206      18.197  29.584  33.149  1.00  1.00
ATOM    523  O   GLU   206      19.339  30.028  33.237  1.00  1.00
ATOM    524  CB  GLU   206      16.176  30.700  34.028  1.00  1.00
ATOM    525  N   SER   210      17.958  28.280  33.227  1.00  1.00
ATOM    526  CA  SER   210      19.015  27.364  33.594  1.00  1.00
ATOM    527  C   SER   210      20.040  27.185  32.494  1.00  1.00
ATOM    528  O   SER   210      21.229  26.963  32.751  1.00  1.00
ATOM    529  CB  SER   210      18.403  26.033  33.944  1.00  1.00
ATOM    530  N   LEU   211      19.641  27.263  31.232  1.00  1.00
ATOM    531  CA  LEU   211      20.592  27.164  30.117  1.00  1.00
ATOM    532  C   LEU   211      21.478  28.389  30.192  1.00  1.00
ATOM    533  O   LEU   211      22.675  28.290  29.960  1.00  1.00
ATOM    534  CB  LEU   211      19.853  27.142  28.772  1.00  1.00
ATOM    535  N   GLU   212      20.948  29.549  30.546  1.00  1.00
ATOM    536  CA  GLU   212      21.782  30.724  30.692  1.00  1.00
ATOM    537  C   GLU   212      22.666  30.599  31.928  1.00  1.00
ATOM    538  O   GLU   212      23.807  31.060  31.856  1.00  1.00
ATOM    539  CB  GLU   212      20.924  31.988  30.796  1.00  1.00
ATOM    540  N   GLU   213      22.259  30.002  33.051  1.00  1.00
ATOM    541  CA  GLU   213      23.177  29.781  34.154  1.00  1.00
ATOM    542  C   GLU   213      24.376  28.925  33.697  1.00  1.00
ATOM    543  O   GLU   213      25.556  29.221  33.949  1.00  1.00
ATOM    544  CB  GLU   213      22.415  29.091  35.295  1.00  1.00
ATOM    545  N   LEU   214      24.111  27.872  32.938  1.00  1.00
ATOM    546  CA  LEU   214      25.182  27.000  32.505  1.00  1.00
ATOM    547  C   LEU   214      26.090  27.739  31.542  1.00  1.00
ATOM    548  O   LEU   214      27.304  27.562  31.613  1.00  1.00
ATOM    549  CB  LEU   214      24.492  25.776  31.909  1.00  1.00
ATOM    550  N   LEU   215      25.607  28.623  30.666  1.00  1.00
ATOM    551  CA  LEU   215      26.519  29.271  29.731  1.00  1.00
ATOM    552  C   LEU   215      27.388  30.340  30.338  1.00  1.00
ATOM    553  O   LEU   215      28.371  30.733  29.714  1.00  1.00
ATOM    554  CB  LEU   215      25.736  29.867  28.572  1.00  1.00
ATOM    555  N   HIS   216      27.097  30.831  31.535  1.00  1.00
ATOM    556  CA  HIS   216      27.930  31.866  32.084  1.00  1.00
ATOM    557  C   HIS   216      28.726  31.330  33.248  1.00  1.00
ATOM    558  O   HIS   216      29.326  32.099  34.013  1.00  1.00
ATOM    559  CB  HIS   216      27.080  33.024  32.545  1.00  1.00
ATOM    560  N   HIS   217      28.827  29.995  33.357  1.00  1.00
ATOM    561  CA  HIS   217      29.473  29.370  34.490  1.00  1.00
ATOM    562  C   HIS   217      30.988  29.532  34.509  1.00  1.00
ATOM    563  O   HIS   217      31.587  29.351  35.570  1.00  1.00
ATOM    564  CB  HIS   217      29.072  27.872  34.540  1.00  1.00
TER
END
