
#######################################################
#                                                     #
#                        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   49 (   49),  selected   49 , name T0372TS464_4_1-D1
# Molecule2: number of CA atoms  126 ( 1027),  selected  126 , name T0372_D1.pdb
# PARAMETERS: T0372TS464_4_1-D1.T0372_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      I       2           -
LGA    -       -      P       3           -
LGA    -       -      F       4           -
LGA    -       -      K       5           -
LGA    -       -      D       6           -
LGA    -       -      I       7           -
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    -       -      A      10           -
LGA    -       -      D      11           -
LGA    -       -      R      12           -
LGA    -       -      D      13           -
LGA    -       -      T      14           -
LGA    -       -      I      15           -
LGA    -       -      T      16           -
LGA    -       -      A      17           -
LGA    -       -      F      18           -
LGA    -       -      T      19           -
LGA    -       -      M      20           -
LGA    -       -      K      21           -
LGA    -       -      S      22           -
LGA    -       -      D      23           -
LGA    -       -      R      24           -
LGA    -       -      R      25           -
LGA    -       -      N      26           -
LGA    -       -      C      27           -
LGA    -       -      D      28           -
LGA    -       -      L      29           -
LGA    -       -      S      30           -
LGA    -       -      F      31           -
LGA    -       -      S      32           -
LGA    -       -      N      33           -
LGA    -       -      L      34           -
LGA    -       -      C      35           -
LGA    -       -      S      36           -
LGA    -       -      W      37           -
LGA    -       -      R      38           -
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    -       -      Y      41           -
LGA    -       -      D      42           -
LGA    -       -      T      43           -
LGA    -       -      Q      44           -
LGA    -       -      F      45           -
LGA    -       -      A      46           -
LGA    -       -      V      47           -
LGA    -       -      I      48           -
LGA    -       -      D      49           -
LGA    -       -      D      50           -
LGA    D      42      F      51           #
LGA    T      43      L      52          3.007
LGA    Q      44      V      53          3.635
LGA    F      45      F      54          1.987
LGA    A      46      K      55          3.931
LGA    V      47      F      56          2.034
LGA    I      48      W      57          2.504
LGA    D      49      A      58          3.532
LGA    -       -      G      59           -
LGA    D      50      E      60          1.109
LGA    F      51      Q      61          1.396
LGA    L      52      L      62          2.311
LGA    V      53      A      63          2.353
LGA    F      54      Y      64          1.717
LGA    K      55      M      65          1.798
LGA    F      56      M      66          1.932
LGA    -       -      P      67           -
LGA    W      57      V      68          4.575
LGA    A      63      -       -           -
LGA    Y      64      -       -           -
LGA    M      65      -       -           -
LGA    M      66      -       -           -
LGA    P      67      G      69          6.404
LGA    V      68      N      70          5.450
LGA    -       -      G      71           -
LGA    G      69      D      72          2.621
LGA    N      70      L      73          1.996
LGA    -       -      K      74           -
LGA    G      71      A      75          1.292
LGA    D      72      V      76          1.976
LGA    L      73      L      77          2.552
LGA    K      74      R      78          2.024
LGA    A      75      K      79          1.546
LGA    V      76      L      80          1.169
LGA    L      77      I      81          1.910
LGA    R      78      E      82          2.794
LGA    K      79      D      83          2.721
LGA    L      80      A      84          1.406
LGA    I      81      D      85          1.415
LGA    E      82      K      86          2.060
LGA    D      83      E      87          1.967
LGA    A      84      K      88          1.795
LGA    D      85      -       -           -
LGA    K      86      -       -           -
LGA    E      87      -       -           -
LGA    K      88      -       -           -
LGA    H      89      H      89          2.955
LGA    N      90      N      90          3.356
LGA    F      91      F      91          3.248
LGA    C      92      C      92          1.550
LGA    M      93      M      93          2.647
LGA    K     290      L      94           -
LGA    Y     291      G      95           -
LGA    -       -      V      96           -
LGA    -       -      C      97           -
LGA    -       -      S      98           -
LGA    -       -      N      99           -
LGA    -       -      M     100           -
LGA    -       -      R     101           -
LGA    -       -      A     102           -
LGA    -       -      D     103           -
LGA    -       -      L     104           -
