
#######################################################
#                                                     #
#                        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   68 (   68),  selected   68 , name T0348TS599_1
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS599_1.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D       2           -
LGA    D       2      A       3           -
LGA    A       3      K       4           -
LGA    K       4      F       5           -
LGA    F       5      L       6           -
LGA    L       6      E       7           -
LGA    E       7      I       8          4.490
LGA    I       8      L       9          3.229
LGA    L       9      -       -           -
LGA    V      10      V      10          0.759
LGA    C      11      C      11          1.041
LGA    P      12      P      12          0.565
LGA    L      13      L      13          0.877
LGA    C      14      C      14          1.044
LGA    K      15      K      15          0.581
LGA    G      16      G      16          0.722
LGA    P      17      P      17          0.487
LGA    L      18      L      18          0.824
LGA    V      19      V      19          0.779
LGA    F      20      F      20          0.639
LGA    D      21      D      21          0.470
LGA    K      22      K      22          0.848
LGA    S      23      S      23          1.877
LGA    K      24      K      24          1.904
LGA    D      25      D      25          0.926
LGA    E      26      E      26          1.563
LGA    L      27      L      27          1.476
LGA    I      28      I      28          0.636
LGA    C      29      C      29          1.376
LGA    K      30      K      30          2.418
LGA    G      31      G      31          1.855
LGA    D      32      D      32          0.531
LGA    R      33      R      33          0.838
LGA    L      34      L      34          0.652
LGA    A      35      A      35          1.834
LGA    F      36      F      36          2.200
LGA    P      37      P      37          2.367
LGA    I      38      I      38          1.284
LGA    K      39      K      39          3.073
LGA    D      40      D      40           -
LGA    G      41      G      41           -
LGA    -       -      I      42           -
LGA    I      42      P      43          2.668
LGA    P      43      M      44          2.941
LGA    M      44      M      45          2.868
LGA    M      45      L      46          4.685
LGA    L      46      E      47           -
LGA    E      47      S      48           -
LGA    S      48      E      49           -
LGA    E      49      A      50           -
LGA    A      50      R      51           -
LGA    R      51      E      52           -
LGA    E      52      L      53           -
LGA    L      53      A      54           -
LGA    A      54      P      55           -
LGA    P      55      E      56           -
LGA    E      56      E      57           -
LGA    E      57      E      58           -
LGA    E      58      V      59           -
LGA    V      59      K      60           -
LGA    K      60      L      61           -
LGA    L      61      E      62           -
LGA    E      62      -       -           -
LGA    H      63      -       -           -
LGA    H      64      -       -           -
LGA    H      65      -       -           -
LGA    H      66      -       -           -
LGA    H      67      -       -           -
LGA    H      68      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   68   61    5.0     36    1.93    86.11     54.228     1.770

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.898340 * X  +   0.269436 * Y  +   0.346973 * Z  +  11.368700
  Y_new =  -0.427698 * X  +   0.356088 * Y  +   0.830828 * Z  +  32.866642
  Z_new =   0.100302 * X  +  -0.894766 * Y  +   0.435125 * Z  +  54.123455 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.118168    2.023425  [ DEG:   -64.0663    115.9337 ]
  Theta =  -0.100471   -3.041122  [ DEG:    -5.7566   -174.2434 ]
  Phi   =  -0.444344    2.697249  [ DEG:   -25.4590    154.5410 ]
 
# 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: T0348TS599_1                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS599_1.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   68   61   5.0   36   1.93   86.11  54.228
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS599_1
PFRMAT TS                                                                       
TARGET T0348                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      22.248  38.799  57.608  1.00  0.00              
ATOM      2  CA  ASP     2      19.860  39.340  61.025  1.00  0.00              
ATOM      3  CA  ALA     3      16.270  41.379  61.795  1.00  0.00              
ATOM      4  CA  LYS     4      14.834  41.803  57.905  1.00  0.00              
ATOM      5  CA  PHE     5      15.826  38.225  57.380  1.00  0.00              
ATOM      6  CA  LEU     6      14.085  37.000  60.557  1.00  0.00              
ATOM      7  CA  GLU     7      11.008  39.002  59.676  1.00  0.00              
