
#######################################################
#                                                     #
#                        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   14 (  112),  selected   14 , name T0318TS193_3_2-D1
# Molecule2: number of CA atoms  154 ( 1200),  selected  154 , name T0318_D1.pdb
# PARAMETERS: T0318TS193_3_2-D1.T0318_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T       2           -
LGA    -       -      Q       3           -
LGA    -       -      V       4           -
LGA    -       -      L       5           -
LGA    -       -      V       6           -
LGA    -       -      R       7           -
LGA    -       -      N       8           -
LGA    -       -      G       9           -
LGA    -       -      I      10           -
LGA    -       -      Q      11           -
LGA    -       -      A      12           -
LGA    -       -      V      13           -
LGA    -       -      G      14           -
LGA    -       -      D      15           -
LGA    -       -      G      16           -
LGA    -       -      L      17           -
LGA    -       -      T      18           -
LGA    -       -      S      19           -
LGA    -       -      L      20           -
LGA    -       -      I      21           -
LGA    -       -      I      22           -
LGA    -       -      V      23           -
LGA    -       -      G      24           -
LGA    -       -      K      25           -
LGA    -       -      K      26           -
LGA    -       -      S      27           -
LGA    -       -      V      28           -
LGA    -       -      L      29           -
LGA    -       -      K      30           -
LGA    -       -      N      31           -
LGA    -       -      V      32           -
LGA    -       -      T      33           -
LGA    -       -      F      34           -
LGA    -       -      E      35           -
LGA    -       -      G      36           -
LGA    -       -      K      37           -
LGA    -       -      F      38           -
LGA    -       -      K      39           -
LGA    -       -      E      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      Q      43           -
LGA    -       -      K      44           -
LGA    -       -      F      45           -
LGA    -       -      V      46           -
LGA    -       -      T      47           -
LGA    -       -      D      48           -
LGA    -       -      G      49           -
LGA    -       -      D      50           -
LGA    -       -      S      51           -
LGA    -       -      W      52           -
LGA    -       -      N      53           -
LGA    -       -      S      54           -
LGA    -       -      M      55           -
LGA    -       -      I      56           -
LGA    -       -      S      57           -
LGA    -       -      R      58           -
LGA    R     142      I      59          2.557
LGA    E     143      P      60          0.613
LGA    L     144      A      61          4.001
LGA    N     145      S      62          1.596
LGA    -       -      G      63           -
LGA    -       -      R      64           -
LGA    -       -      H      65           -
LGA    -       -      P      66           -
LGA    -       -      L      67           -
LGA    -       -      H      68           -
LGA    -       -      Y      69           -
LGA    -       -      E      70           -
LGA    -       -      L      71           -
LGA    -       -      A      72           -
LGA    -       -      H      73           -
LGA    -       -      L      74           -
LGA    -       -      I      75           -
LGA    -       -      T      76           -
LGA    V     146      V      77          2.225
LGA    N     147      P      78          3.361
LGA    I     148      D      79          1.908
LGA    D     149      A      80          1.297
LGA    V     150      S      81          1.967
LGA    V     151      S      82          2.115
