
#######################################################
#                                                     #
#                        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   91 (   91),  selected   91 , name T0299TS599_4-D1
# Molecule2: number of CA atoms   91 (  726),  selected   91 , name T0299_D1.pdb
# PARAMETERS: T0299TS599_4-D1.T0299_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    -       -      T       2           -
LGA    -       -      R       3           -
LGA    -       -      Y       4           -
LGA    -       -      A       5           -
LGA    -       -      L       6           -
LGA    -       -      L       7           -
LGA    -       -      V       8           -
LGA    -       -      R       9           -
LGA    -       -      G      10           -
LGA    -       -      I      11           -
LGA    -       -      N      12           -
LGA    -       -      V      13           -
LGA    -       -      G      14           -
LGA    -       -      G      15           -
LGA    -       -      K      16           -
LGA    -       -      N      17           -
LGA    -       -      K      18           -
LGA    -       -      V      19           -
LGA    -       -      V      20           -
LGA    T       2      M      21           #
LGA    -       -      A      22           -
LGA    -       -      E      23           -
LGA    -       -      L      24           -
LGA    -       -      R      25           -
LGA    -       -      Q      26           -
LGA    -       -      E      27           -
LGA    -       -      L      28           -
LGA    -       -      T      29           -
LGA    -       -      N      30           -
LGA    -       -      L      31           -
LGA    -       -      G      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    -       -      K      35           -
LGA    -       -      V      36           -
LGA    -       -      E      37           -
LGA    -       -      S      38           -
LGA    R       3      Y      39          3.075
LGA    Y       4      I      40           -
LGA    -       -      N      41           -
LGA    -       -      S      42           -
LGA    -       -      G      43           -
LGA    A       5      N      44          2.574
LGA    L       6      I      45          4.009
LGA    L       7      F      46          1.506
LGA    V       8      F      47           #
LGA    R       9      -       -           -
LGA    G      10      -       -           -
LGA    I      11      -       -           -
LGA    N      12      T      48          3.039
LGA    V      13      S      49          2.452
LGA    G      14      -       -           -
LGA    G      15      -       -           -
LGA    K      16      I      50          2.613
LGA    N      17      D      51          2.810
LGA    K      18      S      52          3.516
LGA    -       -      K      53           -
LGA    -       -      A      54           -
LGA    V      19      Q      55          4.388
LGA    V      20      L      56          1.906
LGA    M      21      V      57          1.772
LGA    A      22      E      58          2.404
LGA    E      23      K      59          1.587
LGA    L      24      L      60          1.053
LGA    R      25      E      61          1.642
LGA    Q      26      T      62          1.300
LGA    E      27      F      63          0.896
LGA    L      28      F      64          1.099
LGA    T      29      A      65          1.432
LGA    N      30      V      66          1.568
LGA    L      31      H      67          0.993
LGA    G      32      Y      68          2.791
LGA    L      33      P      69          2.998
LGA    E      34      F      70          1.251
LGA    K      35      -       -           -
LGA    V      36      I      71          1.398
LGA    E      37      Q      72          1.515
LGA    S      38      -       -           -
LGA    Y      39      S      73          2.372
LGA    I      40      F      74          4.722
LGA    N      41      -       -           -
LGA    S      42      -       -           -
LGA    G      43      -       -           -
LGA    N      44      -       -           -
LGA    I      45      S      75          4.557
LGA    F      46      L      76           -
LGA    F      47      L      77           -
LGA    -       -      S      78           -
LGA    -       -      A     168           -
LGA    -       -      K     169           -
LGA    T      48      T     170          5.447
LGA    S      49      F     171          4.159
LGA    I      50      -       -           -
LGA    D      51      D     172           #
LGA    S      52      K     173          1.436
LGA    K      53      I     174          2.419
LGA    A      54      G     175          2.283
LGA    Q      55      Q     176          1.781
LGA    L      56      M     177          1.732
LGA    V      57      L     178          1.636
LGA    E      58      K     179          1.751
LGA    K      59      K     180          1.785
