
#######################################################
#                                                     #
#                        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   36 (  177),  selected   36 , name T0298TS102_5-D1
# Molecule2: number of CA atoms  148 ( 1074),  selected  148 , name T0298_D1.pdb
# PARAMETERS: T0298TS102_5-D1.T0298_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E      51      -       -           -
LGA    S      52      -       -           -
LGA    S      53      Q       3          3.643
LGA    L      54      P       4          2.783
LGA    R      55      -       -           -
LGA    V      56      -       -           -
LGA    G      57      -       -           -
LGA    D      58      L       5          4.751
LGA    V      59      N       6          4.609
LGA    S     103      V       7          0.999
LGA    V     104      A       8          1.728
LGA    V     108      V       9          2.557
LGA    M     109      V      10          1.135
LGA    V     110      G      11          3.996
LGA    -       -      A      12           -
LGA    -       -      T      13           -
LGA    -       -      G      14           -
LGA    -       -      S      15           -
LGA    -       -      V      16           -
LGA    -       -      G      17           -
LGA    -       -      E      18           -
LGA    -       -      A      19           -
LGA    -       -      L      20           -
LGA    -       -      V      21           -
LGA    -       -      G      22           -
LGA    -       -      L      23           -
LGA    -       -      L      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    -       -      R      27           -
LGA    -       -      D      28           -
LGA    -       -      F      29           -
LGA    -       -      P      30           -
LGA    -       -      L      31           -
LGA    -       -      H      32           -
LGA    -       -      R      33           -
LGA    -       -      L      34           -
LGA    -       -      H      35           -
LGA    -       -      L      36           -
LGA    -       -      L      37           -
LGA    -       -      A      38           -
LGA    -       -      S      39           -
LGA    -       -      A      40           -
LGA    -       -      E      41           -
LGA    -       -      S      42           -
LGA    -       -      A      43           -
LGA    -       -      G      44           -
LGA    -       -      Q      45           -
LGA    -       -      R      46           -
LGA    -       -      M      47           -
LGA    -       -      G      48           -
LGA    -       -      F      49           -
LGA    -       -      A      50           -
LGA    -       -      E      51           -
LGA    -       -      S      52           -
LGA    -       -      S      53           -
LGA    -       -      L      54           -
LGA    -       -      R      55           -
LGA    -       -      V      56           -
LGA    -       -      G      57           -
LGA    -       -      D      58           -
LGA    -       -      V      59           -
LGA    -       -      D      60           -
LGA    -       -      S      61           -
LGA    -       -      F      62           -
LGA    -       -      D      63           -
LGA    -       -      F      64           -
LGA    -       -      S      65           -
