
#######################################################
#                                                     #
#                        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   57 (   57),  selected   57 , name T0349TS599_1-D1
# Molecule2: number of CA atoms   57 (  873),  selected   57 , name T0349_D1.pdb
# PARAMETERS: T0349TS599_1-D1.T0349_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    R       2      -       -           -
LGA    E       3      -       -           -
LGA    L       4      -       -           -
LGA    L       5      -       -           -
LGA    R       6      -       -           -
LGA    T       7      -       -           -
LGA    N       8      -       -           -
LGA    D       9      -       -           -
LGA    A      10      M       1           #
LGA    V      11      R       2           -
LGA    L      12      E       3           -
LGA    L      13      L       4           -
LGA    S      14      L       5           -
LGA    A      15      R       6           #
LGA    V      16      -       -           -
LGA    G      17      -       -           -
LGA    A      18      -       -           -
LGA    L      19      T       7          3.609
LGA    L      20      N       8          4.345
LGA    D      21      D       9          3.397
LGA    G      22      -       -           -
LGA    A      23      A      10          5.916
LGA    D      24      V      11          3.498
LGA    I      25      L      12          1.394
LGA    G      26      L      13          4.004
LGA    H      27      S      14          3.297
LGA    -       -      A      15           -
LGA    L      28      V      16          4.438
LGA    V      29      G      17          4.137
LGA    P      45      A      18          3.601
LGA    R      46      L      19          2.800
LGA    R      47      L      20          2.890
LGA    V      48      D      21          5.362
LGA    -       -      G      22           -
LGA    -       -      A      23           -
LGA    -       -      D      24           -
LGA    L      49      I      25          2.317
LGA    -       -      G      26           -
LGA    -       -      H      27           -
LGA    -       -      L      28           -
LGA    -       -      V      29           -
LGA    -       -      P      45           -
LGA    -       -      R      46           -
LGA    -       -      R      47           -
LGA    -       -      V      48           -
LGA    -       -      L      49           -
LGA    V      50      V      50          3.125
LGA    H      51      H      51          1.886
LGA    E      52      E      52          0.819
LGA    D      53      D      53          2.703
LGA    D      54      D      54          2.265
LGA    L      55      L      55          1.511
LGA    A      56      A      56          1.492
LGA    G      57      G      57          1.327
LGA    A      58      A      58          1.645
LGA    R      59      R      59          1.471
LGA    R      60      R      60          1.026
LGA    L      61      L      61          1.348
LGA    L      62      L      62          1.452
LGA    T      63      T      63          1.231
LGA    D      64      D      64          2.310
LGA    A      65      A      65          2.875
LGA    G      66      G      66          2.000
LGA    L      67      L      67          3.739
LGA    A      68      A      68          1.988
LGA    H      69      H      69          3.403
LGA    E      70      E      70           #
LGA    L      71      L      71           #
LGA    R      72      R      72           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   57   57    5.0     35    2.98    62.86     40.336     1.136

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.529510 * X  +  -0.319372 * Y  +  -0.785889 * Z  +  -2.205632
  Y_new =   0.812629 * X  +   0.456805 * Y  +   0.361889 * Z  +   4.444765
  Z_new =   0.243421 * X  +  -0.830259 * Y  +   0.501414 * Z  +   1.698015 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.027496    2.114096  [ DEG:   -58.8712    121.1288 ]
  Theta =  -0.245891   -2.895701  [ DEG:   -14.0885   -165.9115 ]
  Phi   =   0.993296   -2.148296  [ DEG:    56.9117   -123.0883 ]
 
# 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: T0349TS599_1-D1                               
REMARK     2: T0349_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS599_1-D1.T0349_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   57   57   5.0   35   2.98   62.86  40.336
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS599_1-D1
PFRMAT TS                                                                       
TARGET T0349                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -6.367   4.299 -11.085  1.00  0.00              
