
#######################################################
#                                                     #
#                        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   13 (   52),  selected   13 , name T0363AL044_2-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363AL044_2-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    Q      31      T      37          1.928
LGA    V      32      V      38          3.398
LGA    -       -      Q      39           -
LGA    D      33      T      40          1.230
LGA    V      38      A      41          0.461
LGA    Q      39      I      42          1.683
LGA    T      40      T      43          1.120
LGA    A      41      Q      44          1.728
LGA    I      42      S      45          3.215
LGA    T      43      -       -           -
LGA    Q      44      G      46          3.039
LGA    S      45      I      47          3.575
LGA    G      46      L      48          4.280
LGA    -       -      S      49           -
LGA    I      47      Q      50          0.631
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)   13   46    5.0     12    2.50    16.67     20.786     0.461

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.741926 * X  +   0.649123 * Y  +  -0.167887 * Z  +  -4.404935
  Y_new =  -0.284874 * X  +   0.078515 * Y  +  -0.955344 * Z  +  65.901299
  Z_new =  -0.606954 * X  +   0.756621 * Y  +   0.243171 * Z  +  -9.303835 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.259833   -1.881760  [ DEG:    72.1831   -107.8169 ]
  Theta =   0.652222    2.489371  [ DEG:    37.3696    142.6304 ]
  Phi   =  -0.366608    2.774985  [ DEG:   -21.0051    158.9949 ]
 
# 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: T0363AL044_2-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL044_2-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   13   46   5.0   12   2.50   16.67  20.786
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL044_2-D1
REMARK Aligment from pdb entry: 1t6l_A
ATOM      1  N   GLN    31      25.703   9.059  13.897  1.00  0.00              
ATOM      2  CA  GLN    31      25.967  10.272  13.161  1.00  0.00              
ATOM      3  C   GLN    31      27.442  10.441  12.818  1.00  0.00              
ATOM      4  O   GLN    31      27.759  10.832  11.695  1.00  0.00              
ATOM      5  N   VAL    32      28.346  10.128  13.764  1.00  0.00              
ATOM      6  CA  VAL    32      29.788  10.131  13.468  1.00  0.00              
ATOM      7  C   VAL    32      30.230   9.260  12.283  1.00  0.00              
ATOM      8  O   VAL    32      31.198   9.576  11.555  1.00  0.00              
ATOM      9  N   ASP    33      29.518   8.161  12.063  1.00  0.00              
ATOM     10  CA  ASP    33      29.788   7.296  10.927  1.00  0.00              
ATOM     11  C   ASP    33      29.352   7.973   9.636  1.00  0.00              
ATOM     12  O   ASP    33      30.059   7.909   8.640  1.00  0.00              
ATOM     13  N   VAL    38      28.187   8.618   9.667  1.00  0.00              
ATOM     14  CA  VAL    38      27.690   9.369   8.521  1.00  0.00              
ATOM     15  C   VAL    38      28.669  10.493   8.161  1.00  0.00              
ATOM     16  O   VAL    38      29.015  10.699   6.984  1.00  0.00              
ATOM     17  N   GLN    39      29.117  11.218   9.184  1.00  0.00              
ATOM     18  CA  GLN    39      30.102  12.275   8.979  1.00  0.00              
ATOM     19  C   GLN    39      31.391  11.743   8.335  1.00  0.00              
ATOM     20  O   GLN    39      31.899  12.348   7.409  1.00  0.00              
ATOM     21  N   THR    40      31.907  10.627   8.831  1.00  0.00              
ATOM     22  CA  THR    40      33.095   9.998   8.254  1.00  0.00              
ATOM     23  C   THR    40      32.910   9.594   6.805  1.00  0.00              
ATOM     24  O   THR    40      33.833   9.753   5.989  1.00  0.00              
ATOM     25  N   ALA    41      31.740   9.048   6.479  1.00  0.00              
ATOM     26  CA  ALA    41      31.472   8.671   5.090  1.00  0.00              
ATOM     27  C   ALA    41      31.474   9.898   4.194  1.00  0.00              
ATOM     28  O   ALA    41      32.020   9.856   3.105  1.00  0.00              
ATOM     29  N   ILE    42      30.844  10.977   4.660  1.00  0.00              
ATOM     30  CA  ILE    42      30.728  12.242   3.909  1.00  0.00              
ATOM     31  C   ILE    42      32.097  12.885   3.653  1.00  0.00              
ATOM     32  O   ILE    42      32.351  13.416   2.571  1.00  0.00              
ATOM     33  N   THR    43      32.962  12.831   4.648  1.00  0.00              
ATOM     34  CA  THR    43      34.299  13.424   4.547  1.00  0.00              
ATOM     35  C   THR    43      35.169  12.617   3.602  1.00  0.00              
ATOM     36  O   THR    43      35.936  13.196   2.818  1.00  0.00              
ATOM     37  N   GLN    44      35.019  11.292   3.675  1.00  0.00              
ATOM     38  CA  GLN    44      35.678  10.328   2.782  1.00  0.00              
ATOM     39  C   GLN    44      35.223  10.535   1.350  1.00  0.00              
ATOM     40  O   GLN    44      36.057  10.738   0.460  1.00  0.00              
ATOM     41  N   SER    45      33.905  10.537   1.123  1.00  0.00              
ATOM     42  CA  SER    45      33.377  10.632  -0.229  1.00  0.00              
ATOM     43  C   SER    45      33.471  12.051  -0.793  1.00  0.00              
ATOM     44  O   SER    45      33.673  12.218  -1.993  1.00  0.00              
ATOM     45  N   GLY    46      33.340  13.054   0.069  1.00  0.00              
ATOM     46  CA  GLY    46      33.493  14.440  -0.329  1.00  0.00              
ATOM     47  C   GLY    46      34.961  14.740  -0.618  1.00  0.00              
ATOM     48  O   GLY    46      35.781  14.835   0.311  1.00  0.00              
ATOM     49  N   ILE    47      35.307  14.856  -1.899  1.00  0.00              
ATOM     50  CA  ILE    47      36.679  15.188  -2.292  1.00  0.00              
ATOM     51  C   ILE    47      36.829  16.701  -2.509  1.00  0.00              
ATOM     52  O   ILE    47      36.771  17.468  -1.531  1.00  0.00              
END
