
#######################################################
#                                                     #
#                        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   21 (  162),  selected   21 , name T0311TS490_1_2-D1
# Molecule2: number of CA atoms   64 (  486),  selected   64 , name T0311_D1.pdb
# PARAMETERS: T0311TS490_1_2-D1.T0311_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      R       8           -
LGA    -       -      P       9           -
LGA    -       -      G      10           -
LGA    E      51      D      11          1.469
LGA    M      52      I      12          2.233
LGA    A      53      I      13          2.243
LGA    I      54      Q      14          1.045
LGA    K      55      E      15          0.786
LGA    L      56      S      16          1.487
LGA    S      57      L      17          1.368
LGA    V      58      D      18          0.515
LGA    V      59      E      19          0.624
LGA    I      60      L      20          0.228
LGA    G      61      N      21          0.774
LGA    S      62      V      22          1.412
LGA    S      63      S      23          0.663
LGA    P      64      L      24          2.229
LGA    Q      65      R      25          2.275
LGA    M      66      E      26          0.987
LGA    W      67      F      27          1.518
LGA    L      68      A      28          1.952
LGA    -       -      R      29           -
LGA    -       -      A      30           -
LGA    -       -      M      31           -
LGA    -       -      E      32           -
LGA    -       -      I      33           -
LGA    -       -      A      34           -
LGA    N      69      P      35          2.079
LGA    -       -      S      36           -
LGA    L      70      T      37          1.789
LGA    Q      71      A      38          1.877
LGA    -       -      S      39           -
LGA    -       -      R      40           -
LGA    -       -      L      41           -
LGA    -       -      L      42           -
LGA    -       -      T      43           -
LGA    -       -      G      44           -
LGA    -       -      K      45           -
LGA    -       -      A      46           -
LGA    -       -      A      47           -
LGA    -       -      L      48           -
LGA    -       -      T      49           -
LGA    -       -      P      50           -
LGA    -       -      E      51           -
LGA    -       -      M      52           -
LGA    -       -      A      53           -
LGA    -       -      I      54           -
LGA    -       -      K      55           -
LGA    -       -      L      56           -
LGA    -       -      S      57           -
LGA    -       -      V      58           -
LGA    -       -      V      59           -
LGA    -       -      I      60           -
LGA    -       -      G      61           -
LGA    -       -      S      62           -
LGA    -       -      S      63           -
LGA    -       -      P      64           -
LGA    -       -      Q      65           -
LGA    -       -      M      66           -
LGA    -       -      W      67           -
LGA    -       -      L      68           -
LGA    -       -      N      69           -
LGA    -       -      L      70           -
LGA    -       -      Q      71           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   21   64    5.0     21    1.54     4.76     30.551     1.278

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.208781 * X  +  -0.937213 * Y  +  -0.279361 * Z  +  26.586042
  Y_new =  -0.974320 * X  +   0.174706 * Y  +   0.142050 * Z  +   4.906937
  Z_new =  -0.084325 * X  +   0.301845 * Y  +  -0.949621 * Z  +  17.375511 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.833834   -0.307759  [ DEG:   162.3667    -17.6333 ]
  Theta =   0.084425    3.057168  [ DEG:     4.8372    175.1628 ]