LGA    L      60      -       -           -
LGA    E      61      -       -           -
LGA    T      62      -       -           -
LGA    F      63      -       -           -
LGA    F      64      -       -           -
LGA    A      65      -       -           -
LGA    V      66      -       -           -
LGA    H      67      -       -           -
LGA    Y      68      -       -           -
LGA    P      69      -       -           -
LGA    F      70      -       -           -
LGA    I      71      -       -           -
LGA    Q      72      -       -           -
LGA    S      73      -       -           -
LGA    F      74      -       -           -
LGA    S      75      -       -           -
LGA    L      76      -       -           -
LGA    L      77      -       -           -
LGA    S      78      -       -           -
LGA    A     168      -       -           -
LGA    K     169      -       -           -
LGA    T     170      -       -           -
LGA    F     171      -       -           -
LGA    D     172      -       -           -
LGA    K     173      -       -           -
LGA    I     174      -       -           -
LGA    G     175      -       -           -
LGA    Q     176      -       -           -
LGA    M     177      -       -           -
LGA    L     178      -       -           -
LGA    K     179      -       -           -
LGA    K     180      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   91   91    5.0     40    2.60    10.00     30.681     1.481

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.675659 * X  +  -0.292443 * Y  +   0.676729 * Z  + -12.591556
  Y_new =   0.647344 * X  +   0.674580 * Y  +  -0.354806 * Z  +  57.042831
  Z_new =  -0.352747 * X  +   0.677804 * Y  +   0.645097 * Z  +  -1.158360 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.810117   -2.331476  [ DEG:    46.4163   -133.5837 ]
  Theta =   0.360505    2.781087  [ DEG:    20.6554    159.3446 ]
  Phi   =   0.763999   -2.377593  [ DEG:    43.7739   -136.2261 ]
 
# 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: T0299TS599_4-D1                               
REMARK     2: T0299_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0299TS599_4-D1.T0299_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   91   91   5.0   40   2.60   10.00  30.681
REMARK  ---------------------------------------------------------- 
MOLECULE T0299TS599_4-D1
PFRMAT TS                                                                       
TARGET T0299                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -3.991  42.574  -9.803  1.00  0.00              
ATOM      2  CA  THR     2      -7.120  41.435  -7.239  1.00  0.00              
ATOM      3  CA  ARG     3      -6.498  44.338  -9.272  1.00  0.00              
ATOM      4  CA  TYR     4      -6.548  42.057  -5.741  1.00  0.00              
ATOM      5  CA  ALA     5      -4.864  45.045  -4.026  1.00  0.00              
ATOM      6  CA  LEU     6      -6.897  47.998  -5.287  1.00  0.00              
ATOM      7  CA  LEU     7     -10.012  46.047  -4.404  1.00  0.00              
ATOM      8  CA  VAL     8      -9.066  44.709  -0.938  1.00  0.00              
ATOM      9  CA  ARG     9      -7.374  47.816   0.544  1.00  0.00              
ATOM     10  CA  GLY    10     -10.173  50.008  -0.698  1.00  0.00              
ATOM     11  CA  ILE    11     -13.059  47.871   0.730  1.00  0.00              
ATOM     12  CA  ASN    12     -16.508  48.720  -0.363  1.00  0.00              
ATOM     13  CA  VAL    13     -19.484  46.623   0.604  1.00  0.00              
ATOM     14  CA  GLY    14     -22.334  46.518  -1.951  1.00  0.00              
ATOM     15  CA  GLY    15     -24.688  49.045  -0.350  1.00  0.00              
ATOM     16  CA  LYS    16     -22.090  51.800   0.272  1.00  0.00              
ATOM     17  CA  ASN    17     -20.670  50.530   3.476  1.00  0.00              
ATOM     18  CA  LYS    18     -17.053  50.884   3.937  1.00  0.00              
ATOM     19  CA  VAL    19     -15.120  48.002   5.363  1.00  0.00              
ATOM     20  CA  VAL    20     -11.819  48.577   7.044  1.00  0.00              
ATOM     21  CA  MET    21      -8.286  47.675   6.889  1.00  0.00              
ATOM     22  CA  ALA    22      -8.567  45.761  10.207  1.00  0.00              
ATOM     23  CA  GLU    23     -11.201  43.544   8.592  1.00  0.00              
ATOM     24  CA  LEU    24      -8.836  42.795   5.717  1.00  0.00              
ATOM     25  CA  ARG    25      -5.977  41.899   8.070  1.00  0.00              
ATOM     26  CA  GLN    26      -8.301  39.531   9.907  1.00  0.00              
ATOM     27  CA  GLU    27      -9.382  37.901   6.608  1.00  0.00              
ATOM     28  CA  LEU    28      -5.778  37.457   5.489  1.00  0.00              
ATOM     29  CA  THR    29      -4.987  35.733   8.837  1.00  0.00              
ATOM     30  CA  ASN    30      -7.943  33.437   8.485  1.00  0.00              
ATOM     31  CA  LEU    31      -6.920  32.549   4.986  1.00  0.00              
