
#######################################################
#                                                     #
#                        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  121 (  121),  selected  121 , name T0371TS168_5-D2
# Molecule2: number of CA atoms  121 (  915),  selected  121 , name T0371_D2.pdb
# PARAMETERS: T0371TS168_5-D2.T0371_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      S      82           -
LGA    -       -      G      83           -
LGA    -       -      M      84           -
LGA    -       -      I      85           -
LGA    S      82      T      86          4.795
LGA    G      83      K      87          4.468
LGA    M      84      -       -           -
LGA    I      85      -       -           -
LGA    T      86      E      88          3.255
LGA    K      87      Y      89          1.000
LGA    E      88      I      90          2.778
LGA    Y      89      D      91          1.742
LGA    I      90      L      92          1.324
LGA    D      91      K      93          2.277
LGA    L      92      V      94          4.994
LGA    K      93      -       -           -
LGA    V      94      -       -           -
LGA    D      95      D      95          4.093
LGA    G      96      G      96          1.898
LGA    G      97      G      97          3.480
LGA    I      98      I      98          4.590
LGA    V      99      V      99          3.440
LGA    A     100      A     100           #
LGA    Y     101      Y     101          3.679
LGA    L     102      L     102          3.334
LGA    G     103      G     103          2.239
LGA    T     104      -       -           -
LGA    A     105      T     104           #
LGA    N     106      A     105          4.126
LGA    S     107      N     106           -
LGA    A     108      S     107           -
LGA    N     109      -       -           -
LGA    Y     110      A     108           #
LGA    L     111      N     109           -
LGA    V     112      Y     110           -
LGA    S     113      L     111           -
LGA    D     114      -       -           -
LGA    G     115      V     112           #
LGA    I     116      S     113           #
LGA    -       -      D     114           -
LGA    -       -      G     115           -
LGA    -       -      I     116           -
LGA    K     117      K     117          1.375
LGA    M     118      M     118          2.455
LGA    L     119      L     119          4.035
LGA    P     120      P     120           #
LGA    V     121      V     121          2.165
LGA    -       -      S     122           -
LGA    S     122      A     123          3.274
LGA    A     123      I     124          3.737
LGA    I     124      D     125          1.661
LGA    D     125      D     126          0.998
LGA    D     126      S     127          3.602
LGA    S     127      N     128           #
LGA    N     128      -       -           -
LGA    I     129      I     129          2.561
LGA    G     130      G     130          1.891
LGA    E     131      E     131          1.914
LGA    V     132      V     132          2.137
LGA    N     133      N     133          2.510
LGA    A     134      A     134          1.252
LGA    L     135      L     135          1.034
LGA    V     136      V     136          3.934
LGA    L     137      L     137          2.618
LGA    L     138      L     138          4.936
LGA    D     139      D     139          2.346
LGA    D     140      D     140          0.793
LGA    E     141      E     141          2.104
LGA    G     142      G     142           #
LGA    F     143      -       -           -
LGA    N     144      F     143          5.063
LGA    W     145      N     144          3.339
LGA    F     146      W     145          3.136
LGA    H     147      F     146          1.816
LGA    D     148      H     147          2.608
LGA    L     149      D     148          3.544
LGA    -       -      L     149           -
LGA    N     150      N     150          2.225
LGA    K     151      K     151          1.091
LGA    T     152      T     152          2.001
LGA    V     153      V     153          2.905
LGA    N     154      N     154          1.657
LGA    L     155      L     155          1.232
LGA    L     156      L     156          3.034
LGA    R     157      R     157          3.078
