
#######################################################
#                                                     #
#                        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 T0363TS168_5-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS168_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      N      11           #
LGA    Q      12      Q      12           #
LGA    I      13      I      13          3.222
LGA    N      14      N      14          2.589
LGA    I      15      I      15          2.098
LGA    E      16      E      16          1.116
LGA    I      17      I      17          2.640
LGA    A      18      A      18          0.891
LGA    Y      19      Y      19          2.229
LGA    A      20      A      20           #
LGA    F      21      F      21          2.767
LGA    P      22      P      22          3.844
LGA    E      23      E      23          2.820
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      R      24          5.054
LGA    L      27      Y      25          2.778
LGA    K      28      Y      26          2.589
LGA    S      29      L      27          1.588
LGA    F      30      K      28          2.471
LGA    Q      31      S      29          4.356
LGA    V      32      F      30          2.894
LGA    -       -      Q      31           -
LGA    D      33      V      32          1.812
LGA    E      34      D      33          3.611
LGA    G      35      E      34           -
LGA    I      36      G      35           -
LGA    T      37      I      36           -
LGA    V      38      -       -           -
LGA    Q      39      -       -           -
LGA    T      40      T      37          3.396
LGA    A      41      V      38          3.744
LGA    I      42      Q      39           -
LGA    T      43      T      40           -
LGA    Q      44      A      41           -
LGA    S      45      I      42           -
LGA    G      46      T      43           -
LGA    I      47      Q      44           -
LGA    L      48      S      45           -
LGA    S      49      G      46           -
LGA    Q      50      I      47           -
LGA    F      51      L      48           -
LGA    P      52      S      49           -
LGA    E      53      Q      50           -
LGA    I      54      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    D      55      L      56          3.925
LGA    L      56      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     22    3.01    50.00     31.068     0.708

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.058246 * X  +   0.680489 * Y  +  -0.730439 * Z  +  21.925051
  Y_new =   0.787075 * X  +  -0.481394 * Y  +  -0.385712 * Z  +  14.399747
  Z_new =  -0.614102 * X  +  -0.552444 * Y  +  -0.563635 * Z  +   4.480432 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.366221    0.775371  [ DEG:  -135.5745     44.4255 ]
  Theta =   0.661247    2.480346  [ DEG:    37.8867    142.1133 ]
  Phi   =   1.496927   -1.644665  [ DEG:    85.7676    -94.2324 ]
 
# 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: T0363TS168_5-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS168_5-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   22   3.01   50.00  31.068
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS168_5-D1
PFRMAT TS
TARGET T0363
MODEL 5
PARENT N/A
ATOM     11  CA  ASN    11       9.730   2.851   8.012  1.00 25.00           C
ATOM     12  CA  GLN    12      11.984   5.829   7.397  1.00 25.00           C
ATOM     13  CA  ILE    13      15.110   7.906   6.628  1.00 25.00           C
ATOM     14  CA  ASN    14      18.146   9.676   8.128  1.00 25.00           C
ATOM     15  CA  ILE    15      18.954  11.171   4.661  1.00 25.00           C
ATOM     16  CA  GLU    16      20.439  14.675   4.443  1.00 25.00           C
ATOM     17  CA  ILE    17      23.080  17.145   5.631  1.00 25.00           C
ATOM     18  CA  ALA    18      25.096  19.633   3.617  1.00 25.00           C
ATOM     19  CA  TYR    19      27.929  19.486   1.061  1.00 25.00           C
ATOM     20  CA  ALA    20      30.398  18.086  -1.450  1.00 25.00           C
ATOM     21  CA  PHE    21      30.608  21.660  -2.786  1.00 25.00           C
ATOM     22  CA  PRO    22      32.019  24.298  -5.213  1.00 25.00           C
ATOM     23  CA  GLU    23      32.407  26.855  -8.049  1.00 25.00           C
ATOM     24  CA  ARG    24      31.688  29.711  -5.627  1.00 25.00           C
ATOM     25  CA  TYR    25      28.537  28.184  -4.044  1.00 25.00           C
ATOM     26  CA  TYR    26      25.760  25.585  -3.950  1.00 25.00           C
ATOM     27  CA  LEU    27      24.878  22.199  -2.441  1.00 25.00           C
ATOM     28  CA  LYS    28      25.710  18.990  -4.247  1.00 25.00           C
ATOM     29  CA  SER    29      23.567  16.676  -2.194  1.00 25.00           C
ATOM     30  CA  PHE    30      24.665  15.125   1.085  1.00 25.00           C
ATOM     31  CA  GLN    31      24.693  11.986   3.175  1.00 25.00           C
ATOM     32  CA  VAL    32      23.797   8.509   4.547  1.00 25.00           C
ATOM     33  CA  ASP    33      23.277   4.894   5.726  1.00 25.00           C
ATOM     34  CA  GLU    34      24.890   2.601   8.297  1.00 25.00           C
ATOM     35  CA  GLY    35      28.536   2.084   7.238  1.00 25.00           C
ATOM     36  CA  ILE    36      29.898   5.460   6.112  1.00 25.00           C
ATOM     37  CA  THR    37      28.972   7.890   3.374  1.00 25.00           C
ATOM     38  CA  VAL    38      28.551  10.312   6.342  1.00 25.00           C
ATOM     39  CA  GLN    39      26.407   8.346   8.832  1.00 25.00           C
ATOM     40  CA  THR    40      27.397  10.765  11.632  1.00 25.00           C
ATOM     41  CA  ALA    41      26.477  13.747   9.414  1.00 25.00           C
ATOM     42  CA  ILE    42      23.086  12.151   8.630  1.00 25.00           C
ATOM     43  CA  THR    43      22.464  11.578  12.365  1.00 25.00           C
ATOM     44  CA  GLN    44      23.351  15.231  13.097  1.00 25.00           C
ATOM     45  CA  SER    45      20.945  16.391  10.353  1.00 25.00           C
ATOM     46  CA  GLY    46      22.849  19.648  10.782  1.00 25.00           C
ATOM     47  CA  ILE    47      25.239  21.492   8.459  1.00 25.00           C
ATOM     48  CA  LEU    48      26.517  23.472  11.509  1.00 25.00           C
ATOM     49  CA  SER    49      24.588  23.469  14.816  1.00 25.00           C
ATOM     50  CA  GLN    50      25.544  19.806  15.399  1.00 25.00           C
ATOM     51  CA  PHE    51      28.952  19.244  13.790  1.00 25.00           C
ATOM     52  CA  PRO    52      31.839  21.690  13.904  1.00 25.00           C
ATOM     53  CA  GLU    53      34.726  20.797  16.191  1.00 25.00           C
ATOM     54  CA  ILE    54      33.835  17.262  17.233  1.00 25.00           C
ATOM     55  CA  ASP    55      36.112  15.850  14.565  1.00 25.00           C
ATOM     56  CA  LEU    56      34.660  15.926  11.040  1.00 25.00           C
TER
END
