
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0327TS599_4
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS599_4.T0327.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      K       5           -
LGA    N       2      -       -           -
LGA    K       3      -       -           -
LGA    D       4      -       -           -
LGA    K       5      -       -           -
LGA    L       6      -       -           -
LGA    R       7      -       -           -
LGA    Y       8      -       -           -
LGA    A       9      L       6           #
LGA    I      10      R       7          4.282
LGA    L      11      Y       8          3.526
LGA    K      12      A       9          3.631
LGA    E      13      I      10           #
LGA    I      14      L      11           -
LGA    F      15      K      12           -
LGA    E      16      -       -           -
LGA    G      17      -       -           -
LGA    N      18      -       -           -
LGA    T      19      -       -           -
LGA    P      20      -       -           -
LGA    L      21      -       -           -
LGA    S      22      -       -           -
LGA    E      23      E      13           #
LGA    N      24      I      14           -
LGA    D      25      F      15           -
LGA    -       -      E      16           -
LGA    -       -      G      17           -
LGA    -       -      N      18           -
LGA    -       -      T      19           -
LGA    -       -      P      20           -
LGA    -       -      L      21           -
LGA    -       -      S      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    I      26      D      25          5.022
LGA    G      27      I      26           #
LGA    -       -      G      27           -
LGA    V      28      V      28          0.966
LGA    T      29      T      29          0.870
LGA    E      30      E      30          0.855
LGA    D      31      D      31          1.133
LGA    Q      32      Q      32          1.193
LGA    F      33      F      33          1.171
LGA    D      34      D      34          1.159
LGA    D      35      D      35          1.157
LGA    A      36      A      36          1.084
LGA    V      37      V      37          1.036
LGA    N      38      N      38          0.894
LGA    F      39      F      39          0.755
LGA    L      40      L      40          0.943
LGA    K      41      K      41          0.832
LGA    R      42      R      42          0.663
LGA    E      43      E      43          0.897
LGA    G      44      G      44          1.492
LGA    Y      45      Y      45          1.384
LGA    I      46      I      46          0.548
LGA    I      47      I      47          0.676
LGA    G      48      G      48          2.570
LGA    -       -      V      49           -
LGA    -       -      H      50           -
LGA    -       -      Y      51           -
LGA    -       -      S      52           -
LGA    -       -      D      53           -
LGA    -       -      D      54           -
LGA    -       -      R      55           -
LGA    V      49      P      56           #
LGA    H      50      H      57          3.627
LGA    Y      51      L      58          5.014
LGA    S      52      -       -           -
LGA    D      53      -       -           -
LGA    D      54      -       -           -
LGA    R      55      -       -           -
LGA    P      56      -       -           -
LGA    H      57      -       -           -
LGA    L      58      -       -           -
LGA    Y      59      -       -           -
LGA    K      60      Y      59           #
LGA    L      61      K      60           #
LGA    -       -      L      61           -
LGA    -       -      G      62           -
LGA    G      62      P      63          2.627
LGA    P      63      E      64          1.603
LGA    E      64      L      65          4.146
LGA    L      65      T      66          0.477
LGA    T      66      E      67          4.425
LGA    E      67      -       -           -
LGA    K      68      K      68          3.852
LGA    G      69      G      69          2.677
LGA    E      70      E      70          1.761
LGA    N      71      N      71          1.583
LGA    Y      72      Y      72          2.405
LGA    L      73      L      73          0.631
LGA    K      74      K      74          1.907
LGA    E      75      E      75          3.910
LGA    N      76      N      76          4.526
LGA    G      77      G      77          3.023
LGA    T      78      -       -           -