LGA    K     158      K     158          1.453
LGA    R     159      -       -           -
LGA    T     160      R     159          4.099
LGA    I     161      T     160          1.947
LGA    P     162      I     161          3.635
LGA    A     163      P     162          1.382
LGA    I     164      A     163          2.315
LGA    V     165      I     164          3.003
LGA    A     166      V     165          3.712
LGA    N     167      A     166          4.221
LGA    T     168      N     167          3.705
LGA    D     169      T     168          2.825
LGA    N     170      D     169          2.331
LGA    T     171      N     170          4.146
LGA    Y     172      T     171           #
LGA    P     173      Y     172          3.660
LGA    L     174      P     173          4.015
LGA    T     175      L     174           #
LGA    K     176      T     175          4.144
LGA    T     177      K     176           #
LGA    -       -      T     177           -
LGA    D     178      D     178          3.845
LGA    V     179      V     179          3.317
LGA    A     180      A     180          4.725
LGA    I     181      I     181          2.615
LGA    A     182      A     182          2.550
LGA    I     183      I     183          1.322
LGA    G     184      G     184          3.549
LGA    G     185      G     185          3.737
LGA    V     186      V     186          1.932
LGA    A     187      A     187          1.009
LGA    -       -      T     188           -
LGA    T     188      M     189          0.759
LGA    M     189      I     190          2.283
LGA    I     190      E     191          4.245
LGA    E     191      S     192          3.646
LGA    S     192      I     193          1.879
LGA    I     193      L     194          4.166
LGA    L     194      G     195          4.859
LGA    G     195      R     196           -
LGA    R     196      -       -           -
LGA    R     197      -       -           -
LGA    F     198      R     197          2.271
LGA    I     199      F     198          2.934
LGA    R     200      -       -           -
LGA    F     201      I     199           #
LGA    G     202      R     200          4.413
LGA    -       -      F     201           -
LGA    -       -      G     202           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  121  121    5.0     90    3.09    50.00     40.098     2.822

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.928185 * X  +   0.256201 * Y  +   0.269875 * Z  +  38.705532
  Y_new =   0.100445 * X  +  -0.525823 * Y  +   0.844642 * Z  +   4.446358
  Z_new =   0.358305 * X  +   0.811092 * Y  +   0.462327 * Z  + -54.866306 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.052723   -2.088869  [ DEG:    60.3166   -119.6834 ]
  Theta =  -0.366452   -2.775141  [ DEG:   -20.9962   -159.0038 ]
  Phi   =   3.033796   -0.107797  [ DEG:   173.8237     -6.1763 ]
 
# 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: T0371TS168_5-D2                               
REMARK     2: T0371_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0371TS168_5-D2.T0371_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  121  121   5.0   90   3.09   50.00  40.098
REMARK  ---------------------------------------------------------- 
MOLECULE T0371TS168_5-D2
PFRMAT TS
TARGET T0371
MODEL 5
PARENT N/A
ATOM     82  CA  SER    82      39.048  -0.878 -58.419  1.00 25.00           C
ATOM     83  CA  GLY    83      38.675   2.907 -58.865  1.00 25.00           C
ATOM     84  CA  MET    84      42.425   3.374 -58.241  1.00 25.00           C
ATOM     85  CA  ILE    85      43.217   0.660 -60.823  1.00 25.00           C
ATOM     86  CA  THR    86      40.914   2.369 -63.363  1.00 25.00           C
ATOM     87  CA  LYS    87      42.644   5.723 -62.711  1.00 25.00           C
ATOM     88  CA  GLU    88      46.068   4.082 -63.211  1.00 25.00           C
ATOM     89  CA  TYR    89      44.872   2.530 -66.502  1.00 25.00           C
ATOM     90  CA  ILE    90      43.585   5.942 -67.672  1.00 25.00           C
ATOM     91  CA  ASP    91      46.950   7.543 -66.787  1.00 25.00           C
ATOM     92  CA  LEU    92      48.791   4.808 -68.738  1.00 25.00           C
ATOM     93  CA  LYS    93      51.882   5.969 -66.934  1.00 25.00           C