ATOM      8  CA  ILE     8      10.935  37.665  56.169  1.00  0.00              
ATOM      9  CA  LEU     9      11.179  34.043  57.427  1.00  0.00              
ATOM     10  CA  VAL    10       8.493  33.721  60.085  1.00  0.00              
ATOM     11  CA  CYS    11       6.673  30.325  60.014  1.00  0.00              
ATOM     12  CA  PRO    12       3.018  30.209  60.743  1.00  0.00              
ATOM     13  CA  LEU    13       2.957  27.098  62.850  1.00  0.00              
ATOM     14  CA  CYS    14       5.781  27.514  65.272  1.00  0.00              
ATOM     15  CA  LYS    15       6.939  31.069  64.803  1.00  0.00              
ATOM     16  CA  GLY    16      10.587  29.949  64.474  1.00  0.00              
ATOM     17  CA  PRO    17      12.870  31.267  61.818  1.00  0.00              
ATOM     18  CA  LEU    18      12.564  30.164  58.229  1.00  0.00              
ATOM     19  CA  VAL    19      15.404  28.388  56.382  1.00  0.00              
ATOM     20  CA  PHE    20      15.678  28.631  52.649  1.00  0.00              
ATOM     21  CA  ASP    21      17.366  25.994  50.578  1.00  0.00              
ATOM     22  CA  LYS    22      18.415  27.792  47.338  1.00  0.00              
ATOM     23  CA  SER    23      19.419  24.793  45.358  1.00  0.00              
ATOM     24  CA  LYS    24      16.141  22.986  45.735  1.00  0.00              
ATOM     25  CA  ASP    25      13.772  25.974  45.932  1.00  0.00              
ATOM     26  CA  GLU    26      12.296  24.783  49.156  1.00  0.00              
ATOM     27  CA  LEU    27      11.467  26.574  52.352  1.00  0.00              
ATOM     28  CA  ILE    28      12.245  24.750  55.535  1.00  0.00              
ATOM     29  CA  CYS    29      10.509  25.557  58.755  1.00  0.00              
ATOM     30  CA  LYS    30      12.841  25.184  61.694  1.00  0.00              
ATOM     31  CA  GLY    31      10.700  23.986  64.548  1.00  0.00              
ATOM     32  CA  ASP    32       8.634  21.566  62.700  1.00  0.00              
ATOM     33  CA  ARG    33      11.033  20.307  60.066  1.00  0.00              
ATOM     34  CA  LEU    34       8.628  20.812  57.229  1.00  0.00              
ATOM     35  CA  ALA    35       9.818  21.096  53.667  1.00  0.00              
ATOM     36  CA  PHE    36       7.803  23.728  51.862  1.00  0.00              
ATOM     37  CA  PRO    37       7.973  24.199  48.074  1.00  0.00              
ATOM     38  CA  ILE    38       7.972  27.914  47.353  1.00  0.00              
ATOM     39  CA  LYS    39       4.246  28.546  46.832  1.00  0.00              
ATOM     40  CA  ASP    40       2.489  26.526  49.578  1.00  0.00              
ATOM     41  CA  GLY    41       5.071  27.554  52.200  1.00  0.00              
ATOM     42  CA  ILE    42       4.795  31.295  51.516  1.00  0.00              
ATOM     43  CA  PRO    43       1.012  31.033  51.955  1.00  0.00              
ATOM     44  CA  MET    44       1.246  29.138  55.287  1.00  0.00              
ATOM     45  CA  MET    45       3.695  31.540  56.814  1.00  0.00              
ATOM     46  CA  LEU    46       2.194  34.871  55.767  1.00  0.00              
ATOM     47  CA  GLU    47       2.634  37.662  58.365  1.00  0.00              
ATOM     48  CA  SER    48       1.304  40.674  56.526  1.00  0.00              
ATOM     49  CA  GLU    49       4.520  42.644  56.501  1.00  0.00              
ATOM     50  CA  ALA    50       6.644  39.750  55.151  1.00  0.00              
ATOM     51  CA  ARG    51       4.188  39.041  52.312  1.00  0.00              
ATOM     52  CA  GLU    52       4.059  42.711  51.271  1.00  0.00              
ATOM     53  CA  LEU    53       7.836  43.244  50.899  1.00  0.00              
ATOM     54  CA  ALA    54       8.361  45.247  47.760  1.00  0.00              
ATOM     55  CA  PRO    55      10.448  43.773  44.938  1.00  0.00              
ATOM     56  CA  GLU    56      13.441  45.865  45.810  1.00  0.00              
ATOM     57  CA  GLU    57      13.415  44.754  49.459  1.00  0.00              
ATOM     58  CA  GLU    58      13.101  41.091  48.446  1.00  0.00              
ATOM     59  CA  VAL    59      16.111  41.367  46.132  1.00  0.00              
ATOM     60  CA  LYS    60      18.176  43.035  48.859  1.00  0.00              
ATOM     61  CA  LEU    61      17.204  40.271  51.281  1.00  0.00              
ATOM     62  CA  GLU    62      18.143  37.512  48.807  1.00  0.00              
ATOM     63  CA  HIS    63      21.552  39.052  48.111  1.00  0.00              
ATOM     64  CA  HIS    64      22.534  39.498  51.749  1.00  0.00              
ATOM     65  CA  HIS    65      21.282  35.975  52.449  1.00  0.00              
ATOM     66  CA  HIS    66      23.637  34.262  49.669  1.00  0.00              
ATOM     67  CA  HIS    67      24.072  31.676  47.205  1.00  0.00              
ATOM     68  CA  HIS    68      21.418  31.739  43.950  1.00  0.00              
TER                                                                             
END
