
#######################################################
#                                                     #
#                        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   27 (  108),  selected   27 , name T0363TS383_5-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS383_5-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N      11           -
LGA    -       -      Q      12           -
LGA    N      14      I      13          1.636
LGA    I      15      N      14          1.961
LGA    E      16      I      15          2.453
LGA    I      17      E      16          2.119
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    -       -      Y      25           -
LGA    -       -      Y      26           -
LGA    P      22      L      27          3.784
LGA    E      23      K      28          4.758
LGA    K      28      S      29          2.831
LGA    S      29      F      30          4.515
LGA    F      30      Q      31          0.701
LGA    Q      31      V      32          2.023
LGA    V      32      D      33          3.817
LGA    D      33      E      34          1.924
LGA    G      35      G      35          0.690
LGA    I      36      I      36          0.819
LGA    T      37      T      37          0.939
LGA    V      38      V      38          1.288
LGA    Q      39      Q      39          0.887
LGA    T      40      T      40          0.990
LGA    A      41      A      41          1.300
LGA    I      42      I      42          1.292
LGA    T      43      T      43          1.184
LGA    Q      44      Q      44          0.916
LGA    S      45      S      45          1.860
LGA    E      53      G      46          2.803
LGA    I      54      I      47          2.893
LGA    D      55      L      48          2.900
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    L      56      I      54          3.256
LGA    -       -      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   27   46    5.0     27    2.40    44.44     44.955     1.082

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.389162 * X  +  -0.047674 * Y  +  -0.919935 * Z  +  47.984070
  Y_new =   0.822873 * X  +   0.430884 * Y  +  -0.370431 * Z  +  -9.361532
  Z_new =   0.414046 * X  +  -0.901147 * Y  +  -0.128454 * Z  +  21.696537 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.712387    1.429205  [ DEG:   -98.1126     81.8874 ]
  Theta =  -0.426894   -2.714698  [ DEG:   -24.4592   -155.5408 ]
  Phi   =   2.012555   -1.129038  [ DEG:   115.3109    -64.6891 ]
 
# 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: T0363TS383_5-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS383_5-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   27   46   5.0   27   2.40   44.44  44.955
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS383_5-D1
PFRMAT TS
TARGET T0363
MODEL 5
PARENT 2cu3A
ATOM      1  N   ASN    14      14.598   6.032   7.912  1.00  0.00
ATOM      2  CA  ASN    14      15.882   6.312   7.214  1.00  0.00
ATOM      3  C   ASN    14      16.368   7.710   7.591  1.00  0.00
ATOM      4  O   ASN    14      15.620   8.519   8.146  1.00  0.00
ATOM      5  N   ILE    15      17.636   7.974   7.306  1.00  0.00
ATOM      6  CA  ILE    15      18.243   9.275   7.560  1.00  0.00
ATOM      7  C   ILE    15      18.459   9.841   6.167  1.00  0.00
ATOM      8  O   ILE    15      18.870   9.112   5.264  1.00  0.00