LGA    -       -      S      66           -
LGA    -       -      V      67           -
LGA    -       -      G      68           -
LGA    -       -      L      69           -
LGA    -       -      A      70           -
LGA    -       -      F      71           -
LGA    -       -      F      72           -
LGA    -       -      A      73           -
LGA    S     111      A      74          3.057
LGA    V     112      A      75          2.234
LGA    -       -      A      76           -
LGA    N     113      E      77          3.291
LGA    A     114      V      78           -
LGA    E     115      S      79           -
LGA    R     116      R      80          4.222
LGA    -       -      A      81           -
LGA    -       -      H      82           -
LGA    -       -      A      83           -
LGA    -       -      E      84           -
LGA    -       -      R      85           -
LGA    -       -      A      86           -
LGA    -       -      R      87           -
LGA    -       -      A      88           -
LGA    -       -      A      89           -
LGA    -       -      G      90           -
LGA    -       -      C      91           -
LGA    -       -      S      92           -
LGA    -       -      V      93           -
LGA    -       -      I      94           -
LGA    -       -      D      95           -
LGA    -       -      L      96           -
LGA    -       -      S      97           -
LGA    -       -      G      98           -
LGA    L     117      A      99          3.704
LGA    A     118      L     100           #
LGA    G     319      E     101           -
LGA    -       -      P     102           -
LGA    -       -      S     103           -
LGA    -       -      V     104           -
LGA    -       -      A     105           -
LGA    -       -      P     106           -
LGA    -       -      P     107           -
LGA    -       -      V     108           -
LGA    -       -      M     109           -
LGA    -       -      V     110           -
LGA    -       -      S     111           -
LGA    -       -      V     112           -
LGA    -       -      N     113           -
LGA    -       -      A     114           -
LGA    -       -      E     115           -
LGA    -       -      R     116           -
LGA    -       -      L     117           -
LGA    -       -      A     118           -
LGA    -       -      S     119           -
LGA    -       -      Q     120           -
LGA    -       -      A     121           -
LGA    -       -      A     122           -
LGA    -       -      P     123           -
LGA    -       -      F     124           -
LGA    -       -      L     125           -
LGA    -       -      L     126           -
LGA    -       -      S     127           -
LGA    -       -      S     128           -
LGA    -       -      P     129           -
LGA    A     320      V     316          4.286
LGA    A     321      R     317          2.337
LGA    -       -      K     318           -
LGA    -       -      G     319           -
LGA    L     322      A     320          2.228
LGA    L     326      A     321          2.834
LGA    L     327      L     322          2.456
LGA    -       -      N     323           -
LGA    -       -      A     324           -
LGA    -       -      V     325           -
LGA    G     328      L     326          1.294