LGA    -       -      R      83           -
LGA    -       -      G      84           -
LGA    C     152      N      85          3.605
LGA    D     153      T      86          2.632
LGA    -       -      P      87           -
LGA    K     154      T      88          2.571
LGA    L     155      N      89          4.779
LGA    -       -      A      90           -
LGA    -       -      H      91           -
LGA    -       -      S      92           -
LGA    -       -      I      93           -
LGA    -       -      Y      94           -
LGA    -       -      K      95           -
LGA    -       -      E      96           -
LGA    -       -      L      97           -
LGA    -       -      K      98           -
LGA    -       -      P      99           -
LGA    -       -      I     100           -
LGA    -       -      N     101           -
LGA    -       -      Y     102           -
LGA    -       -      P     103           -
LGA    -       -      E     104           -
LGA    -       -      D     105           -
LGA    -       -      T     106           -
LGA    -       -      K     107           -
LGA    -       -      N     108           -
LGA    -       -      V     109           -
LGA    -       -      H     110           -
LGA    -       -      F     111           -
LGA    -       -      V     112           -
LGA    -       -      L     113           -
LGA    -       -      F     114           -
LGA    -       -      A     115           -
LGA    -       -      E     116           -
LGA    -       -      Y     117           -
LGA    -       -      P     118           -
LGA    -       -      D     119           -
LGA    -       -      V     120           -
LGA    -       -      L     121           -
LGA    -       -      S     122           -
LGA    -       -      H     123           -
LGA    -       -      V     124           -
LGA    -       -      A     125           -
LGA    -       -      A     126           -
LGA    -       -      I     127           -
LGA    -       -      A     128           -
LGA    -       -      R     129           -
LGA    -       -      T     130           -
LGA    -       -      F     131           -
LGA    -       -      C     132           -
LGA    -       -      K     133           -
LGA    -       -      F     134           -
LGA    -       -      S     135           -
LGA    -       -      M     136           -
LGA    -       -      K     137           -
LGA    -       -      T     138           -
LGA    -       -      S     139           -
LGA    -       -      G     140           -
LGA    -       -      I     141           -
LGA    -       -      R     142           -
LGA    -       -      E     143           -
LGA    -       -      L     144           -
LGA    -       -      N     145           -
LGA    -       -      V     146           -
LGA    -       -      N     147           -
LGA    -       -      I     148           -
LGA    -       -      D     149           -
LGA    -       -      V     150           -
LGA    -       -      V     151           -
LGA    -       -      C     152           -
LGA    -       -      D     153           -
LGA    -       -      K     154           -
LGA    -       -      L     155           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   14  154    5.0     14    2.74     7.14      6.378     0.494

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.324202 * X  +   0.403608 * Y  +   0.855566 * Z  +  34.577030
  Y_new =  -0.291092 * X  +  -0.903096 * Y  +   0.315726 * Z  +  33.695045
  Z_new =   0.900088 * X  +  -0.146689 * Y  +   0.410273 * Z  +  44.155411 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.343376    2.798217  [ DEG:   -19.6740    160.3260 ]
  Theta =  -1.119972   -2.021621  [ DEG:   -64.1696   -115.8304 ]
  Phi   =  -2.409956    0.731637  [ DEG:  -138.0803     41.9197 ]
 