LGA    W      79      -       -           -
LGA    S      80      -       -           -
LGA    K      81      -       -           -
LGA    A      82      -       -           -
LGA    Y      83      -       -           -
LGA    K      84      -       -           -
LGA    T      85      -       -           -
LGA    I      86      -       -           -
LGA    K      87      -       -           -
LGA    E      88      -       -           -
LGA    I      89      -       -           -
LGA    K      90      -       -           -
LGA    D      91      -       -           -
LGA    W      92      -       -           -
LGA    I      93      -       -           -
LGA    K      94      -       -           -
LGA    L      95      -       -           -
LGA    E      96      -       -           -
LGA    H      97      -       -           -
LGA    H      98      -       -           -
LGA    H      99      -       -           -
LGA    H     100      -       -           -
LGA    H     101      -       -           -
LGA    H     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   73    5.0     42    2.50    76.19     42.120     1.613

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.172393 * X  +   0.627815 * Y  +  -0.759031 * Z  +  -1.362436
  Y_new =   0.351447 * X  +   0.759056 * Y  +   0.548014 * Z  +   5.565620
  Z_new =   0.920199 * X  +  -0.172285 * Y  +  -0.351500 * Z  +  -1.380649 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.685861    0.455732  [ DEG:  -153.8885     26.1115 ]
  Theta =  -1.168588   -1.973005  [ DEG:   -66.9552   -113.0448 ]
  Phi   =   2.026834   -1.114758  [ DEG:   116.1291    -63.8710 ]
 
# 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: T0327TS599_4                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS599_4.T0327.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   73   5.0   42   2.50   76.19  42.120
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS599_4
PFRMAT TS                                                                       
TARGET T0327                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       8.186   9.669   0.961  1.00  0.00              
ATOM      2  CA  ASN     2       7.832  12.474  -2.166  1.00  0.00              
ATOM      3  CA  LYS     3       4.164  13.972  -3.557  1.00  0.00              
ATOM      4  CA  ASP     4       2.885  11.214  -6.459  1.00  0.00              
ATOM      5  CA  LYS     5       4.182   8.190  -4.460  1.00  0.00              
ATOM      6  CA  LEU     6       0.964   6.446  -3.660  1.00  0.00              
ATOM      7  CA  ARG     7       0.347   2.759  -3.482  1.00  0.00              
ATOM      8  CA  TYR     8      -3.103   1.604  -4.701  1.00  0.00              
ATOM      9  CA  ALA     9      -3.603  -1.751  -2.943  1.00  0.00              
ATOM     10  CA  ILE    10      -2.619  -0.045   0.366  1.00  0.00              
ATOM     11  CA  LEU    11      -4.901   2.968  -0.064  1.00  0.00              
ATOM     12  CA  LYS    12      -7.849   0.833  -1.240  1.00  0.00              
ATOM     13  CA  GLU    13      -7.497  -1.504   1.683  1.00  0.00              
ATOM     14  CA  ILE    14      -7.386   1.549   4.015  1.00  0.00              
ATOM     15  CA  PHE    15     -10.542   3.182   2.558  1.00  0.00              
ATOM     16  CA  GLU    16     -12.276  -0.177   3.154  1.00  0.00              
ATOM     17  CA  GLY    17     -11.072  -0.300   6.766  1.00  0.00              
ATOM     18  CA  ASN    18     -12.346   2.964   8.101  1.00  0.00              
ATOM     19  CA  THR    19      -9.233   4.990   8.663  1.00  0.00              
ATOM     20  CA  PRO    20      -9.905   8.507   7.419  1.00  0.00              
ATOM     21  CA  LEU    21      -7.478   9.720   4.808  1.00  0.00              
ATOM     22  CA  SER    22      -9.160  11.576   1.906  1.00  0.00              
ATOM     23  CA  GLU    23      -7.225  11.870  -1.282  1.00  0.00              
ATOM     24  CA  ASN    24      -7.582  15.643  -1.553  1.00  0.00              
ATOM     25  CA  ASP    25      -6.327  16.352   1.919  1.00  0.00              
ATOM     26  CA  ILE    26      -3.470  13.785   2.298  1.00  0.00              
ATOM     27  CA  GLY    27      -3.274  13.175   5.990  1.00  0.00              
ATOM     28  CA  VAL    28      -2.201   9.730   7.326  1.00  0.00              
ATOM     29  CA  THR    29      -0.320   9.540  10.565  1.00  0.00              
ATOM     30  CA  GLU    30       2.929   7.533  10.916  1.00  0.00              