LGA    -       -      E     105           -
LGA    -       -      A     106           -
LGA    -       -      I     107           -
LGA    -       -      L     108           -
LGA    -       -      P     109           -
LGA    -       -      E     110           -
LGA    -       -      R     111           -
LGA    -       -      F     112           -
LGA    -       -      I     113           -
LGA    -       -      F     114           -
LGA    -       -      T     115           -
LGA    -       -      E     116           -
LGA    -       -      D     117           -
LGA    -       -      K     290           -
LGA    -       -      Y     291           -
LGA    -       -      M     292           -
LGA    -       -      A     293           -
LGA    -       -      C     294           -
LGA    -       -      L     295           -
LGA    -       -      K     296           -
LGA    -       -      D     297           -
LGA    -       -      H     298           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   49  126    5.0     38    2.74    21.05     20.465     1.339

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.207330 * X  +  -0.042364 * Y  +   0.977353 * Z  + -12.436255
  Y_new =  -0.084390 * X  +  -0.996112 * Y  +  -0.025275 * Z  + 102.737343
  Z_new =   0.974624 * X  +  -0.077239 * Y  +  -0.210099 * Z  + -105.968422 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.789297    0.352296  [ DEG:  -159.8149     20.1851 ]
  Theta =  -1.345037   -1.796556  [ DEG:   -77.0649   -102.9351 ]
  Phi   =  -0.386556    2.755036  [ DEG:   -22.1480    157.8520 ]
 
# 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: T0372TS464_4_1-D1                             
REMARK     2: T0372_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS464_4_1-D1.T0372_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   49  126   5.0   38   2.74   21.05  20.465
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS464_4_1-D1
REMARK PARENT number 1
PFRMAT TS
TARGET T0372
PARENT N/A
ATOM      1  CA  ASP    42      36.826  56.441   0.210  1.00  0.00
ATOM      2  CA  THR    43      37.778  56.270   3.771  1.00  0.00
ATOM      3  CA  GLN    44      39.119  52.631   3.731  1.00  0.00
ATOM      4  CA  PHE    45      39.782  49.989   1.141  1.00  0.00
ATOM      5  CA  ALA    46      40.179  46.156   1.865  1.00  0.00
ATOM      6  CA  VAL    47      41.550  43.881  -0.751  1.00  0.00
ATOM      7  CA  ILE    48      39.964  40.532   0.162  1.00  0.00
ATOM      8  CA  ASP    49      40.333  37.411  -1.945  1.00  0.00
ATOM      9  CA  ASP    50      37.945  37.944  -4.816  1.00  0.00
ATOM     10  CA  PHE    51      36.327  41.269  -3.721  1.00  0.00
ATOM     11  CA  LEU    52      37.446  44.700  -2.779  1.00  0.00
ATOM     12  CA  VAL    53      35.368  46.220  -0.064  1.00  0.00
ATOM     13  CA  PHE    54      35.332  50.038   0.410  1.00  0.00
ATOM     14  CA  LYS    55      33.884  52.223   3.098  1.00  0.00
ATOM     15  CA  PHE    56      32.515  55.382   1.275  1.00  0.00
ATOM     16  CA  TRP    57      31.347  58.527   2.946  1.00  0.00
ATOM     17  CA  ALA    63      45.821  56.553  -5.919  1.00  0.00
ATOM     18  CA  TYR    64      45.305  58.380  -2.639  1.00  0.00
ATOM     19  CA  MET    65      42.188  60.551  -2.347  1.00  0.00
ATOM     20  CA  MET    66      42.089  63.424   0.135  1.00  0.00
ATOM     21  CA  PRO    67      38.443  64.300   0.792  1.00  0.00
ATOM     22  CA  VAL    68      35.447  61.980   0.823  1.00  0.00
ATOM     23  CA  GLY    69      32.753  64.125  -0.768  1.00  0.00
ATOM     24  CA  ASN    70      30.820  63.220  -3.909  1.00  0.00
ATOM     25  CA  GLY    71      33.603  64.256  -6.309  1.00  0.00
ATOM     26  CA  ASP    72      36.071  62.328  -4.170  1.00  0.00
ATOM     27  CA  LEU    73      33.890  59.202  -3.891  1.00  0.00
ATOM     28  CA  LYS    74      32.764  59.066  -7.619  1.00  0.00
ATOM     29  CA  ALA    75      36.382  59.410  -8.413  1.00  0.00
ATOM     30  CA  VAL    76      36.189  55.868  -7.065  1.00  0.00
ATOM     31  CA  LEU    77      33.381  54.979  -9.519  1.00  0.00
ATOM     32  CA  ARG    78      35.445  56.334 -12.437  1.00  0.00
ATOM     33  CA  LYS    79      38.392  54.089 -11.562  1.00  0.00
ATOM     34  CA  LEU    80      37.426  50.812  -9.502  1.00  0.00
ATOM     35  CA  ILE    81      36.584  50.777 -13.246  1.00  0.00
ATOM     36  CA  GLU    82      40.245  51.446 -14.158  1.00  0.00
ATOM     37  CA  ASP    83      41.464  48.475 -12.106  1.00  0.00
ATOM     38  CA  ALA    84      38.862  45.786 -12.556  1.00  0.00
ATOM     39  CA  ASP    85      37.295  46.444 -15.925  1.00  0.00
ATOM     40  CA  LYS    86      39.438  46.548 -18.852  1.00  0.00
ATOM     41  CA  GLU    87      39.979  43.391 -16.813  1.00  0.00
ATOM     42  CA  LYS    88      36.421  42.022 -16.766  1.00  0.00
ATOM     43  CA  HIS    89      36.839  42.170 -13.026  1.00  0.00
ATOM     44  CA  ASN    90      34.040  42.887 -10.487  1.00  0.00
ATOM     45  CA  PHE    91      34.403  45.926  -8.245  1.00  0.00
ATOM     46  CA  CYS    92      32.706  46.733  -4.959  1.00  0.00
ATOM     47  CA  MET    93      32.164  50.239  -3.603  1.00  0.00
ATOM    112  CA  LYS   290      39.161  64.243   8.222  1.00  0.00
ATOM    113  CA  TYR   291      35.628  64.056   9.574  1.00  0.00
TER
END
