
#######################################################
#                                                     #
#                        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   22 (   88),  selected   22 , name T0363AL381_2-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363AL381_2-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    K      28      N      11           -
LGA    -       -      Q      12           -
LGA    -       -      I      13           -
LGA    -       -      N      14           -
LGA    -       -      I      15           -
LGA    -       -      E      16           -
LGA    -       -      I      17           -
LGA    -       -      A      18           -
LGA    -       -      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    S      29      Y      25          3.139
LGA    F      30      Y      26          2.658
LGA    Q      31      L      27          2.313
LGA    V      32      K      28          0.702
LGA    D      33      S      29          2.593
LGA    E      34      F      30          1.156
LGA    -       -      Q      31           -
LGA    G      35      V      32          4.077
LGA    -       -      D      33           -
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    -       -      I      36           -
LGA    -       -      T      37           -
LGA    -       -      V      38           -
LGA    -       -      Q      39           -
LGA    I      36      T      40           #
LGA    T      37      A      41          2.189
LGA    V      38      I      42          2.199
LGA    Q      39      T      43          3.221
LGA    -       -      Q      44           -
LGA    -       -      S      45           -
LGA    T      40      G      46          3.134
LGA    A      41      I      47          1.620
LGA    I      42      L      48          2.632
LGA    T      43      S      49          2.424
LGA    Q      44      Q      50          1.210
LGA    S      45      F      51          1.088
LGA    G      46      P      52          2.839
LGA    I      47      E      53          4.604
LGA    L      48      I      54          5.265
LGA    S      49      D      55          1.743
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   22   46    5.0     20    2.79     5.00     30.507     0.693

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.541185 * X  +   0.183815 * Y  +  -0.820567 * Z  +  26.097979
  Y_new =   0.621672 * X  +   0.744559 * Y  +  -0.243220 * Z  +  15.229448
  Z_new =   0.566253 * X  +  -0.641751 * Y  +  -0.517217 * Z  +  -3.786922 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.249153    0.892439  [ DEG:  -128.8670     51.1330 ]
  Theta =  -0.601952   -2.539640  [ DEG:   -34.4893   -145.5107 ]
  Phi   =   2.287090   -0.854502  [ DEG:   131.0406    -48.9594 ]
 
# 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: T0363AL381_2-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL381_2-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   22   46   5.0   20   2.79    5.00  30.507
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL381_2-D1
REMARK Aligment from pdb entry: 1rwsA
ATOM      1  N   LYS    28      27.877  26.481  -3.192  1.00  0.00              
ATOM      2  CA  LYS    28      27.673  25.664  -4.413  1.00  0.00              
ATOM      3  C   LYS    28      26.628  24.606  -4.045  1.00  0.00              
ATOM      4  O   LYS    28      26.978  23.666  -3.359  1.00  0.00              
ATOM      5  N   SER    29      25.355  24.810  -4.253  1.00  0.00              
ATOM      6  CA  SER    29      24.386  23.830  -3.656  1.00  0.00              
ATOM      7  C   SER    29      24.954  22.412  -3.766  1.00  0.00              
ATOM      8  O   SER    29      26.003  22.201  -4.341  1.00  0.00              
ATOM      9  N   PHE    30      24.362  21.447  -3.089  1.00  0.00              
ATOM     10  CA  PHE    30      25.086  20.125  -2.995  1.00  0.00              
ATOM     11  C   PHE    30      24.127  18.970  -2.626  1.00  0.00              
ATOM     12  O   PHE    30      23.524  19.063  -1.576  1.00  0.00              
ATOM     13  N   GLN    31      23.842  17.938  -3.399  1.00  0.00              
ATOM     14  CA  GLN    31      22.805  16.930  -2.989  1.00  0.00              
ATOM     15  C   GLN    31      23.158  16.361  -1.605  1.00  0.00              
ATOM     16  O   GLN    31      23.549  17.075  -0.703  1.00  0.00              
ATOM     17  N   VAL    32      23.018  15.074  -1.440  1.00  0.00              
ATOM     18  CA  VAL    32      23.327  14.401  -0.140  1.00  0.00              
ATOM     19  C   VAL    32      23.035  12.912  -0.373  1.00  0.00              
ATOM     20  O   VAL    32      23.022  12.504  -1.518  1.00  0.00              
ATOM     21  N   ASP    33      23.017  12.029   0.602  1.00  0.00              
ATOM     22  CA  ASP    33      23.032  10.598   0.156  1.00  0.00              
ATOM     23  C   ASP    33      22.560   9.563   1.205  1.00  0.00              
ATOM     24  O   ASP    33      21.411   9.619   1.600  1.00  0.00              
ATOM     25  N   GLU    34      23.333   8.573   1.641  1.00  0.00              
