
#######################################################
#                                                     #
#                        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   12 (   98),  selected   12 , name T0363TS186_4-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS186_4-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    -       -      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    -       -      Y      25           -
LGA    -       -      Y      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      S      29           -
LGA    -       -      F      30           -
LGA    -       -      Q      31           -
LGA    -       -      V      32           -
LGA    -       -      D      33           -
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    -       -      I      36           -
LGA    V      38      T      37          1.517
LGA    Q      39      V      38          0.955
LGA    I      47      Q      39          1.137
LGA    L      48      T      40          1.450
LGA    S      49      A      41          0.720
LGA    Q      50      I      42          1.083
LGA    F      51      T      43          1.619
LGA    P      52      Q      44          0.705
LGA    E      53      S      45          0.814
LGA    I      54      G      46          2.734
LGA    D      55      I      47          2.368
LGA    -       -      L      48           -
LGA    L      56      S      49          3.483
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   12   46    5.0     12    1.76     0.00     24.800     0.644

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.140922 * X  +  -0.910585 * Y  +   0.388557 * Z  +  94.823677
  Y_new =  -0.525482 * X  +   0.401422 * Y  +   0.750152 * Z  +  39.978718
  Z_new =  -0.839053 * X  +  -0.098467 * Y  +  -0.535065 * Z  + 151.911102 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.959601    0.181992  [ DEG:  -169.5726     10.4274 ]
  Theta =   0.995540    2.146053  [ DEG:    57.0402    122.9598 ]
  Phi   =  -1.832808    1.308785  [ DEG:  -105.0121     74.9879 ]
 
# 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: T0363TS186_4-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS186_4-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   12   46   5.0   12   1.76    0.00  24.800
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS186_4-D1
PFRMAT TS
TARGET T0363
MODEL  4
PARENT 1vqy_B
ATOM      1  N   VAL    38      28.598   9.272  15.313  1.00  0.00
ATOM      2  CA  VAL    38      28.030   8.578  14.157  1.00  0.00
ATOM      3  C   VAL    38      27.739   9.525  13.001  1.00  0.00
ATOM      4  O   VAL    38      27.808   9.124  11.841  1.00  0.00
ATOM      5  CB  VAL    38      26.702   7.884  14.512  1.00  0.00
ATOM      6  CG1 VAL    38      26.033   7.340  13.260  1.00  0.00
ATOM      7  CG2 VAL    38      26.945   6.727  15.469  1.00  0.00
ATOM      8  N   GLN    39      27.414  10.769  13.315  1.00  0.00
ATOM      9  CA  GLN    39      27.204  11.795  12.285  1.00  0.00
ATOM     10  C   GLN    39      28.542  12.176  11.627  1.00  0.00
ATOM     11  O   GLN    39      28.647  12.234  10.401  1.00  0.00
ATOM     12  CB  GLN    39      26.590  13.054  12.900  1.00  0.00
ATOM     13  CG  GLN    39      25.151  12.882  13.357  1.00  0.00
ATOM     14  CD  GLN    39      24.625  14.099  14.092  1.00  0.00
ATOM     15  OE1 GLN    39      25.366  15.045  14.359  1.00  0.00
ATOM     16  NE2 GLN    39      23.338  14.079  14.422  1.00  0.00
ATOM     17  N   ILE    47      29.561  12.418  12.453  1.00  0.00
ATOM     18  CA  ILE    47      30.929  12.647  11.973  1.00  0.00
ATOM     19  C   ILE    47      31.366  11.531  11.029  1.00  0.00
ATOM     20  O   ILE    47      31.772  11.788   9.905  1.00  0.00
ATOM     21  CB  ILE    47      31.935  12.696  13.138  1.00  0.00
ATOM     22  CG1 ILE    47      31.674  13.920  14.017  1.00  0.00
ATOM     23  CG2 ILE    47      33.359  12.777  12.609  1.00  0.00
ATOM     24  CD1 ILE    47      32.422  13.901  15.331  1.00  0.00
ATOM     25  N   LEU    48      31.278  10.295  11.516  1.00  0.00
ATOM     26  CA  LEU    48      31.652   9.120  10.755  1.00  0.00
ATOM     27  C   LEU    48      30.901   8.953   9.445  1.00  0.00
ATOM     28  O   LEU    48      31.486   8.548   8.434  1.00  0.00
ATOM     29  CB  LEU    48      31.445   7.875  11.613  1.00  0.00
ATOM     30  CG  LEU    48      32.489   7.665  12.702  1.00  0.00
ATOM     31  CD1 LEU    48      32.143   6.382  13.463  1.00  0.00