ATOM      9  N   GLU    16      18.165  11.123   5.975  1.00  0.00
ATOM     10  CA  GLU    16      18.343  11.725   4.660  1.00  0.00
ATOM     11  C   GLU    16      19.677  12.430   4.551  1.00  0.00
ATOM     12  O   GLU    16      19.970  13.368   5.294  1.00  0.00
ATOM     13  N   ILE    17      20.492  11.943   3.625  1.00  0.00
ATOM     14  CA  ILE    17      21.840  12.456   3.384  1.00  0.00
ATOM     15  C   ILE    17      21.985  13.051   1.972  1.00  0.00
ATOM     16  O   ILE    17      21.961  12.370   0.957  1.00  0.00
ATOM     17  N   PRO    22      22.091  14.393   1.932  1.00  0.00
ATOM     18  CA  PRO    22      22.192  15.073   0.641  1.00  0.00
ATOM     19  C   PRO    22      21.034  14.718  -0.302  1.00  0.00
ATOM     20  O   PRO    22      21.200  14.566  -1.503  1.00  0.00
ATOM     21  N   GLU    23      19.838  14.538   0.292  1.00  0.00
ATOM     22  CA  GLU    23      18.649  14.366  -0.539  1.00  0.00
ATOM     23  C   GLU    23      18.316  12.893  -0.824  1.00  0.00
ATOM     24  O   GLU    23      17.382  12.571  -1.547  1.00  0.00
ATOM     25  N   LYS    28      19.137  11.980  -0.263  1.00  0.00
ATOM     26  CA  LYS    28      18.865  10.559  -0.442  1.00  0.00
ATOM     27  C   LYS    28      18.689   9.843   0.899  1.00  0.00
ATOM     28  O   LYS    28      19.330  10.151   1.896  1.00  0.00
ATOM     29  N   SER    29      17.746   8.882   0.910  1.00  0.00
ATOM     30  CA  SER    29      17.480   8.086   2.098  1.00  0.00
ATOM     31  C   SER    29      18.585   7.054   2.339  1.00  0.00
ATOM     32  O   SER    29      18.954   6.277   1.468  1.00  0.00
ATOM     33  N   PHE    30      19.146   7.095   3.560  1.00  0.00
ATOM     34  CA  PHE    30      20.215   6.160   3.890  1.00  0.00
ATOM     35  C   PHE    30      20.078   5.621   5.315  1.00  0.00
ATOM     36  O   PHE    30      19.746   6.331   6.255  1.00  0.00
ATOM     37  N   GLN    31      20.313   4.302   5.451  1.00  0.00
ATOM     38  CA  GLN    31      20.228   3.637   6.745  1.00  0.00
ATOM     39  C   GLN    31      21.395   4.035   7.648  1.00  0.00
ATOM     40  O   GLN    31      22.376   3.319   7.803  1.00  0.00
ATOM     41  N   VAL    32      21.279   5.242   8.230  1.00  0.00
ATOM     42  CA  VAL    32      22.399   5.788   8.986  1.00  0.00
ATOM     43  C   VAL    32      22.103   5.880  10.486  1.00  0.00
ATOM     44  O   VAL    32      22.938   6.274  11.289  1.00  0.00
ATOM     45  N   ASP    33      20.854   5.534  10.851  1.00  0.00
ATOM     46  CA  ASP    33      20.477   5.614  12.259  1.00  0.00
ATOM     47  C   ASP    33      21.493   4.906  13.156  1.00  0.00
ATOM     48  O   ASP    33      21.947   3.803  12.877  1.00  0.00
ATOM     49  N   GLY    35      21.860   5.557  14.256  1.00  0.00
ATOM     50  CA  GLY    35      22.808   4.971  15.184  1.00  0.00
ATOM     51  C   GLY    35      24.245   5.401  14.969  1.00  0.00
ATOM     52  O   GLY    35      25.058   5.337  15.894  1.00  0.00
ATOM     53  N   ILE    36      24.563   5.828  13.749  1.00  0.00
ATOM     54  CA  ILE    36      25.911   6.276  13.414  1.00  0.00
ATOM     55  C   ILE    36      26.066   7.755  13.747  1.00  0.00
ATOM     56  O   ILE    36      25.084   8.495  13.779  1.00  0.00
ATOM     57  N   THR    37      27.296   8.180  14.007  1.00  0.00
ATOM     58  CA  THR    37      27.566   9.584  14.302  1.00  0.00