# 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: T0318TS193_3_2-D1                             
REMARK     2: T0318_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0318TS193_3_2-D1.T0318_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   14  154   5.0   14   2.74    7.14   6.378
REMARK  ---------------------------------------------------------- 
MOLECULE T0318TS193_3_2-D1
REMARK PARENT number 2
PFRMAT TS
TARGET T0318
PARENT N/A
ATOM   1097  N   ARG   142      35.734  41.151  42.498  1.00  0.00
ATOM   1098  CA  ARG   142      34.993  42.403  42.426  1.00  0.00
ATOM   1099  C   ARG   142      33.643  42.208  41.749  1.00  0.00
ATOM   1100  O   ARG   142      33.397  41.179  41.120  1.00  0.00
ATOM   1101  CB  ARG   142      35.778  43.445  41.626  1.00  0.00
ATOM   1102  CG  ARG   142      37.047  43.927  42.311  1.00  0.00
ATOM   1103  CD  ARG   142      37.811  44.904  41.433  1.00  0.00
ATOM   1104  NE  ARG   142      38.304  44.272  40.211  1.00  0.00
ATOM   1105  CZ  ARG   142      38.883  44.929  39.211  1.00  0.00
ATOM   1106  NH1 ARG   142      39.300  44.270  38.139  1.00  0.00
ATOM   1107  NH2 ARG   142      39.041  46.242  39.286  1.00  0.00
ATOM   1108  N   GLU   143      32.769  43.201  41.882  1.00  0.00
ATOM   1109  CA  GLU   143      31.475  43.178  41.213  1.00  0.00
ATOM   1110  C   GLU   143      31.565  43.785  39.819  1.00  0.00
ATOM   1111  O   GLU   143      32.364  44.689  39.576  1.00  0.00
ATOM   1112  CB  GLU   143      30.444  43.976  42.013  1.00  0.00
ATOM   1113  CG  GLU   143      30.180  43.429  43.406  1.00  0.00
ATOM   1114  CD  GLU   143      29.126  44.222  44.153  1.00  0.00
ATOM   1115  OE1 GLU   143      28.636  45.228  43.600  1.00  0.00
ATOM   1116  OE2 GLU   143      28.790  43.837  45.293  1.00  0.00
ATOM   1117  N   LEU   144      30.741  43.283  38.906  1.00  0.00
ATOM   1118  CA  LEU   144      30.640  43.854  37.568  1.00  0.00
ATOM   1119  C   LEU   144      29.314  44.580  37.377  1.00  0.00
ATOM   1120  O   LEU   144      29.044  45.129  36.309  1.00  0.00
ATOM   1121  CB  LEU   144      30.735  42.754  36.508  1.00  0.00
ATOM   1122  CG  LEU   144      31.978  41.864  36.564  1.00  0.00
ATOM   1123  CD1 LEU   144      31.892  40.755  35.527  1.00  0.00
ATOM   1124  CD2 LEU   144      33.235  42.676  36.290  1.00  0.00
ATOM   1125  N   ASN   145      26.981  44.836  37.159  1.00  0.00
ATOM   1126  CA  ASN   145      26.918  43.419  36.820  1.00  0.00
ATOM   1127  C   ASN   145      25.746  43.125  35.894  1.00  0.00
ATOM   1128  O   ASN   145      24.630  43.596  36.120  1.00  0.00
ATOM   1129  CB  ASN   145      26.748  42.573  38.084  1.00  0.00
ATOM   1130  CG  ASN   145      27.992  42.562  38.950  1.00  0.00
ATOM   1131  OD1 ASN   145      29.087  42.876  38.484  1.00  0.00
ATOM   1132  ND2 ASN   145      27.826  42.202  40.216  1.00  0.00
ATOM   1133  N   VAL   146      26.003  42.345  34.850  1.00  0.00
ATOM   1134  CA  VAL   146      24.942  41.851  33.981  1.00  0.00
ATOM   1135  C   VAL   146      24.709  40.360  34.188  1.00  0.00
ATOM   1136  O   VAL   146      25.648  39.603  34.428  1.00  0.00
ATOM   1137  CB  VAL   146      25.283  42.065  32.495  1.00  0.00
ATOM   1138  CG1 VAL   146      24.191  41.485  31.608  1.00  0.00
ATOM   1139  CG2 VAL   146      25.416  43.548  32.186  1.00  0.00
ATOM   1140  N   ASN   147      23.450  39.945  34.094  1.00  0.00
ATOM   1141  CA  ASN   147      23.102  38.531  34.166  1.00  0.00
ATOM   1142  C   ASN   147      23.522  37.927  35.500  1.00  0.00
ATOM   1143  O   ASN   147      23.954  36.777  35.563  1.00  0.00
ATOM   1144  CB  ASN   147      23.801  37.750  33.051  1.00  0.00
ATOM   1145  CG  ASN   147      23.219  36.364  32.858  1.00  0.00
ATOM   1146  OD1 ASN   147      22.065  36.111  33.203  1.00  0.00
ATOM   1147  ND2 ASN   147      24.019  35.459  32.304  1.00  0.00
ATOM   1148  N   ILE   148      24.900  38.612  36.455  1.00  0.00
ATOM   1149  CA  ILE   148      24.267  38.442  37.759  1.00  0.00
