
#######################################################
#                                                     #
#                        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_2_2-D1
# Molecule2: number of CA atoms  154 ( 1200),  selected  154 , name T0318_D1.pdb
# PARAMETERS: T0318TS193_2_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    -       -      I      59           -
LGA    -       -      P      60           -
LGA    -       -      A      61           -
LGA    -       -      S      62           -
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      77           -
LGA    -       -      P      78           -
LGA    -       -      D      79           -
LGA    -       -      A      80           -
LGA    -       -      S      81           -
LGA    -       -      S      82           -
LGA    -       -      R      83           -
LGA    -       -      G      84           -
LGA    -       -      N      85           -
LGA    -       -      T      86           -
LGA    -       -      P      87           -
LGA    -       -      T      88           -
LGA    -       -      N      89           -
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    R     142      T     106          1.866
LGA    E     143      K     107          2.997
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      L     144          2.373
LGA    N     145      N     145          2.105
LGA    V     146      V     146          1.176
LGA    N     147      N     147          2.517
LGA    I     148      I     148          3.071
LGA    D     149      D     149          1.667
LGA    V     150      V     150          3.148
LGA    V     151      V     151          1.764
LGA    C     152      C     152          1.560
LGA    D     153      D     153          2.665
LGA    -       -      K     154           -
LGA    K     154      L     155          2.638
LGA    L     155      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   14  154    5.0     13    2.35    76.92      6.343     0.530

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.654682 * X  +   0.012746 * Y  +   0.755797 * Z  +  42.366871
  Y_new =  -0.162012 * X  +  -0.978989 * Y  +  -0.123828 * Z  +  47.063385
  Z_new =   0.738338 * X  +  -0.203516 * Y  +   0.642991 * Z  +   8.707672 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.306538    2.835055  [ DEG:   -17.5633    162.4367 ]
  Theta =  -0.830603   -2.310989  [ DEG:   -47.5901   -132.4099 ]
  Phi   =  -2.899000    0.242593  [ DEG:  -166.1004     13.8996 ]
 
# 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_2_2-D1                             
REMARK     2: T0318_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0318TS193_2_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   13   2.35   76.92   6.343
REMARK  ---------------------------------------------------------- 
MOLECULE T0318TS193_2_2-D1
REMARK PARENT number 2
PFRMAT TS
TARGET T0318
PARENT N/A
ATOM   1097  N   ARG   142      40.023  51.371  14.776  1.00  0.00
ATOM   1098  CA  ARG   142      39.310  52.613  15.048  1.00  0.00
ATOM   1099  C   ARG   142      38.787  53.241  13.763  1.00  0.00
ATOM   1100  O   ARG   142      37.727  53.865  13.752  1.00  0.00
ATOM   1101  CB  ARG   142      40.234  53.624  15.728  1.00  0.00
ATOM   1102  CG  ARG   142      40.594  53.269  17.163  1.00  0.00
ATOM   1103  CD  ARG   142      41.579  54.268  17.748  1.00  0.00
ATOM   1104  NE  ARG   142      41.954  53.928  19.119  1.00  0.00
