
#######################################################
#                                                     #
#                        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   46 (   46),  selected   46 , name T0363TS599_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS599_1-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      11      I      13          3.016
LGA    Q      12      N      14          1.934
LGA    I      13      I      15          1.883
LGA    N      14      E      16          1.326
LGA    I      15      I      17          1.720
LGA    E      16      A      18          1.415
LGA    I      17      Y      19          1.710
LGA    A      18      A      20          1.664
LGA    Y      19      F      21          0.934
LGA    A      20      P      22          2.173
LGA    F      21      -       -           -
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      E      23          1.604
LGA    Y      26      R      24          1.173
LGA    L      27      Y      25          2.060
LGA    K      28      Y      26          1.478
LGA    S      29      L      27          2.194
LGA    F      30      K      28          3.349
LGA    Q      31      S      29          3.124
LGA    V      32      F      30          4.798
LGA    -       -      Q      31           -
LGA    D      33      V      32          2.527
LGA    -       -      D      33           -
LGA    E      34      E      34          3.242
LGA    G      35      G      35          2.126
LGA    I      36      I      36          1.621
LGA    T      37      T      37          2.196
LGA    V      38      V      38          2.471
LGA    Q      39      Q      39          2.701
LGA    T      40      T      40          2.463
LGA    A      41      A      41          1.781
LGA    I      42      I      42          2.031
LGA    T      43      T      43          2.863
LGA    Q      44      Q      44          2.950
LGA    S      45      S      45          2.330
LGA    G      46      G      46          1.525
LGA    I      47      I      47          0.862
LGA    L      48      L      48          0.864
LGA    S      49      S      49          1.418
LGA    Q      50      Q      50          2.136
LGA    F      51      F      51          2.083
LGA    P      52      P      52          2.407
LGA    E      53      E      53          3.194
LGA    I      54      I      54          1.955
LGA    D      55      D      55          3.410
LGA    L      56      L      56          3.637

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     42    2.34    61.90     71.969     1.718

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.500929 * X  +  -0.287250 * Y  +  -0.816429 * Z  +  26.848520
  Y_new =  -0.561182 * X  +   0.610347 * Y  +  -0.559062 * Z  +  21.143620
  Z_new =   0.658897 * X  +   0.738216 * Y  +   0.144541 * Z  +   4.384501 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.377445   -1.764148  [ DEG:    78.9218   -101.0782 ]
  Theta =  -0.719351   -2.422242  [ DEG:   -41.2158   -138.7842 ]
  Phi   =  -0.842067    2.299526  [ DEG:   -48.2469    131.7531 ]
 
# 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: T0363TS599_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS599_1-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   46   46   5.0   42   2.34   61.90  71.969
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS599_1-D1
PFRMAT TS                                                                       
TARGET T0363                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM     11  CA  ASN    11      16.128   7.877  10.591  1.00  0.00              
ATOM     12  CA  GLN    12      17.239   9.603   7.459  1.00  0.00              
ATOM     13  CA  ILE    13      19.505  12.562   7.922  1.00  0.00              
ATOM     14  CA  ASN    14      20.345  14.698   4.947  1.00  0.00              
ATOM     15  CA  ILE    15      23.503  16.692   4.780  1.00  0.00              
ATOM     16  CA  GLU    16      24.147  19.255   2.162  1.00  0.00              
ATOM     17  CA  ILE    17      27.551  20.271   1.208  1.00  0.00              
ATOM     18  CA  ALA    18      28.269  23.151  -1.066  1.00  0.00              
ATOM     19  CA  TYR    19      31.508  23.429  -2.906  1.00  0.00              
ATOM     20  CA  ALA    20      32.484  26.521  -4.609  1.00  0.00              
ATOM     21  CA  PHE    21      34.810  26.407  -7.510  1.00  0.00              
ATOM     22  CA  PRO    22      35.887  29.647  -9.094  1.00  0.00              
ATOM     23  CA  GLU    23      32.429  30.428 -10.504  1.00  0.00              
ATOM     24  CA  ARG    24      30.868  26.993 -10.513  1.00  0.00              
ATOM     25  CA  TYR    25      28.870  25.753  -7.602  1.00  0.00              
ATOM     26  CA  TYR    26      29.030  22.271  -6.780  1.00  0.00              
ATOM     27  CA  LEU    27      26.376  20.705  -4.667  1.00  0.00              
ATOM     28  CA  LYS    28      27.155  17.641  -2.742  1.00  0.00              
ATOM     29  CA  SER    29      24.446  15.740  -0.941  1.00  0.00              
ATOM     30  CA  PHE    30      25.317  13.450   1.898  1.00  0.00              
ATOM     31  CA  GLN    31      22.920  11.017   3.237  1.00  0.00              
ATOM     32  CA  VAL    32      23.311   9.748   6.705  1.00  0.00              
ATOM     33  CA  ASP    33      21.351   6.727   7.891  1.00  0.00              
ATOM     34  CA  GLU    34      20.074   6.743  11.351  1.00  0.00              
ATOM     35  CA  GLY    35      22.567   5.637  13.800  1.00  0.00              
ATOM     36  CA  ILE    36      25.610   6.488  11.743  1.00  0.00              
ATOM     37  CA  THR    37      28.268   8.933  13.051  1.00  0.00              
ATOM     38  CA  VAL    38      28.942  11.958  10.904  1.00  0.00              
ATOM     39  CA  GLN    39      32.549  10.692  10.378  1.00  0.00              
ATOM     40  CA  THR    40      31.302   7.442   8.900  1.00  0.00              
ATOM     41  CA  ALA    41      28.584   9.041   6.732  1.00  0.00              
ATOM     42  CA  ILE    42      30.988  11.634   5.448  1.00  0.00              
ATOM     43  CA  THR    43      33.667   9.129   4.536  1.00  0.00              
ATOM     44  CA  GLN    44      31.250   7.060   2.558  1.00  0.00              
ATOM     45  CA  SER    45      30.166  10.062   0.568  1.00  0.00              
ATOM     46  CA  GLY    46      33.765  11.219  -0.143  1.00  0.00              
ATOM     47  CA  ILE    47      33.248  14.566   1.506  1.00  0.00              
ATOM     48  CA  LEU    48      36.377  14.460   3.706  1.00  0.00              
ATOM     49  CA  SER    49      38.528  13.500   0.766  1.00  0.00              
ATOM     50  CA  GLN    50      37.155  16.406  -1.312  1.00  0.00              
ATOM     51  CA  PHE    51      37.274  19.081   1.397  1.00  0.00              
ATOM     52  CA  PRO    52      40.268  18.415   3.660  1.00  0.00              
ATOM     53  CA  GLU    53      39.795  21.405   5.983  1.00  0.00              
ATOM     54  CA  ILE    54      36.251  20.240   6.883  1.00  0.00              
ATOM     55  CA  ASP    55      35.875  18.614  10.221  1.00  0.00              
ATOM     56  CA  LEU    56      33.646  15.594  10.308  1.00  0.00              
TER                                                                             
END