LGA    E     329      L     327          3.141
LGA    L     330      G     328          3.777
LGA    -       -      E     329           -
LGA    -       -      L     330           -
LGA    L     331      L     331          2.655
LGA    -       -      I     332           -
LGA    -       -      K     333           -
LGA    -       -      H     334           -
LGA    I     332      Y     335          1.377
LGA    K     333      L     336          3.258
LGA    H     334      -       -           -
LGA    Y     335      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36  148    5.0     25    3.08    16.00     10.264     0.786

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.980419 * X  +   0.194976 * Y  +   0.027629 * Z  +  -2.990698
  Y_new =  -0.172797 * X  +  -0.784502 * Y  +  -0.595565 * Z  +  98.650246
  Z_new =  -0.094446 * X  +  -0.588677 * Y  +   0.802832 * Z  +   2.021243 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.632695    2.508897  [ DEG:   -36.2508    143.7492 ]
  Theta =   0.094587    3.047005  [ DEG:     5.4194    174.5806 ]
  Phi   =  -2.967136    0.174457  [ DEG:  -170.0044      9.9956 ]
 
# 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: T0298TS102_5-D1                               
REMARK     2: T0298_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0298TS102_5-D1.T0298_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36  148   5.0   25   3.08   16.00  10.264
REMARK  ---------------------------------------------------------- 
MOLECULE T0298TS102_5-D1
PFRMAT TS
TARGET T0298
MODEL 5
PARENT 1iq6_A
ATOM      1  N   GLU    51     -43.655  73.980 -11.731  1.00  1.00
ATOM      2  CA  GLU    51     -43.257  74.894 -12.840  1.00  1.00
ATOM      3  C   GLU    51     -43.379  74.202 -14.195  1.00  1.00
ATOM      4  O   GLU    51     -44.471  74.114 -14.764  1.00  1.00
ATOM      5  CB  GLU    51     -41.821  75.378 -12.626  1.00  1.00
ATOM      6  N   SER    52     -42.253  73.714 -14.705  1.00  1.00
ATOM      7  CA  SER    52     -42.214  73.029 -15.994  1.00  1.00
ATOM      8  C   SER    52     -41.964  71.538 -15.797  1.00  1.00
ATOM      9  O   SER    52     -42.645  70.894 -15.003  1.00  1.00
ATOM     10  CB  SER    52     -41.110  73.631 -16.858  1.00  1.00
ATOM     11  N   SER    53     -40.993  70.994 -16.529  1.00  1.00
ATOM     12  CA  SER    53     -40.648  69.580 -16.412  1.00  1.00
ATOM     13  C   SER    53     -39.684  69.374 -15.249  1.00  1.00
ATOM     14  O   SER    53     -39.432  68.244 -14.837  1.00  1.00
ATOM     15  CB  SER    53     -39.986  69.073 -17.699  1.00  1.00
ATOM     16  N   LEU    54     -39.141  70.473 -14.734  1.00  1.00
ATOM     17  CA  LEU    54     -38.206  70.419 -13.615  1.00  1.00
ATOM     18  C   LEU    54     -38.994  70.180 -12.338  1.00  1.00
ATOM     19  O   LEU    54     -40.008  70.840 -12.097  1.00  1.00
ATOM     20  CB  LEU    54     -37.445  71.736 -13.488  1.00  1.00
ATOM     21  N   ARG    55     -38.528  69.252 -11.513  1.00  1.00
ATOM     22  CA  ARG    55     -39.230  68.955 -10.274  1.00  1.00
ATOM     23  C   ARG    55     -38.335  68.463  -9.147  1.00  1.00
ATOM     24  O   ARG    55     -37.225  67.967  -9.371  1.00  1.00
ATOM     25  CB  ARG    55     -40.328  67.930 -10.542  1.00  1.00
ATOM     26  N   VAL    56     -38.836  68.611  -7.926  1.00  1.00
ATOM     27  CA  VAL    56     -38.116  68.192  -6.739  1.00  1.00