ATOM   1105  CZ  ARG   142      42.880  54.572  19.821  1.00  0.00
ATOM   1106  NH1 ARG   142      43.153  54.192  21.062  1.00  0.00
ATOM   1107  NH2 ARG   142      43.530  55.593  19.282  1.00  0.00
ATOM   1108  N   GLU   143      39.540  53.074  12.681  1.00  0.00
ATOM   1109  CA  GLU   143      39.076  53.469  11.356  1.00  0.00
ATOM   1110  C   GLU   143      37.935  52.578  10.883  1.00  0.00
ATOM   1111  O   GLU   143      36.935  53.061  10.353  1.00  0.00
ATOM   1112  CB  GLU   143      40.212  53.365  10.336  1.00  0.00
ATOM   1113  CG  GLU   143      41.304  54.407  10.516  1.00  0.00
ATOM   1114  CD  GLU   143      42.470  54.197   9.570  1.00  0.00
ATOM   1115  OE1 GLU   143      42.457  53.196   8.823  1.00  0.00
ATOM   1116  OE2 GLU   143      43.397  55.035   9.574  1.00  0.00
ATOM   1117  N   LEU   144      38.091  51.273  11.078  1.00  0.00
ATOM   1118  CA  LEU   144      37.066  50.312  10.687  1.00  0.00
ATOM   1119  C   LEU   144      35.792  50.505  11.500  1.00  0.00
ATOM   1120  O   LEU   144      34.685  50.397  10.971  1.00  0.00
ATOM   1121  CB  LEU   144      37.559  48.881  10.911  1.00  0.00
ATOM   1122  CG  LEU   144      38.821  48.473  10.149  1.00  0.00
ATOM   1123  CD1 LEU   144      39.255  47.069  10.541  1.00  0.00
ATOM   1124  CD2 LEU   144      38.572  48.490   8.647  1.00  0.00
ATOM   1125  N   ASN   145      35.012  49.654  13.070  1.00  0.00
ATOM   1126  CA  ASN   145      34.525  48.309  12.789  1.00  0.00
ATOM   1127  C   ASN   145      33.365  47.941  13.705  1.00  0.00
ATOM   1128  O   ASN   145      33.473  48.035  14.928  1.00  0.00
ATOM   1129  CB  ASN   145      35.639  47.281  12.999  1.00  0.00
ATOM   1130  CG  ASN   145      36.098  47.205  14.441  1.00  0.00
ATOM   1131  OD1 ASN   145      35.572  47.904  15.307  1.00  0.00
ATOM   1132  ND2 ASN   145      37.081  46.352  14.704  1.00  0.00
ATOM   1133  N   VAL   146      34.076  46.083  13.983  1.00  0.00
ATOM   1134  CA  VAL   146      33.403  45.263  14.984  1.00  0.00
ATOM   1135  C   VAL   146      34.288  44.107  15.432  1.00  0.00
ATOM   1136  O   VAL   146      35.283  43.786  14.783  1.00  0.00
ATOM   1137  CB  VAL   146      32.096  44.661  14.435  1.00  0.00
ATOM   1138  CG1 VAL   146      31.126  45.765  14.042  1.00  0.00
ATOM   1139  CG2 VAL   146      32.376  43.808  13.208  1.00  0.00
ATOM   1140  N   ASN   147      33.920  43.485  16.547  1.00  0.00
ATOM   1141  CA  ASN   147      34.666  42.346  17.071  1.00  0.00
ATOM   1142  C   ASN   147      33.885  41.050  16.897  1.00  0.00
ATOM   1143  O   ASN   147      32.782  40.903  17.424  1.00  0.00
ATOM   1144  CB  ASN   147      34.950  42.532  18.562  1.00  0.00
ATOM   1145  CG  ASN   147      35.808  43.750  18.844  1.00  0.00
ATOM   1146  OD1 ASN   147      36.961  43.821  18.416  1.00  0.00
ATOM   1147  ND2 ASN   147      35.248  44.712  19.567  1.00  0.00
ATOM   1148  N   ILE   148      34.463  40.111  16.155  1.00  0.00
ATOM   1149  CA  ILE   148      33.823  38.824  15.914  1.00  0.00
ATOM   1150  C   ILE   148      34.485  37.718  16.725  1.00  0.00
ATOM   1151  O   ILE   148      35.710  37.645  16.810  1.00  0.00
ATOM   1152  CB  ILE   148      33.906  38.423  14.429  1.00  0.00
ATOM   1153  CG1 ILE   148      33.198  37.085  14.198  1.00  0.00
ATOM   1154  CG2 ILE   148      35.357  38.282  13.995  1.00  0.00
ATOM   1155  CD1 ILE   148      33.002  36.743  12.738  1.00  0.00
ATOM   1156  N   ASP   149      33.666  36.859  17.323  1.00  0.00