  Phi   =  -1.781888    1.359704  [ DEG:  -102.0947     77.9053 ]
 
# 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: T0311TS490_1_2-D1                             
REMARK     2: T0311_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0311TS490_1_2-D1.T0311_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21   64   5.0   21   1.54    4.76  30.551
REMARK  ---------------------------------------------------------- 
MOLECULE T0311TS490_1_2-D1
REMARK PARENT number 2
PFRMAT     TS
TARGET     T0311
PARENT     1lmb30           
ATOM    380  N   GLU    51      35.692  -0.124  14.985  1.00  0.36
ATOM    381  CA  GLU    51      35.782   1.021  15.842  1.00  0.36
ATOM    382  C   GLU    51      34.767   2.056  15.455  1.00  0.36
ATOM    383  O   GLU    51      34.066   2.592  16.314  1.00  0.36
ATOM    384  CB  GLU    51      37.179   1.658  15.829  1.00  0.36
ATOM    385  CG  GLU    51      37.422   2.605  17.004  1.00  0.36
ATOM    386  CD  GLU    51      38.928   2.761  17.142  1.00  0.36
ATOM    387  OE1 GLU    51      39.639   2.540  16.127  1.00  0.36
ATOM    388  OE2 GLU    51      39.389   3.093  18.267  1.00  0.36
ATOM    389  N   MET    52      34.643   2.348  14.146  1.00  0.19
ATOM    390  CA  MET    52      33.728   3.358  13.684  1.00  0.19
ATOM    391  C   MET    52      32.337   2.917  13.998  1.00  0.19
ATOM    392  O   MET    52      31.495   3.727  14.380  1.00  0.19
ATOM    393  CB  MET    52      33.762   3.579  12.158  1.00  0.19
ATOM    394  CG  MET    52      35.061   4.175  11.605  1.00  0.19
ATOM    395  SD  MET    52      35.066   4.346   9.792  1.00  0.19
ATOM    396  CE  MET    52      36.819   4.796   9.627  1.00  0.19
ATOM    397  N   ALA    53      32.056   1.612  13.833  1.00  0.21
ATOM    398  CA  ALA    53      30.724   1.129  14.052  1.00  0.21
ATOM    399  C   ALA    53      30.347   1.367  15.482  1.00  0.21
ATOM    400  O   ALA    53      29.241   1.827  15.767  1.00  0.21
ATOM    401  CB  ALA    53      30.576  -0.377  13.775  1.00  0.21
ATOM    402  N   ILE    54      31.263   1.072  16.425  1.00  0.44
ATOM    403  CA  ILE    54      30.919   1.235  17.808  1.00  0.44
ATOM    404  C   ILE    54      30.727   2.691  18.128  1.00  0.44
ATOM    405  O   ILE    54      29.881   3.043  18.945  1.00  0.44
ATOM    406  CB  ILE    54      31.905   0.640  18.772  1.00  0.44
ATOM    407  CG1 ILE    54      31.263   0.544  20.170  1.00  0.44
ATOM    408  CG2 ILE    54      33.195   1.471  18.719  1.00  0.44
ATOM    409  CD1 ILE    54      31.999  -0.388  21.132  1.00  0.44
ATOM    410  N   LYS    55      31.515   3.590  17.514  1.00  0.58
ATOM    411  CA  LYS    55      31.357   4.990  17.800  1.00  0.58
ATOM    412  C   LYS    55      29.997   5.431  17.348  1.00  0.58
ATOM    413  O   LYS    55      29.297   6.153  18.055  1.00  0.58
ATOM    414  CB  LYS    55      32.401   5.848  17.069  1.00  0.58
ATOM    415  CG  LYS    55      33.807   5.683  17.647  1.00  0.58
ATOM    416  CD  LYS    55      33.948   6.256  19.056  1.00  0.58
ATOM    417  CE  LYS    55      34.678   7.600  19.082  1.00  0.58
ATOM    418  NZ  LYS    55      34.103   8.512  18.066  1.00  0.58
ATOM    419  N   LEU    56      29.577   4.988  16.151  1.00  0.32
ATOM    420  CA  LEU    56      28.321   5.397  15.587  1.00  0.32
ATOM    421  C   LEU    56      27.208   4.879  16.452  1.00  0.32
ATOM    422  O   LEU    56      26.199   5.558  16.641  1.00  0.32
ATOM    423  CB  LEU    56      28.120   4.874  14.153  1.00  0.32
ATOM    424  CG  LEU    56      29.310   5.177  13.212  1.00  0.32
ATOM    425  CD1 LEU    56      28.938   4.963  11.735  1.00  0.32
ATOM    426  CD2 LEU    56      29.943   6.547  13.497  1.00  0.32
ATOM    427  N   SER    57      27.364   3.660  17.011  1.00  0.23