ATOM     28  C   VAL    56     -37.678  66.738  -6.859  1.00  1.00
ATOM     29  O   VAL    56     -38.459  65.875  -7.263  1.00  1.00
ATOM     30  CB  VAL    56     -38.998  68.359  -5.482  1.00  1.00
ATOM     31  N   GLY    57     -36.418  66.477  -6.529  1.00  1.00
ATOM     32  CA  GLY    57     -35.913  65.118  -6.598  1.00  1.00
ATOM     33  C   GLY    57     -34.999  64.841  -7.776  1.00  1.00
ATOM     34  O   GLY    57     -34.181  63.921  -7.711  1.00  1.00
ATOM     35  N   ASP    58     -35.141  65.611  -8.854  1.00  1.00
ATOM     36  CA  ASP    58     -34.293  65.419 -10.027  1.00  1.00
ATOM     37  C   ASP    58     -32.850  65.715  -9.645  1.00  1.00
ATOM     38  O   ASP    58     -32.562  66.681  -8.935  1.00  1.00
ATOM     39  CB  ASP    58     -34.739  66.324 -11.182  1.00  1.00
ATOM     40  N   VAL    59     -31.948  64.865 -10.120  1.00  1.00
ATOM     41  CA  VAL    59     -30.532  64.993  -9.818  1.00  1.00
ATOM     42  C   VAL    59     -29.691  64.911 -11.079  1.00  1.00
ATOM     43  O   VAL    59     -30.126  64.391 -12.104  1.00  1.00
ATOM     44  CB  VAL    59     -30.091  63.865  -8.882  1.00  1.00
ATOM     45  N   SER   103     -28.477  65.432 -10.987  1.00  1.00
ATOM     46  CA  SER   103     -27.533  65.378 -12.092  1.00  1.00
ATOM     47  C   SER   103     -26.154  65.335 -11.461  1.00  1.00
ATOM     48  O   SER   103     -25.920  65.945 -10.417  1.00  1.00
ATOM     49  CB  SER   103     -27.674  66.604 -12.989  1.00  1.00
ATOM     50  N   VAL   104     -25.242  64.592 -12.071  1.00  1.00
ATOM     51  CA  VAL   104     -23.907  64.528 -11.516  1.00  1.00
ATOM     52  C   VAL   104     -22.847  64.372 -12.579  1.00  1.00
ATOM     53  O   VAL   104     -23.142  64.161 -13.755  1.00  1.00
ATOM     54  CB  VAL   104     -23.793  63.380 -10.504  1.00  1.00
ATOM     55  N   VAL   108     -21.605  64.513 -12.146  1.00  1.00
ATOM     56  CA  VAL   108     -20.468  64.348 -13.023  1.00  1.00
ATOM     57  C   VAL   108     -19.278  64.010 -12.145  1.00  1.00
ATOM     58  O   VAL   108     -19.308  64.210 -10.926  1.00  1.00
ATOM     59  CB  VAL   108     -20.205  65.625 -13.830  1.00  1.00
ATOM     60  N   MET   109     -18.242  63.472 -12.766  1.00  1.00
ATOM     61  CA  MET   109     -17.035  63.117 -12.048  1.00  1.00
ATOM     62  C   MET   109     -15.881  63.733 -12.814  1.00  1.00
ATOM     63  O   MET   109     -15.906  63.779 -14.044  1.00  1.00
ATOM     64  CB  MET   109     -16.873  61.596 -11.995  1.00  1.00
ATOM     65  N   VAL   110     -14.885  64.230 -12.091  1.00  1.00
ATOM     66  CA  VAL   110     -13.723  64.823 -12.734  1.00  1.00
ATOM     67  C   VAL   110     -12.499  64.732 -11.838  1.00  1.00
ATOM     68  O   VAL   110     -12.586  64.885 -10.617  1.00  1.00
ATOM     69  CB  VAL   110     -13.992  66.285 -13.107  1.00  1.00
ATOM     70  N   SER   111     -11.360  64.461 -12.464  1.00  1.00
ATOM     71  CA  SER   111     -10.090  64.343 -11.765  1.00  1.00
ATOM     72  C   SER   111      -9.239  65.534 -12.185  1.00  1.00
ATOM     73  O   SER   111      -8.682  65.546 -13.280  1.00  1.00
ATOM     74  CB  SER   111      -9.397  63.033 -12.163  1.00  1.00
ATOM     75  N   VAL   112      -9.160  66.544 -11.324  1.00  1.00
ATOM     76  CA  VAL   112      -8.363  67.731 -11.624  1.00  1.00
ATOM     77  C   VAL   112      -6.875  67.452 -11.430  1.00  1.00