ATOM     32  CD2 LEU    48      33.947   7.640  12.130  1.00  0.00
ATOM     33  N   SER    49      29.605   9.256   9.476  1.00  0.00
ATOM     34  CA  SER    49      28.735   9.078   8.329  1.00  0.00
ATOM     35  C   SER    49      29.110  10.051   7.225  1.00  0.00
ATOM     36  O   SER    49      29.155   9.681   6.051  1.00  0.00
ATOM     37  CB  SER    49      27.277   9.325   8.718  1.00  0.00
ATOM     38  OG  SER    49      26.819   8.343   9.630  1.00  0.00
ATOM     39  N   GLN    50      29.344  11.297   7.599  1.00  0.00
ATOM     40  CA  GLN    50      29.832  12.285   6.644  1.00  0.00
ATOM     41  C   GLN    50      31.135  11.862   5.970  1.00  0.00
ATOM     42  O   GLN    50      31.275  11.985   4.754  1.00  0.00
ATOM     43  CB  GLN    50      30.094  13.621   7.343  1.00  0.00
ATOM     44  CG  GLN    50      28.836  14.349   7.784  1.00  0.00
ATOM     45  CD  GLN    50      29.137  15.609   8.572  1.00  0.00
ATOM     46  OE1 GLN    50      30.294  15.903   8.871  1.00  0.00
ATOM     47  NE2 GLN    50      28.094  16.358   8.908  1.00  0.00
ATOM     48  N   PHE    51      32.075  11.350   6.749  1.00  0.00
ATOM     49  CA  PHE    51      33.357  10.981   6.189  1.00  0.00
ATOM     50  C   PHE    51      33.185   9.731   5.313  1.00  0.00
ATOM     51  O   PHE    51      33.597   9.730   4.146  1.00  0.00
ATOM     52  CB  PHE    51      34.361  10.677   7.303  1.00  0.00
ATOM     53  CG  PHE    51      34.937  11.904   7.951  1.00  0.00
ATOM     54  CD1 PHE    51      34.430  12.374   9.150  1.00  0.00
ATOM     55  CD2 PHE    51      35.987  12.588   7.362  1.00  0.00
ATOM     56  CE1 PHE    51      34.959  13.503   9.746  1.00  0.00
ATOM     57  CE2 PHE    51      36.517  13.716   7.959  1.00  0.00
ATOM     58  CZ  PHE    51      36.008  14.174   9.146  1.00  0.00
ATOM     59  N   PRO    52      32.539   8.699   5.853  1.00  0.00
ATOM     60  CA  PRO    52      32.243   7.462   5.099  1.00  0.00
ATOM     61  C   PRO    52      31.621   7.737   3.727  1.00  0.00
ATOM     62  O   PRO    52      32.130   7.288   2.692  1.00  0.00
ATOM     63  CB  PRO    52      31.260   6.707   5.997  1.00  0.00
ATOM     64  CG  PRO    52      31.634   7.113   7.383  1.00  0.00
ATOM     65  CD  PRO    52      31.947   8.582   7.318  1.00  0.00
ATOM     66  N   GLU    53      30.529   8.504   3.744  1.00  0.00
ATOM     67  CA  GLU    53      29.672   8.694   2.581  1.00  0.00
ATOM     68  C   GLU    53      30.114   9.784   1.598  1.00  0.00
ATOM     69  O   GLU    53      29.755   9.723   0.423  1.00  0.00
ATOM     70  CB  GLU    53      28.257   8.983   3.051  1.00  0.00
ATOM     71  CG  GLU    53      27.634   7.839   3.865  1.00  0.00
ATOM     72  CD  GLU    53      26.132   8.019   4.083  1.00  0.00
ATOM     73  OE1 GLU    53      25.585   9.090   3.747  1.00  0.00
ATOM     74  OE2 GLU    53      25.489   7.084   4.597  1.00  0.00
ATOM     75  N   ILE    54      30.890  10.766   2.060  1.00  0.00
ATOM     76  CA  ILE    54      31.320  11.880   1.204  1.00  0.00
ATOM     77  C   ILE    54      32.808  12.219   1.292  1.00  0.00
ATOM     78  O   ILE    54      33.495  12.247   0.275  1.00  0.00
ATOM     79  CB  ILE    54      30.577  13.182   1.557  1.00  0.00
ATOM     80  CG1 ILE    54      29.073  13.014   1.339  1.00  0.00
ATOM     81  CG2 ILE    54      31.066  14.328   0.683  1.00  0.00
ATOM     82  CD1 ILE    54      28.249  14.182   1.835  1.00  0.00
ATOM     83  N   ASP    55      33.303  12.465   2.500  1.00  0.00
ATOM     84  CA  ASP    55      34.571  13.155   2.679  1.00  0.00
ATOM     85  C   ASP    55      35.818  12.420   2.245  1.00  0.00
ATOM     86  O   ASP    55      36.684  12.997   1.596  1.00  0.00
ATOM     87  CB  ASP    55      34.798  13.485   4.155  1.00  0.00
ATOM     88  CG  ASP    55      33.908  14.609   4.646  1.00  0.00
ATOM     89  OD1 ASP    55      33.297  15.295   3.799  1.00  0.00
ATOM     90  OD2 ASP    55      33.820  14.803   5.876  1.00  0.00
ATOM     91  N   LEU    56      35.894  11.141   2.586  1.00  0.00
ATOM     92  CA  LEU    56      37.080  10.345   2.299  1.00  0.00
ATOM     93  C   LEU    56      37.236  10.088   0.781  1.00  0.00
ATOM     94  O   LEU    56      38.362   9.959   0.274  1.00  0.00
ATOM     95  CB  LEU    56      36.998   8.988   2.999  1.00  0.00
ATOM     96  CG  LEU    56      37.078   9.007   4.527  1.00  0.00
ATOM     97  CD1 LEU    56      36.830   7.619   5.097  1.00  0.00
ATOM     98  CD2 LEU    56      38.453   9.470   4.986  1.00  0.00
TER
END