ATOM    428  CA  SER    57      26.323   3.097  17.823  1.00  0.23
ATOM    429  C   SER    57      26.079   4.017  18.974  1.00  0.23
ATOM    430  O   SER    57      24.933   4.334  19.283  1.00  0.23
ATOM    431  CB  SER    57      26.681   1.730  18.449  1.00  0.23
ATOM    432  OG  SER    57      27.652   1.875  19.475  1.00  0.23
ATOM    433  N   VAL    58      27.158   4.484  19.635  1.00  0.46
ATOM    434  CA  VAL    58      26.975   5.293  20.803  1.00  0.46
ATOM    435  C   VAL    58      26.351   6.599  20.431  1.00  0.46
ATOM    436  O   VAL    58      25.482   7.094  21.146  1.00  0.46
ATOM    437  CB  VAL    58      28.236   5.586  21.572  1.00  0.46
ATOM    438  CG1 VAL    58      28.873   4.249  21.988  1.00  0.46
ATOM    439  CG2 VAL    58      29.146   6.517  20.763  1.00  0.46
ATOM    440  N   VAL    59      26.768   7.194  19.296  1.00  0.58
ATOM    441  CA  VAL    59      26.238   8.480  18.941  1.00  0.58
ATOM    442  C   VAL    59      24.771   8.352  18.673  1.00  0.58
ATOM    443  O   VAL    59      24.005   9.267  18.973  1.00  0.58
ATOM    444  CB  VAL    59      26.856   9.098  17.718  1.00  0.58
ATOM    445  CG1 VAL    59      28.368   9.237  17.954  1.00  0.58
ATOM    446  CG2 VAL    59      26.462   8.287  16.475  1.00  0.58
ATOM    447  N   ILE    60      24.330   7.205  18.118  1.00  0.47
ATOM    448  CA  ILE    60      22.948   7.081  17.737  1.00  0.47
ATOM    449  C   ILE    60      22.178   6.429  18.845  1.00  0.47
ATOM    450  O   ILE    60      20.955   6.318  18.761  1.00  0.47
ATOM    451  CB  ILE    60      22.760   6.164  16.571  1.00  0.47
ATOM    452  CG1 ILE    60      23.222   4.758  16.991  1.00  0.47
ATOM    453  CG2 ILE    60      23.499   6.743  15.353  1.00  0.47
ATOM    454  CD1 ILE    60      22.773   3.643  16.054  1.00  0.47
ATOM    455  N   GLY    61      22.860   6.000  19.924  1.00  0.32
ATOM    456  CA  GLY    61      22.163   5.432  21.043  1.00  0.32
ATOM    457  C   GLY    61      21.561   4.104  20.686  1.00  0.32
ATOM    458  O   GLY    61      20.455   3.792  21.125  1.00  0.32
ATOM    459  N   SER    62      22.260   3.286  19.874  1.00  0.37
ATOM    460  CA  SER    62      21.739   1.991  19.533  1.00  0.37
ATOM    461  C   SER    62      22.851   0.999  19.676  1.00  0.37
ATOM    462  O   SER    62      23.986   1.363  19.978  1.00  0.37
ATOM    463  CB  SER    62      21.205   1.901  18.093  1.00  0.37
ATOM    464  OG  SER    62      20.074   2.745  17.950  1.00  0.37
ATOM    465  N   SER    63      22.539  -0.298  19.494  1.00  0.55
ATOM    466  CA  SER    63      23.562  -1.301  19.592  1.00  0.55
ATOM    467  C   SER    63      24.060  -1.549  18.206  1.00  0.55
ATOM    468  O   SER    63      23.363  -1.314  17.219  1.00  0.55
ATOM    469  CB  SER    63      23.074  -2.642  20.159  1.00  0.55
ATOM    470  OG  SER    63      22.169  -3.243  19.246  1.00  0.55
ATOM    471  N   PRO    64      25.278  -1.995  18.111  1.00  0.71
ATOM    472  CA  PRO    64      25.856  -2.214  16.818  1.00  0.71
ATOM    473  C   PRO    64      25.167  -3.269  16.019  1.00  0.71
ATOM    474  O   PRO    64      25.046  -3.104  14.804  1.00  0.71
ATOM    475  CB  PRO    64      27.341  -2.464  17.068  1.00  0.71
ATOM    476  CG  PRO    64      27.623  -1.667  18.356  1.00  0.71
ATOM    477  CD  PRO    64      26.281  -1.663  19.110  1.00  0.71
ATOM    478  N   GLN    65      24.700  -4.355  16.661  1.00  0.64
ATOM    479  CA  GLN    65      24.080  -5.386  15.882  1.00  0.64
ATOM    480  C   GLN    65      22.798  -4.890  15.293  1.00  0.64
ATOM    481  O   GLN    65      22.144  -5.604  14.536  1.00  0.64
ATOM    482  CB  GLN    65      23.785  -6.663  16.688  1.00  0.64
ATOM    483  CG  GLN    65      22.829  -6.458  17.864  1.00  0.64
ATOM    484  CD  GLN    65      23.661  -6.046  19.070  1.00  0.64