ATOM     78  O   VAL   112      -6.438  67.097 -10.333  1.00  1.00
ATOM     79  CB  VAL   112      -8.785  68.901 -10.729  1.00  1.00
ATOM     80  N   ASN   113      -6.109  67.611 -12.504  1.00  1.00
ATOM     81  CA  ASN   113      -4.677  67.386 -12.440  1.00  1.00
ATOM     82  C   ASN   113      -3.899  68.674 -12.238  1.00  1.00
ATOM     83  O   ASN   113      -4.480  69.760 -12.157  1.00  1.00
ATOM     84  CB  ASN   113      -4.233  66.768 -13.779  1.00  1.00
ATOM     85  N   ALA   114      -2.577  68.556 -12.168  1.00  1.00
ATOM     86  CA  ALA   114      -1.708  69.709 -11.957  1.00  1.00
ATOM     87  C   ALA   114      -1.894  70.837 -12.974  1.00  1.00
ATOM     88  O   ALA   114      -1.959  72.008 -12.601  1.00  1.00
ATOM     89  CB  ALA   114      -0.247  69.256 -11.943  1.00  1.00
ATOM     90  N   GLU   115      -1.974  70.490 -14.256  1.00  1.00
ATOM     91  CA  GLU   115      -2.139  71.498 -15.298  1.00  1.00
ATOM     92  C   GLU   115      -3.435  72.287 -15.142  1.00  1.00
ATOM     93  O   GLU   115      -3.457  73.503 -15.326  1.00  1.00
ATOM     94  CB  GLU   115      -2.090  70.843 -16.674  1.00  1.00
ATOM     95  N   ARG   116      -4.512  71.590 -14.804  1.00  1.00
ATOM     96  CA  ARG   116      -5.807  72.239 -14.625  1.00  1.00
ATOM     97  C   ARG   116      -5.805  73.149 -13.407  1.00  1.00
ATOM     98  O   ARG   116      -6.361  74.245 -13.444  1.00  1.00
ATOM     99  CB  ARG   116      -6.901  71.182 -14.509  1.00  1.00
ATOM    100  N   LEU   117      -5.174  72.698 -12.329  1.00  1.00
ATOM    101  CA  LEU   117      -5.095  73.500 -11.117  1.00  1.00
ATOM    102  C   LEU   117      -4.274  74.758 -11.394  1.00  1.00
ATOM    103  O   LEU   117      -4.588  75.843 -10.894  1.00  1.00
ATOM    104  CB  LEU   117      -4.465  72.690  -9.966  1.00  1.00
ATOM    105  N   ALA   118      -3.225  74.616 -12.197  1.00  1.00
ATOM    106  CA  ALA   118      -2.386  75.754 -12.550  1.00  1.00
ATOM    107  C   ALA   118      -3.191  76.731 -13.407  1.00  1.00
ATOM    108  O   ALA   118      -3.061  77.946 -13.272  1.00  1.00
ATOM    109  CB  ALA   118      -1.152  75.278 -13.309  1.00  1.00
ATOM    585  N   GLY   319     -15.708  59.054  -0.948  1.00  1.00
ATOM    586  CA  GLY   319     -17.129  59.227  -0.706  1.00  1.00
ATOM    587  C   GLY   319     -17.469  60.182   0.422  1.00  1.00
ATOM    588  O   GLY   319     -18.622  60.257   0.844  1.00  1.00
ATOM    589  N   ALA   320     -16.474  60.915   0.913  1.00  1.00
ATOM    590  CA  ALA   320     -16.698  61.865   1.997  1.00  1.00
ATOM    591  C   ALA   320     -17.165  63.200   1.423  1.00  1.00
ATOM    592  O   ALA   320     -16.808  63.558   0.301  1.00  1.00
ATOM    593  CB  ALA   320     -15.425  62.055   2.796  1.00  1.00
ATOM    594  N   ALA   321     -17.959  63.934   2.198  1.00  1.00
ATOM    595  CA  ALA   321     -18.478  65.226   1.756  1.00  1.00
ATOM    596  C   ALA   321     -17.395  66.296   1.848  1.00  1.00
ATOM    597  O   ALA   321     -17.050  66.742   2.942  1.00  1.00
ATOM    598  CB  ALA   321     -19.677  65.626   2.619  1.00  1.00
ATOM    599  N   LEU   322     -16.868  66.710   0.696  1.00  1.00
ATOM    600  CA  LEU   322     -15.815  67.720   0.649  1.00  1.00
ATOM    601  C   LEU   322     -16.338  69.154   0.561  1.00  1.00
ATOM    602  O   LEU   322     -15.761  70.069   1.145  1.00  1.00