ATOM     94  CA  VAL    94      53.999   2.854 -67.352  1.00 25.00           C
ATOM     95  CA  ASP    95      53.893   0.000 -69.815  1.00 25.00           C
ATOM     96  CA  GLY    96      53.121  -2.571 -67.065  1.00 25.00           C
ATOM     97  CA  GLY    97      50.705  -1.864 -64.167  1.00 25.00           C
ATOM     98  CA  ILE    98      47.867  -2.243 -61.663  1.00 25.00           C
ATOM     99  CA  VAL    99      44.780  -3.539 -59.797  1.00 25.00           C
ATOM    100  CA  ALA   100      43.803  -1.609 -56.660  1.00 25.00           C
ATOM    101  CA  TYR   101      41.542  -3.970 -54.770  1.00 25.00           C
ATOM    102  CA  LEU   102      40.432  -5.447 -51.389  1.00 25.00           C
ATOM    103  CA  GLY   103      37.971  -6.863 -48.866  1.00 25.00           C
ATOM    104  CA  THR   104      40.966  -7.855 -46.736  1.00 25.00           C
ATOM    105  CA  ALA   105      43.026 -10.916 -47.852  1.00 25.00           C
ATOM    106  CA  ASN   106      41.332 -10.233 -51.219  1.00 25.00           C
ATOM    107  CA  SER   107      44.435  -8.336 -52.422  1.00 25.00           C
ATOM    108  CA  ALA   108      46.668 -11.252 -51.339  1.00 25.00           C
ATOM    109  CA  ASN   109      44.408 -13.712 -53.214  1.00 25.00           C
ATOM    110  CA  TYR   110      44.577 -11.515 -56.347  1.00 25.00           C
ATOM    111  CA  LEU   111      48.396 -11.394 -56.087  1.00 25.00           C
ATOM    112  CA  VAL   112      48.519 -15.207 -55.746  1.00 25.00           C
ATOM    113  CA  SER   113      46.276 -15.578 -58.827  1.00 25.00           C
ATOM    114  CA  ASP   114      47.285 -13.810 -62.048  1.00 25.00           C
ATOM    115  CA  GLY   115      45.033 -12.144 -64.597  1.00 25.00           C
ATOM    116  CA  ILE   116      44.530  -9.489 -61.939  1.00 25.00           C
ATOM    117  CA  LYS   117      47.443  -7.200 -62.746  1.00 25.00           C
ATOM    118  CA  MET   118      48.028  -6.954 -59.019  1.00 25.00           C
ATOM    119  CA  LEU   119      47.167  -5.301 -55.692  1.00 25.00           C
ATOM    120  CA  PRO   120      48.223  -3.862 -52.363  1.00 25.00           C
ATOM    121  CA  VAL   121      50.273  -7.110 -52.050  1.00 25.00           C
ATOM    122  CA  SER   122      53.324  -9.264 -52.691  1.00 25.00           C
ATOM    123  CA  ALA   123      56.432 -11.246 -51.609  1.00 25.00           C
ATOM    124  CA  ILE   124      57.224  -7.930 -49.833  1.00 25.00           C
ATOM    125  CA  ASP   125      60.674  -8.672 -51.164  1.00 25.00           C
ATOM    126  CA  ASP   126      63.417 -10.810 -52.772  1.00 25.00           C
ATOM    127  CA  SER   127      62.808 -10.978 -56.490  1.00 25.00           C
ATOM    128  CA  ASN   128      62.766  -7.192 -56.543  1.00 25.00           C
ATOM    129  CA  ILE   129      59.256  -5.684 -56.612  1.00 25.00           C
ATOM    130  CA  GLY   130      57.864  -2.484 -58.203  1.00 25.00           C
ATOM    131  CA  GLU   131      54.685  -4.161 -59.526  1.00 25.00           C
ATOM    132  CA  VAL   132      51.603  -2.810 -57.745  1.00 25.00           C
ATOM    133  CA  ASN   133      52.703   0.794 -57.116  1.00 25.00           C
ATOM    134  CA  ALA   134      49.218   1.995 -58.263  1.00 25.00           C
ATOM    135  CA  LEU   135      47.893  -0.016 -55.298  1.00 25.00           C
ATOM    136  CA  VAL   136      46.659   0.891 -51.795  1.00 25.00           C
ATOM    137  CA  LEU   137      43.866  -1.638 -51.275  1.00 25.00           C
ATOM    138  CA  LEU   138      41.681  -2.461 -48.272  1.00 25.00           C
ATOM    139  CA  ASP   139      37.934  -2.261 -47.880  1.00 25.00           C
ATOM    140  CA  ASP   140      38.094  -4.096 -44.601  1.00 25.00           C
ATOM    141  CA  GLU   141      36.476  -7.351 -43.329  1.00 25.00           C
ATOM    142  CA  GLY   142      38.856  -7.219 -40.419  1.00 25.00           C
ATOM    143  CA  PHE   143      40.225 -10.478 -41.813  1.00 25.00           C
ATOM    144  CA  ASN   144      43.653 -11.359 -40.382  1.00 25.00           C
ATOM    145  CA  TRP   145      44.023  -7.703 -39.709  1.00 25.00           C
ATOM    146  CA  PHE   146      45.460  -4.362 -38.507  1.00 25.00           C
ATOM    147  CA  HIS   147      49.019  -5.714 -38.931  1.00 25.00           C
ATOM    148  CA  ASP   148      48.174  -6.895 -42.475  1.00 25.00           C