ATOM   1157  CA  ASP   149      34.169  35.782  18.167  1.00  0.00
ATOM   1158  C   ASP   149      33.136  34.673  18.320  1.00  0.00
ATOM   1159  O   ASP   149      32.029  34.765  17.788  1.00  0.00
ATOM   1160  CB  ASP   149      34.509  36.309  19.562  1.00  0.00
ATOM   1161  CG  ASP   149      35.521  35.440  20.283  1.00  0.00
ATOM   1162  OD1 ASP   149      35.859  34.359  19.755  1.00  0.00
ATOM   1163  OD2 ASP   149      35.977  35.839  21.374  1.00  0.00
ATOM   1164  N   VAL   150      33.503  33.625  19.049  1.00  0.00
ATOM   1165  CA  VAL   150      32.603  32.502  19.286  1.00  0.00
ATOM   1166  C   VAL   150      32.298  32.344  20.770  1.00  0.00
ATOM   1167  O   VAL   150      33.176  31.994  21.560  1.00  0.00
ATOM   1168  CB  VAL   150      33.212  31.176  18.793  1.00  0.00
ATOM   1169  CG1 VAL   150      32.268  30.019  19.075  1.00  0.00
ATOM   1170  CG2 VAL   150      33.470  31.233  17.295  1.00  0.00
ATOM   1171  N   VAL   151      31.049  32.601  21.143  1.00  0.00
ATOM   1172  CA  VAL   151      30.628  32.494  22.535  1.00  0.00
ATOM   1173  C   VAL   151      29.412  31.587  22.673  1.00  0.00
ATOM   1174  O   VAL   151      28.395  31.790  22.009  1.00  0.00
ATOM   1175  CB  VAL   151      30.251  33.868  23.119  1.00  0.00
ATOM   1176  CG1 VAL   151      29.783  33.725  24.559  1.00  0.00
ATOM   1177  CG2 VAL   151      31.450  34.804  23.094  1.00  0.00
ATOM   1178  N   CYS   152      29.521  30.587  23.541  1.00  0.00
ATOM   1179  CA  CYS   152      28.437  29.635  23.753  1.00  0.00
ATOM   1180  C   CYS   152      28.108  28.881  22.471  1.00  0.00
ATOM   1181  O   CYS   152      26.952  28.533  22.224  1.00  0.00
ATOM   1182  CB  CYS   152      27.172  30.358  24.216  1.00  0.00
ATOM   1183  SG  CYS   152      27.382  31.346  25.716  1.00  0.00
ATOM   1184  N   ASP   153      29.129  28.629  21.659  1.00  0.00
ATOM   1185  CA  ASP   153      28.955  27.891  20.414  1.00  0.00
ATOM   1186  C   ASP   153      28.201  28.721  19.382  1.00  0.00
ATOM   1187  O   ASP   153      27.754  28.201  18.360  1.00  0.00
ATOM   1188  CB  ASP   153      28.162  26.606  20.659  1.00  0.00
ATOM   1189  CG  ASP   153      28.846  25.678  21.644  1.00  0.00
ATOM   1190  OD1 ASP   153      30.069  25.464  21.507  1.00  0.00
ATOM   1191  OD2 ASP   153      28.159  25.166  22.553  1.00  0.00
ATOM   1192  N   LYS   154      28.062  30.015  19.657  1.00  0.00
ATOM   1193  CA  LYS   154      27.367  30.920  18.751  1.00  0.00
ATOM   1194  C   LYS   154      28.269  32.070  18.321  1.00  0.00
ATOM   1195  O   LYS   154      29.164  32.478  19.061  1.00  0.00
ATOM   1196  CB  LYS   154      26.133  31.514  19.431  1.00  0.00
ATOM   1197  CG  LYS   154      25.068  30.490  19.792  1.00  0.00
ATOM   1198  CD  LYS   154      23.848  31.155  20.408  1.00  0.00
ATOM   1199  CE  LYS   154      22.824  30.124  20.851  1.00  0.00
ATOM   1200  NZ  LYS   154      21.631  30.760  21.478  1.00  0.00
ATOM   1201  N   LEU   155      28.907  33.318  21.133  1.00  0.00
ATOM   1202  CA  LEU   155      27.809  34.202  20.760  1.00  0.00
ATOM   1203  C   LEU   155      28.268  35.266  19.773  1.00  0.00
ATOM   1204  O   LEU   155      27.531  35.643  18.861  1.00  0.00
ATOM   1205  CB  LEU   155      27.248  34.911  21.994  1.00  0.00
ATOM   1206  CG  LEU   155      26.489  34.035  22.993  1.00  0.00
ATOM   1207  CD1 LEU   155      26.148  34.824  24.248  1.00  0.00
ATOM   1208  CD2 LEU   155      25.192  33.527  22.384  1.00  0.00
TER
END