ATOM    603  CB  LEU   322     -14.880  67.442  -0.522  1.00  1.00
ATOM    604  N   LEU   326     -17.422  69.348  -0.183  1.00  1.00
ATOM    605  CA  LEU   326     -18.014  70.672  -0.342  1.00  1.00
ATOM    606  C   LEU   326     -19.525  70.527  -0.345  1.00  1.00
ATOM    607  O   LEU   326     -20.061  69.614  -0.965  1.00  1.00
ATOM    608  CB  LEU   326     -17.596  71.330  -1.687  1.00  1.00
ATOM    609  N   LEU   327     -20.221  71.419   0.349  1.00  1.00
ATOM    610  CA  LEU   327     -21.669  71.343   0.369  1.00  1.00
ATOM    611  C   LEU   327     -22.263  72.741   0.371  1.00  1.00
ATOM    612  O   LEU   327     -21.605  73.705   0.754  1.00  1.00
ATOM    613  CB  LEU   327     -22.175  70.551   1.604  1.00  1.00
ATOM    614  N   GLY   328     -23.503  72.842  -0.083  1.00  1.00
ATOM    615  CA  GLY   328     -24.170  74.126  -0.127  1.00  1.00
ATOM    616  C   GLY   328     -25.432  74.040  -0.952  1.00  1.00
ATOM    617  O   GLY   328     -25.918  72.947  -1.250  1.00  1.00
ATOM    618  N   GLU   329     -25.956  75.199  -1.327  1.00  1.00
ATOM    619  CA  GLU   329     -27.174  75.277  -2.113  1.00  1.00
ATOM    620  C   GLU   329     -27.038  76.324  -3.198  1.00  1.00
ATOM    621  O   GLU   329     -26.388  77.349  -3.006  1.00  1.00
ATOM    622  CB  GLU   329     -28.358  75.682  -1.235  1.00  1.00
ATOM    623  N   LEU   330     -27.654  76.053  -4.341  1.00  1.00
ATOM    624  CA  LEU   330     -27.660  76.997  -5.441  1.00  1.00
ATOM    625  C   LEU   330     -29.105  77.416  -5.690  1.00  1.00
ATOM    626  O   LEU   330     -30.038  76.623  -5.519  1.00  1.00
ATOM    627  CB  LEU   330     -27.086  76.355  -6.701  1.00  1.00
ATOM    628  N   LEU   331     -29.288  78.677  -6.055  1.00  1.00
ATOM    629  CA  LEU   331     -30.604  79.189  -6.396  1.00  1.00
ATOM    630  C   LEU   331     -30.412  79.697  -7.815  1.00  1.00
ATOM    631  O   LEU   331     -29.490  80.470  -8.085  1.00  1.00
ATOM    632  CB  LEU   331     -31.044  80.340  -5.464  1.00  1.00
ATOM    633  N   ILE   332     -31.252  79.239  -8.733  1.00  1.00
ATOM    634  CA  ILE   332     -31.110  79.641 -10.124  1.00  1.00
ATOM    635  C   ILE   332     -32.416  80.013 -10.797  1.00  1.00
ATOM    636  O   ILE   332     -33.488  79.558 -10.396  1.00  1.00
ATOM    637  CB  ILE   332     -30.480  78.503 -10.966  1.00  1.00
ATOM    638  N   LYS   333     -32.309  80.858 -11.817  1.00  1.00
ATOM    639  CA  LYS   333     -33.472  81.250 -12.598  1.00  1.00
ATOM    640  C   LYS   333     -33.560  80.199 -13.704  1.00  1.00
ATOM    641  O   LYS   333     -32.553  79.862 -14.332  1.00  1.00
ATOM    642  CB  LYS   333     -33.280  82.639 -13.210  1.00  1.00
ATOM    643  N   HIS   334     -34.760  79.680 -13.931  1.00  1.00
ATOM    644  CA  HIS   334     -34.978  78.649 -14.942  1.00  1.00
ATOM    645  C   HIS   334     -34.848  79.158 -16.371  1.00  1.00
ATOM    646  O   HIS   334     -35.005  80.350 -16.632  1.00  1.00
ATOM    647  CB  HIS   334     -36.361  78.025 -14.745  1.00  1.00
ATOM    648  N   TYR   335     -34.550  78.252 -17.319  1.00  1.00
ATOM    649  CA  TYR   335     -34.398  78.602 -18.734  1.00  1.00
ATOM    650  C   TYR   335     -35.692  79.152 -19.336  1.00  1.00
ATOM    651  O   TYR   335     -36.765  78.934 -18.734  1.00  1.00
ATOM    652  CB  TYR   335     -34.003  77.274 -19.378  1.00  1.00
TER
END