ATOM     59  C   THR    37      27.966  10.269  13.003  1.00  0.00
ATOM     60  O   THR    37      28.374   9.610  12.045  1.00  0.00
ATOM     61  N   VAL    38      27.858  11.593  12.972  1.00  0.00
ATOM     62  CA  VAL    38      28.228  12.344  11.780  1.00  0.00
ATOM     63  C   VAL    38      29.688  12.106  11.393  1.00  0.00
ATOM     64  O   VAL    38      30.003  11.962  10.214  1.00  0.00
ATOM     65  N   GLN    39      30.576  12.056  12.380  1.00  0.00
ATOM     66  CA  GLN    39      31.988  11.815  12.089  1.00  0.00
ATOM     67  C   GLN    39      32.162  10.489  11.365  1.00  0.00
ATOM     68  O   GLN    39      32.914  10.393  10.399  1.00  0.00
ATOM     69  N   THR    40      31.472   9.463  11.848  1.00  0.00
ATOM     70  CA  THR    40      31.556   8.146  11.237  1.00  0.00
ATOM     71  C   THR    40      31.057   8.229   9.803  1.00  0.00
ATOM     72  O   THR    40      31.687   7.706   8.889  1.00  0.00
ATOM     73  N   ALA    41      29.927   8.903   9.608  1.00  0.00
ATOM     74  CA  ALA    41      29.356   9.052   8.277  1.00  0.00
ATOM     75  C   ALA    41      30.289   9.812   7.338  1.00  0.00
ATOM     76  O   ALA    41      30.481   9.412   6.186  1.00  0.00
ATOM     77  N   ILE    42      30.872  10.903   7.828  1.00  0.00
ATOM     78  CA  ILE    42      31.772  11.707   7.005  1.00  0.00
ATOM     79  C   ILE    42      33.008  10.920   6.569  1.00  0.00
ATOM     80  O   ILE    42      33.500  11.092   5.449  1.00  0.00
ATOM     81  N   THR    43      33.507  10.059   7.450  1.00  0.00
ATOM     82  CA  THR    43      34.679   9.256   7.124  1.00  0.00
ATOM     83  C   THR    43      34.318   8.225   6.064  1.00  0.00
ATOM     84  O   THR    43      35.131   7.909   5.200  1.00  0.00
ATOM     85  N   GLN    44      33.093   7.711   6.127  1.00  0.00
ATOM     86  CA  GLN    44      32.639   6.716   5.162  1.00  0.00
ATOM     87  C   GLN    44      32.384   7.356   3.803  1.00  0.00
ATOM     88  O   GLN    44      32.284   6.660   2.796  1.00  0.00
ATOM     89  N   SER    45      32.277   8.684   3.788  1.00  0.00
ATOM     90  CA  SER    45      32.044   9.444   2.562  1.00  0.00
ATOM     91  C   SER    45      33.379   9.899   1.964  1.00  0.00
ATOM     92  O   SER    45      33.429  10.348   0.823  1.00  0.00
ATOM     93  N   GLU    53      34.449   9.795   2.749  1.00  0.00
ATOM     94  CA  GLU    53      35.759  10.217   2.278  1.00  0.00
ATOM     95  C   GLU    53      35.844  11.733   2.244  1.00  0.00
ATOM     96  O   GLU    53      36.613  12.310   1.484  1.00  0.00
ATOM     97  N   ILE    54      35.041  12.379   3.081  1.00  0.00
ATOM     98  CA  ILE    54      34.997  13.833   3.152  1.00  0.00
ATOM     99  C   ILE    54      36.151  14.477   3.921  1.00  0.00
ATOM    100  O   ILE    54      36.645  13.927   4.898  1.00  0.00
ATOM    101  N   ASP    55      36.581  15.640   3.443  1.00  0.00
ATOM    102  CA  ASP    55      37.642  16.413   4.075  1.00  0.00
ATOM    103  C   ASP    55      36.908  17.288   5.088  1.00  0.00
ATOM    104  O   ASP    55      36.236  18.246   4.711  1.00  0.00
ATOM    105  N   LEU    56      37.027  16.953   6.367  1.00  0.00
ATOM    106  CA  LEU    56      36.331  17.690   7.418  1.00  0.00
ATOM    107  C   LEU    56      36.569  19.191   7.427  1.00  0.00
ATOM    108  O   LEU    56      35.624  19.960   7.572  1.00  0.00
TER
END