ATOM     26  CA  GLU    34      22.734   7.573   2.587  1.00  0.00              
ATOM     27  C   GLU    34      23.803   6.553   3.021  1.00  0.00              
ATOM     28  O   GLU    34      24.316   5.798   2.220  1.00  0.00              
ATOM     29  N   GLY    35      24.177   6.569   4.281  1.00  0.00              
ATOM     30  CA  GLY    35      25.255   5.643   4.758  1.00  0.00              
ATOM     31  C   GLY    35      26.556   6.429   4.998  1.00  0.00              
ATOM     32  O   GLY    35      27.406   6.050   5.780  1.00  0.00              
ATOM     33  N   ILE    36      26.701   7.507   4.288  1.00  0.00              
ATOM     34  CA  ILE    36      27.951   8.348   4.411  1.00  0.00              
ATOM     35  C   ILE    36      27.755   9.159   5.688  1.00  0.00              
ATOM     36  O   ILE    36      27.172   8.743   6.671  1.00  0.00              
ATOM     37  N   THR    37      28.680  10.022   5.739  1.00  0.00              
ATOM     38  CA  THR    37      29.155  10.730   6.949  1.00  0.00              
ATOM     39  C   THR    37      29.595  12.167   6.596  1.00  0.00              
ATOM     40  O   THR    37      30.134  12.375   5.528  1.00  0.00              
ATOM     41  N   VAL    38      29.684  13.074   7.553  1.00  0.00              
ATOM     42  CA  VAL    38      30.483  14.325   7.330  1.00  0.00              
ATOM     43  C   VAL    38      31.846  13.993   6.733  1.00  0.00              
ATOM     44  O   VAL    38      32.242  14.542   5.724  1.00  0.00              
ATOM     45  N   GLN    39      32.636  13.246   7.454  1.00  0.00              
ATOM     46  CA  GLN    39      34.049  13.041   7.060  1.00  0.00              
ATOM     47  C   GLN    39      34.123  12.862   5.546  1.00  0.00              
ATOM     48  O   GLN    39      34.685  13.674   4.838  1.00  0.00              
ATOM     49  N   THR    40      33.512  11.824   5.040  1.00  0.00              
ATOM     50  CA  THR    40      33.522  11.659   3.542  1.00  0.00              
ATOM     51  C   THR    40      33.272  12.991   2.830  1.00  0.00              
ATOM     52  O   THR    40      34.112  13.433   2.072  1.00  0.00              
ATOM     53  N   ALA    41      32.117  13.592   2.937  1.00  0.00              
ATOM     54  CA  ALA    41      31.896  14.816   2.109  1.00  0.00              
ATOM     55  C   ALA    41      33.175  15.659   2.153  1.00  0.00              
ATOM     56  O   ALA    41      33.638  16.190   1.162  1.00  0.00              
ATOM     57  N   ILE    42      33.769  15.697   3.297  1.00  0.00              
ATOM     58  CA  ILE    42      35.070  16.409   3.481  1.00  0.00              
ATOM     59  C   ILE    42      36.160  15.651   2.714  1.00  0.00              
ATOM     60  O   ILE    42      36.968  16.234   2.019  1.00  0.00              
ATOM     61  N   THR    43      36.055  14.354   2.694  1.00  0.00              
ATOM     62  CA  THR    43      36.935  13.525   1.815  1.00  0.00              
ATOM     63  C   THR    43      36.799  13.970   0.357  1.00  0.00              
ATOM     64  O   THR    43      37.754  13.929  -0.393  1.00  0.00              
ATOM     65  N   GLN    44      35.643  14.420  -0.061  1.00  0.00              
ATOM     66  CA  GLN    44      35.539  14.882  -1.495  1.00  0.00              
ATOM     67  C   GLN    44      36.478  16.080  -1.653  1.00  0.00              
ATOM     68  O   GLN    44      36.922  16.426  -2.729  1.00  0.00              
ATOM     69  N   SER    45      36.883  16.590  -0.536  1.00  0.00              
ATOM     70  CA  SER    45      37.921  17.649  -0.574  1.00  0.00              
ATOM     71  C   SER    45      39.281  16.954  -0.516  1.00  0.00              
ATOM     72  O   SER    45      40.312  17.592  -0.602  1.00  0.00              
ATOM     73  N   GLY    46      39.301  15.681  -0.210  1.00  0.00              
ATOM     74  CA  GLY    46      40.604  15.011   0.035  1.00  0.00              
ATOM     75  C   GLY    46      41.033  15.494   1.413  1.00  0.00              
ATOM     76  O   GLY    46      42.192  15.748   1.676  1.00  0.00              
ATOM     77  N   ILE    47      40.050  15.798   2.226  1.00  0.00              
ATOM     78  CA  ILE    47      40.292  16.471   3.539  1.00  0.00              
ATOM     79  C   ILE    47      39.169  16.028   4.496  1.00  0.00              
ATOM     80  O   ILE    47      38.170  16.710   4.598  1.00  0.00              
ATOM     81  N   LEU    48      39.418  15.106   5.386  1.00  0.00              
ATOM     82  CA  LEU    48      38.504  14.969   6.565  1.00  0.00              
ATOM     83  C   LEU    48      38.534  16.282   7.358  1.00  0.00              
ATOM     84  O   LEU    48      38.858  16.316   8.529  1.00  0.00              
ATOM     85  N   SER    49      38.415  17.368   6.646  1.00  0.00              
ATOM     86  CA  SER    49      38.680  18.694   7.304  1.00  0.00              
ATOM     87  C   SER    49      40.041  18.645   8.002  1.00  0.00              
ATOM     88  O   SER    49      40.053  18.368   9.186  1.00  0.00              
END