ATOM      2  CA  ARG     2      -7.134   7.812 -11.052  1.00  0.00              
ATOM      3  CA  GLU     3      -9.388   9.578 -14.128  1.00  0.00              
ATOM      4  CA  LEU     4      -6.552   8.643 -11.806  1.00  0.00              
ATOM      5  CA  LEU     5      -4.035   8.569 -14.724  1.00  0.00              
ATOM      6  CA  ARG     6      -5.099  11.917 -16.040  1.00  0.00              
ATOM      7  CA  THR     7      -4.913  13.822 -12.800  1.00  0.00              
ATOM      8  CA  ASN     8      -1.678  12.175 -11.550  1.00  0.00              
ATOM      9  CA  ASP     9      -3.281  11.358  -8.260  1.00  0.00              
ATOM     10  CA  ALA    10      -2.764   7.605  -7.760  1.00  0.00              
ATOM     11  CA  VAL    11      -6.029   5.694  -7.192  1.00  0.00              
ATOM     12  CA  LEU    12      -5.849   2.152  -5.758  1.00  0.00              
ATOM     13  CA  LEU    13      -8.663   1.193  -3.393  1.00  0.00              
ATOM     14  CA  SER    14      -9.002  -2.508  -4.250  1.00  0.00              
ATOM     15  CA  ALA    15      -5.222  -3.091  -4.229  1.00  0.00              
ATOM     16  CA  VAL    16      -4.870  -1.355  -0.877  1.00  0.00              
ATOM     17  CA  GLY    17      -7.641  -3.418   0.642  1.00  0.00              
ATOM     18  CA  ALA    18      -6.417  -6.779  -0.422  1.00  0.00              
ATOM     19  CA  LEU    19      -2.933  -6.146   0.823  1.00  0.00              
ATOM     20  CA  LEU    20      -3.984  -4.820   4.174  1.00  0.00              
ATOM     21  CA  ASP    21      -6.351  -7.617   4.956  1.00  0.00              
ATOM     22  CA  GLY    22      -3.930 -10.356   4.156  1.00  0.00              
ATOM     23  CA  ALA    23      -1.128  -8.986   6.231  1.00  0.00              
ATOM     24  CA  ASP    24      -3.264  -8.151   9.299  1.00  0.00              
ATOM     25  CA  ILE    25      -2.348  -4.456   9.056  1.00  0.00              
ATOM     26  CA  GLY    26      -5.060  -1.836   9.238  1.00  0.00              
ATOM     27  CA  HIS    27      -3.409   1.083   7.465  1.00  0.00              
ATOM     28  CA  LEU    28      -5.310   3.652   5.346  1.00  0.00              
ATOM     29  CA  VAL    29      -3.395   5.600   2.798  1.00  0.00              
ATOM     45  CA  PRO    45      -5.951   2.056  11.067  1.00  0.00              
ATOM     46  CA  ARG    46      -3.196   4.528  11.154  1.00  0.00              
ATOM     47  CA  ARG    47      -4.010   7.003   8.493  1.00  0.00              
ATOM     48  CA  VAL    48      -1.306   8.091   6.226  1.00  0.00              
ATOM     49  CA  LEU    49      -1.666  11.087   4.037  1.00  0.00              
ATOM     50  CA  VAL    50       0.644  11.414   1.060  1.00  0.00              
ATOM     51  CA  HIS    51       0.418  14.160  -1.550  1.00  0.00              
ATOM     52  CA  GLU    52       3.622  13.686  -3.578  1.00  0.00              
ATOM     53  CA  ASP    53       4.784  17.328  -3.213  1.00  0.00              
ATOM     54  CA  ASP    54       4.531  16.925   0.517  1.00  0.00              
ATOM     55  CA  LEU    55       6.583  13.680   0.127  1.00  0.00              
ATOM     56  CA  ALA    56       8.854  14.470   2.975  1.00  0.00              
ATOM     57  CA  GLY    57       5.898  15.228   5.240  1.00  0.00              
ATOM     58  CA  ALA    58       4.113  12.035   4.181  1.00  0.00              
ATOM     59  CA  ARG    59       7.254   9.960   4.896  1.00  0.00              
ATOM     60  CA  ARG    60       7.677  11.566   8.284  1.00  0.00              
ATOM     61  CA  LEU    61       4.069  10.833   9.188  1.00  0.00              
ATOM     62  CA  LEU    62       4.431   7.247   8.110  1.00  0.00              
ATOM     63  CA  THR    63       7.596   6.861  10.216  1.00  0.00              
ATOM     64  CA  ASP    64       6.001   8.379  13.263  1.00  0.00              
ATOM     65  CA  ALA    65       2.998   6.026  12.828  1.00  0.00              
ATOM     66  CA  GLY    66       4.993   2.838  12.436  1.00  0.00              
ATOM     67  CA  LEU    67       4.272   1.945   8.841  1.00  0.00              
ATOM     68  CA  ALA    68       7.732   0.543   7.895  1.00  0.00              
ATOM     69  CA  HIS    69       7.695  -1.688  11.004  1.00  0.00              
ATOM     70  CA  GLU    70       4.197  -2.943  10.145  1.00  0.00              
ATOM     71  CA  LEU    71       5.078  -3.751   6.498  1.00  0.00              
ATOM     72  CA  ARG    72       8.361  -5.278   7.513  1.00  0.00              
TER                                                                             
END