ATOM    485  OE1 GLN    65      24.863  -5.809  18.959  1.00  0.64
ATOM    486  NE2 GLN    65      23.006  -5.972  20.260  1.00  0.64
ATOM    487  N   MET    66      22.407  -3.643  15.595  1.00  0.48
ATOM    488  CA  MET    66      21.188  -3.142  15.048  1.00  0.48
ATOM    489  C   MET    66      21.380  -2.912  13.582  1.00  0.48
ATOM    490  O   MET    66      20.455  -3.076  12.788  1.00  0.48
ATOM    491  CB  MET    66      20.708  -1.869  15.765  1.00  0.48
ATOM    492  CG  MET    66      20.322  -2.188  17.216  1.00  0.48
ATOM    493  SD  MET    66      19.623  -0.820  18.187  1.00  0.48
ATOM    494  CE  MET    66      19.310  -1.834  19.662  1.00  0.48
ATOM    495  N   TRP    67      22.595  -2.499  13.180  1.00  0.50
ATOM    496  CA  TRP    67      22.828  -2.263  11.788  1.00  0.50
ATOM    497  C   TRP    67      23.724  -3.322  11.232  1.00  0.50
ATOM    498  O   TRP    67      23.526  -3.745  10.092  1.00  0.50
ATOM    499  CB  TRP    67      23.481  -0.919  11.527  1.00  0.50
ATOM    500  CG  TRP    67      24.717  -0.695  12.344  1.00  0.50
ATOM    501  CD1 TRP    67      26.029  -0.962  12.099  1.00  0.50
ATOM    502  CD2 TRP    67      24.647  -0.105  13.644  1.00  0.50
ATOM    503  NE1 TRP    67      26.790  -0.568  13.176  1.00  0.50
ATOM    504  CE2 TRP    67      25.949  -0.041  14.131  1.00  0.50
ATOM    505  CE3 TRP    67      23.580   0.344  14.361  1.00  0.50
ATOM    506  CZ2 TRP    67      26.206   0.485  15.365  1.00  0.50
ATOM    507  CZ3 TRP    67      23.840   0.869  15.604  1.00  0.50
ATOM    508  CH2 TRP    67      25.126   0.935  16.089  1.00  0.50
ATOM    509  N   LEU    68      24.763  -3.754  11.982  1.00  0.43
ATOM    510  CA  LEU    68      25.547  -4.802  11.393  1.00  0.43
ATOM    511  C   LEU    68      25.800  -5.896  12.377  1.00  0.43
ATOM    512  O   LEU    68      26.539  -5.724  13.345  1.00  0.43
ATOM    513  CB  LEU    68      26.935  -4.414  10.880  1.00  0.43
ATOM    514  CG  LEU    68      27.528  -5.547  10.015  1.00  0.43
ATOM    515  CD1 LEU    68      26.573  -5.913   8.868  1.00  0.43
ATOM    516  CD2 LEU    68      28.919  -5.192   9.474  1.00  0.43
ATOM    517  N   ASN    69      25.207  -7.073  12.106  1.00  0.37
ATOM    518  CA  ASN    69      25.359  -8.235  12.932  1.00  0.37
ATOM    519  C   ASN    69      26.773  -8.705  12.842  1.00  0.37
ATOM    520  O   ASN    69      27.362  -9.144  13.829  1.00  0.37
ATOM    521  CB  ASN    69      24.523  -9.431  12.447  1.00  0.37
ATOM    522  CG  ASN    69      23.057  -9.048  12.487  1.00  0.37
ATOM    523  OD1 ASN    69      22.671  -8.120  13.194  1.00  0.37
ATOM    524  ND2 ASN    69      22.216  -9.777  11.705  1.00  0.37
ATOM    525  N   LEU    70      27.356  -8.638  11.632  1.00  0.46
ATOM    526  CA  LEU    70      28.677  -9.144  11.401  1.00  0.46
ATOM    527  C   LEU    70      29.662  -8.412  12.252  1.00  0.46
ATOM    528  O   LEU    70      30.508  -9.036  12.891  1.00  0.46
ATOM    529  CB  LEU    70      29.100  -9.006   9.924  1.00  0.46
ATOM    530  CG  LEU    70      30.576  -9.339   9.605  1.00  0.46
ATOM    531  CD1 LEU    70      31.527  -8.194   9.996  1.00  0.46
ATOM    532  CD2 LEU    70      30.992 -10.683  10.223  1.00  0.46
ATOM    533  N   GLN    71      29.577  -7.070  12.287  1.00  0.42
ATOM    534  CA  GLN    71      30.535  -6.297  13.024  1.00  0.42
ATOM    535  C   GLN    71      30.443  -6.605  14.478  1.00  0.42
ATOM    536  O   GLN    71      31.467  -6.786  15.136  1.00  0.42
ATOM    537  CB  GLN    71      30.316  -4.780  12.921  1.00  0.42
ATOM    538  CG  GLN    71      30.692  -4.165  11.578  1.00  0.42
ATOM    539  CD  GLN    71      30.289  -2.701  11.633  1.00  0.42
ATOM    540  OE1 GLN    71      29.200  -2.362  12.096  1.00  0.42
ATOM    541  NE2 GLN    71      31.196  -1.806  11.163  1.00  0.42
TER
END