ATOM    149  CA  LEU   149      46.739  -3.445 -43.309  1.00 25.00           C
ATOM    150  CA  ASN   150      49.911  -1.773 -41.965  1.00 25.00           C
ATOM    151  CA  LYS   151      52.074  -4.114 -44.087  1.00 25.00           C
ATOM    152  CA  THR   152      49.980  -3.283 -47.184  1.00 25.00           C
ATOM    153  CA  VAL   153      50.373   0.460 -46.475  1.00 25.00           C
ATOM    154  CA  ASN   154      54.159   0.019 -46.115  1.00 25.00           C
ATOM    155  CA  LEU   155      54.281  -1.881 -49.437  1.00 25.00           C
ATOM    156  CA  LEU   156      52.281   0.910 -51.134  1.00 25.00           C
ATOM    157  CA  ARG   157      54.684   3.530 -49.711  1.00 25.00           C
ATOM    158  CA  LYS   158      57.678   1.519 -50.998  1.00 25.00           C
ATOM    159  CA  ARG   159      59.719   4.589 -50.168  1.00 25.00           C
ATOM    160  CA  THR   160      57.854   6.509 -52.840  1.00 25.00           C
ATOM    161  CA  ILE   161      54.400   5.468 -54.141  1.00 25.00           C
ATOM    162  CA  PRO   162      50.717   5.264 -53.263  1.00 25.00           C
ATOM    163  CA  ALA   163      47.746   5.951 -55.538  1.00 25.00           C
ATOM    164  CA  ILE   164      44.721   4.555 -53.817  1.00 25.00           C
ATOM    165  CA  VAL   165      41.799   2.468 -52.717  1.00 25.00           C
ATOM    166  CA  ALA   166      39.393   1.024 -50.153  1.00 25.00           C
ATOM    167  CA  ASN   167      35.633   1.523 -49.902  1.00 25.00           C
ATOM    168  CA  THR   168      33.562   4.620 -49.082  1.00 25.00           C
ATOM    169  CA  ASP   169      34.899   6.775 -46.323  1.00 25.00           C
ATOM    170  CA  ASN   170      33.464   6.674 -42.812  1.00 25.00           C
ATOM    171  CA  THR   171      31.619   3.546 -44.063  1.00 25.00           C
ATOM    172  CA  TYR   172      30.004   1.942 -47.165  1.00 25.00           C
ATOM    173  CA  PRO   173      28.491  -0.449 -44.626  1.00 25.00           C
ATOM    174  CA  LEU   174      26.381   2.041 -42.679  1.00 25.00           C
ATOM    175  CA  THR   175      23.460  -0.347 -42.767  1.00 25.00           C
ATOM    176  CA  LYS   176      24.568  -2.030 -39.552  1.00 25.00           C
ATOM    177  CA  THR   177      26.570  -2.757 -36.402  1.00 25.00           C
ATOM    178  CA  ASP   178      27.615   0.871 -36.072  1.00 25.00           C
ATOM    179  CA  VAL   179      30.169   1.554 -38.793  1.00 25.00           C
ATOM    180  CA  ALA   180      33.833   2.327 -39.678  1.00 25.00           C
ATOM    181  CA  ILE   181      33.775  -0.595 -42.110  1.00 25.00           C
ATOM    182  CA  ALA   182      34.122  -0.682 -45.907  1.00 25.00           C
ATOM    183  CA  ILE   183      37.091   1.664 -45.797  1.00 25.00           C
ATOM    184  CA  GLY   184      37.646   3.900 -42.738  1.00 25.00           C
ATOM    185  CA  GLY   185      39.961   1.264 -41.201  1.00 25.00           C
ATOM    186  CA  VAL   186      41.930   1.045 -44.478  1.00 25.00           C
ATOM    187  CA  ALA   187      42.261   4.860 -44.562  1.00 25.00           C
ATOM    188  CA  THR   188      43.506   4.856 -40.940  1.00 25.00           C
ATOM    189  CA  MET   189      46.072   2.146 -41.799  1.00 25.00           C
ATOM    190  CA  ILE   190      47.265   4.193 -44.808  1.00 25.00           C
ATOM    191  CA  GLU   191      47.613   7.295 -42.589  1.00 25.00           C
ATOM    192  CA  SER   192      49.629   5.272 -40.036  1.00 25.00           C
ATOM    193  CA  ILE   193      51.909   3.975 -42.826  1.00 25.00           C
ATOM    194  CA  LEU   194      52.431   7.551 -44.096  1.00 25.00           C
ATOM    195  CA  GLY   195      56.187   8.300 -44.177  1.00 25.00           C
ATOM    196  CA  ARG   196      55.452   8.367 -47.909  1.00 25.00           C
ATOM    197  CA  ARG   197      51.839   8.849 -48.961  1.00 25.00           C
ATOM    198  CA  PHE   198      48.886   9.667 -51.107  1.00 25.00           C
ATOM    199  CA  ILE   199      47.056   6.590 -49.864  1.00 25.00           C
ATOM    200  CA  ARG   200      43.939   4.760 -48.802  1.00 25.00           C
ATOM    201  CA  PHE   201      40.283   5.912 -49.303  1.00 25.00           C
ATOM    202  CA  GLY   202      37.500   5.490 -51.815  1.00 25.00           C
TER
END