ATOM     32  CA  GLY    32      -3.339  31.611   6.029  1.00  0.00              
ATOM     33  CA  LEU    33      -1.435  34.656   4.852  1.00  0.00              
ATOM     34  CA  GLU    34       1.500  35.434   7.073  1.00  0.00              
ATOM     35  CA  LYS    35       3.257  37.983   4.781  1.00  0.00              
ATOM     36  CA  VAL    36       0.154  40.234   4.595  1.00  0.00              
ATOM     37  CA  GLU    37      -0.121  40.126   8.379  1.00  0.00              
ATOM     38  CA  SER    38       3.514  41.257   8.756  1.00  0.00              
ATOM     39  CA  TYR    39       2.955  44.107   6.321  1.00  0.00              
ATOM     40  CA  ILE    40      -0.197  45.273   8.116  1.00  0.00              
ATOM     41  CA  ASN    41       1.573  45.198  11.483  1.00  0.00              
ATOM     42  CA  SER    42       4.709  47.189  10.606  1.00  0.00              
ATOM     43  CA  GLY    43       2.734  50.038   9.038  1.00  0.00              
ATOM     44  CA  ASN    44       4.195  49.944   5.567  1.00  0.00              
ATOM     45  CA  ILE    45       2.058  50.023   2.488  1.00  0.00              
ATOM     46  CA  PHE    46       3.229  48.352  -0.683  1.00  0.00              
ATOM     47  CA  PHE    47       1.453  49.067  -3.913  1.00  0.00              
ATOM     48  CA  THR    48       2.260  47.186  -7.140  1.00  0.00              
ATOM     49  CA  SER    49       1.044  48.763 -10.274  1.00  0.00              
ATOM     50  CA  ILE    50      -0.454  46.614 -12.966  1.00  0.00              
ATOM     51  CA  ASP    51      -4.078  47.866 -12.537  1.00  0.00              
ATOM     52  CA  SER    52      -3.995  51.608 -12.245  1.00  0.00              
ATOM     53  CA  LYS    53      -5.578  53.309  -9.284  1.00  0.00              
ATOM     54  CA  ALA    54      -7.832  55.247 -11.664  1.00  0.00              
ATOM     55  CA  GLN    55      -9.097  52.053 -13.369  1.00  0.00              
ATOM     56  CA  LEU    56      -9.811  50.455  -9.975  1.00  0.00              
ATOM     57  CA  VAL    57     -11.701  53.583  -8.798  1.00  0.00              
ATOM     58  CA  GLU    58     -13.706  53.452 -12.039  1.00  0.00              
ATOM     59  CA  LYS    59     -14.587  49.783 -11.393  1.00  0.00              
ATOM     60  CA  LEU    60     -15.699  50.693  -7.858  1.00  0.00              
ATOM     61  CA  GLU    61     -17.838  53.579  -9.182  1.00  0.00              
ATOM     62  CA  THR    62     -19.489  51.300 -11.752  1.00  0.00              
ATOM     63  CA  PHE    63     -20.279  48.748  -9.048  1.00  0.00              
ATOM     64  CA  PHE    64     -21.680  51.446  -6.687  1.00  0.00              
ATOM     65  CA  ALA    65     -23.864  52.883  -9.386  1.00  0.00              
ATOM     66  CA  VAL    66     -25.209  49.485 -10.303  1.00  0.00              
ATOM     67  CA  HIS    67     -25.968  48.576  -6.728  1.00  0.00              
ATOM     68  CA  TYR    68     -27.414  51.769  -5.390  1.00  0.00              
ATOM     69  CA  PRO    69     -28.752  53.418  -8.587  1.00  0.00              
ATOM     70  CA  PHE    70     -27.134  56.626  -7.941  1.00  0.00              
ATOM     71  CA  ILE    71     -25.061  58.874  -9.932  1.00  0.00              
ATOM     72  CA  GLN    72     -22.816  60.853  -7.559  1.00  0.00              
ATOM     73  CA  SER    73     -21.673  64.138  -8.665  1.00  0.00              
ATOM     74  CA  PHE    74     -19.342  66.075  -6.451  1.00  0.00              
ATOM     75  CA  SER    75     -19.075  69.814  -6.584  1.00  0.00              
ATOM     76  CA  LEU    76     -16.378  71.658  -4.614  1.00  0.00              
ATOM     77  CA  LEU    77     -17.146  75.208  -3.880  1.00  0.00              
ATOM     78  CA  SER    78     -15.253  78.157  -2.545  1.00  0.00              
ATOM    168  CA  ALA   168       6.332  45.545  -8.271  1.00  0.00              
ATOM    169  CA  LYS   169       8.106  42.273  -7.490  1.00  0.00              
ATOM    170  CA  THR   170      11.535  43.982  -7.274  1.00  0.00              
ATOM    171  CA  PHE   171      10.156  46.690  -5.029  1.00  0.00              
ATOM    172  CA  ASP   172       8.514  44.136  -2.698  1.00  0.00              
ATOM    173  CA  LYS   173      11.844  42.338  -2.415  1.00  0.00              
ATOM    174  CA  ILE   174      13.559  45.673  -1.597  1.00  0.00              
ATOM    175  CA  GLY   175      10.923  46.510   1.022  1.00  0.00              
ATOM    176  CA  GLN   176      11.433  43.050   2.605  1.00  0.00              
ATOM    177  CA  MET   177      15.216  43.531   2.654  1.00  0.00              
ATOM    178  CA  LEU   178      15.009  46.887   4.228  1.00  0.00              
ATOM    179  CA  LYS   179      12.862  45.645   6.818  1.00  0.00              
ATOM    180  CA  LYS   180      12.340  48.977   4.284  1.00  0.00              
TER                                                                             
END