ATOM   1150  C   ILE   148      22.848  38.993  37.758  1.00  0.00
ATOM   1151  O   ILE   148      22.454  39.721  36.846  1.00  0.00
ATOM   1152  CB  ILE   148      25.049  39.176  38.865  1.00  0.00
ATOM   1153  CG1 ILE   148      26.425  38.537  39.059  1.00  0.00
ATOM   1154  CG2 ILE   148      24.296  39.106  40.185  1.00  0.00
ATOM   1155  CD1 ILE   148      27.351  39.337  39.949  1.00  0.00
ATOM   1156  N   ASP   149      22.081  38.642  38.784  1.00  0.00
ATOM   1157  CA  ASP   149      20.692  39.071  38.886  1.00  0.00
ATOM   1158  C   ASP   149      20.591  40.480  39.459  1.00  0.00
ATOM   1159  O   ASP   149      19.555  41.134  39.340  1.00  0.00
ATOM   1160  CB  ASP   149      19.907  38.129  39.801  1.00  0.00
ATOM   1161  CG  ASP   149      18.409  38.357  39.724  1.00  0.00
ATOM   1162  OD1 ASP   149      17.966  39.094  38.817  1.00  0.00
ATOM   1163  OD2 ASP   149      17.679  37.799  40.569  1.00  0.00
ATOM   1164  N   VAL   150      18.005  40.736  37.757  1.00  0.00
ATOM   1165  CA  VAL   150      17.017  40.221  38.698  1.00  0.00
ATOM   1166  C   VAL   150      16.879  38.708  38.576  1.00  0.00
ATOM   1167  O   VAL   150      15.893  38.126  39.029  1.00  0.00
ATOM   1168  CB  VAL   150      15.627  40.835  38.449  1.00  0.00
ATOM   1169  CG1 VAL   150      14.598  40.222  39.387  1.00  0.00
ATOM   1170  CG2 VAL   150      15.658  42.337  38.685  1.00  0.00
ATOM   1171  N   VAL   151      13.818  38.488  38.236  1.00  0.00
ATOM   1172  CA  VAL   151      14.188  38.254  36.846  1.00  0.00
ATOM   1173  C   VAL   151      14.629  39.544  36.168  1.00  0.00
ATOM   1174  O   VAL   151      13.948  40.565  36.250  1.00  0.00
ATOM   1175  CB  VAL   151      13.008  37.685  36.036  1.00  0.00
ATOM   1176  CG1 VAL   151      13.374  37.578  34.563  1.00  0.00
ATOM   1177  CG2 VAL   151      12.635  36.299  36.540  1.00  0.00
ATOM   1178  N   CYS   152      15.775  39.492  35.497  1.00  0.00
ATOM   1179  CA  CYS   152      16.316  40.660  34.812  1.00  0.00
ATOM   1180  C   CYS   152      16.705  40.326  33.378  1.00  0.00
ATOM   1181  O   CYS   152      17.098  39.199  33.077  1.00  0.00
ATOM   1182  CB  CYS   152      17.562  41.175  35.533  1.00  0.00
ATOM   1183  SG  CYS   152      18.324  42.625  34.767  1.00  0.00
ATOM   1184  N   ASP   153      16.592  41.313  32.495  1.00  0.00
ATOM   1185  CA  ASP   153      16.930  41.125  31.089  1.00  0.00
ATOM   1186  C   ASP   153      18.213  41.863  30.727  1.00  0.00
ATOM   1187  O   ASP   153      18.489  42.111  29.554  1.00  0.00
ATOM   1188  CB  ASP   153      15.809  41.657  30.192  1.00  0.00
ATOM   1189  CG  ASP   153      14.565  40.793  30.242  1.00  0.00
ATOM   1190  OD1 ASP   153      14.639  39.676  30.797  1.00  0.00
ATOM   1191  OD2 ASP   153      13.516  41.232  29.725  1.00  0.00
ATOM   1192  N   LYS   154      19.604  40.797  31.000  1.00  0.00
ATOM   1193  CA  LYS   154      20.497  40.249  29.987  1.00  0.00
ATOM   1194  C   LYS   154      19.741  39.360  29.008  1.00  0.00
ATOM   1195  O   LYS   154      20.297  38.911  28.005  1.00  0.00
ATOM   1196  CB  LYS   154      21.596  39.408  30.639  1.00  0.00
ATOM   1197  CG  LYS   154      22.719  39.011  29.695  1.00  0.00
ATOM   1198  CD  LYS   154      23.864  38.351  30.445  1.00  0.00
ATOM   1199  CE  LYS   154      25.022  38.032  29.513  1.00  0.00
ATOM   1200  NZ  LYS   154      26.185  37.463  30.248  1.00  0.00
ATOM   1201  N   LEU   155      18.470  39.108  29.305  1.00  0.00
ATOM   1202  CA  LEU   155      17.625  38.302  28.433  1.00  0.00
ATOM   1203  C   LEU   155      16.829  39.177  27.473  1.00  0.00
ATOM   1204  O   LEU   155      16.232  38.684  26.517  1.00  0.00
ATOM   1205  CB  LEU   155      16.633  37.480  29.258  1.00  0.00
ATOM   1206  CG  LEU   155      17.237  36.526  30.291  1.00  0.00
ATOM   1207  CD1 LEU   155      16.143  35.805  31.062  1.00  0.00
ATOM   1208  CD2 LEU   155      18.107  35.479  29.610  1.00  0.00
TER
END