ATOM     31  CA  ASP    31       1.332   4.925  13.128  1.00  0.00              
ATOM     32  CA  GLN    32      -1.602   4.346  10.748  1.00  0.00              
ATOM     33  CA  PHE    33       0.804   4.017   7.840  1.00  0.00              
ATOM     34  CA  ASP    34       3.045   1.427   9.575  1.00  0.00              
ATOM     35  CA  ASP    35       0.019  -0.607  10.578  1.00  0.00              
ATOM     36  CA  ALA    36      -1.287  -0.562   7.043  1.00  0.00              
ATOM     37  CA  VAL    37       2.033  -1.638   5.647  1.00  0.00              
ATOM     38  CA  ASN    38       2.359  -4.473   8.094  1.00  0.00              
ATOM     39  CA  PHE    39      -1.189  -5.740   7.360  1.00  0.00              
ATOM     40  CA  LEU    40      -0.630  -5.616   3.665  1.00  0.00              
ATOM     41  CA  LYS    41       2.610  -7.514   3.865  1.00  0.00              
ATOM     42  CA  ARG    42       1.012 -10.174   6.025  1.00  0.00              
ATOM     43  CA  GLU    43      -1.666 -10.778   3.376  1.00  0.00              
ATOM     44  CA  GLY    44       1.009 -11.072   0.651  1.00  0.00              
ATOM     45  CA  TYR    45      -0.145  -8.189  -1.434  1.00  0.00              
ATOM     46  CA  ILE    46       2.590  -5.666  -1.781  1.00  0.00              
ATOM     47  CA  ILE    47       6.002  -6.568  -0.830  1.00  0.00              
ATOM     48  CA  GLY    48       7.871  -3.320  -0.392  1.00  0.00              
ATOM     49  CA  VAL    49       6.214  -0.417   1.274  1.00  0.00              
ATOM     50  CA  HIS    50       8.061   2.649   2.041  1.00  0.00              
ATOM     51  CA  TYR    51       6.531   5.093   4.457  1.00  0.00              
ATOM     52  CA  SER    52       8.191   8.414   5.002  1.00  0.00              
ATOM     53  CA  ASP    53       8.585  10.097   8.334  1.00  0.00              
ATOM     54  CA  ASP    54       5.315  12.037   8.897  1.00  0.00              
ATOM     55  CA  ARG    55       4.844  13.339   5.382  1.00  0.00              
ATOM     56  CA  PRO    56       1.805  11.710   3.691  1.00  0.00              
ATOM     57  CA  HIS    57       3.010  10.119   0.456  1.00  0.00              
ATOM     58  CA  LEU    58       3.244   6.354   0.368  1.00  0.00              
ATOM     59  CA  TYR    59       5.790   4.744  -1.874  1.00  0.00              
ATOM     60  CA  LYS    60       5.378   1.295  -3.018  1.00  0.00              
ATOM     61  CA  LEU    61       8.443  -0.602  -4.066  1.00  0.00              
ATOM     62  CA  GLY    62       8.376  -4.321  -4.524  1.00  0.00              
ATOM     63  CA  PRO    63       5.830  -6.093  -6.597  1.00  0.00              
ATOM     64  CA  GLU    64       4.050  -8.935  -4.869  1.00  0.00              
ATOM     65  CA  LEU    65       0.390  -8.716  -5.902  1.00  0.00              
ATOM     66  CA  THR    66      -2.354 -10.615  -4.078  1.00  0.00              
ATOM     67  CA  GLU    67      -5.277 -11.935  -6.284  1.00  0.00              
ATOM     68  CA  LYS    68      -8.067 -10.133  -4.546  1.00  0.00              
ATOM     69  CA  GLY    69      -6.049  -6.910  -4.134  1.00  0.00              
ATOM     70  CA  GLU    70      -5.109  -6.411  -7.737  1.00  0.00              
ATOM     71  CA  ASN    71      -8.551  -7.239  -9.007  1.00  0.00              
ATOM     72  CA  TYR    72     -10.203  -4.917  -6.547  1.00  0.00              
ATOM     73  CA  LEU    73      -8.002  -1.979  -7.380  1.00  0.00              
ATOM     74  CA  LYS    74      -8.531  -2.383 -11.070  1.00  0.00              
ATOM     75  CA  GLU    75     -12.185  -3.119 -11.459  1.00  0.00              
ATOM     76  CA  ASN    76     -13.582  -0.399  -9.222  1.00  0.00              
ATOM     77  CA  GLY    77     -11.296   2.367 -10.362  1.00  0.00              
ATOM     78  CA  THR    78      -9.340   2.867  -7.089  1.00  0.00              
ATOM     79  CA  TRP    79      -6.007   2.955  -8.903  1.00  0.00              
ATOM     80  CA  SER    80      -7.320   5.497 -11.408  1.00  0.00              
ATOM     81  CA  LYS    81      -8.710   7.803  -8.695  1.00  0.00              
ATOM     82  CA  ALA    82      -5.459   7.524  -6.838  1.00  0.00              
ATOM     83  CA  TYR    83      -3.452   8.409  -9.972  1.00  0.00              
ATOM     84  CA  LYS    84      -5.595  11.493 -10.502  1.00  0.00              
ATOM     85  CA  THR    85      -4.944  12.632  -6.906  1.00  0.00              
ATOM     86  CA  ILE    86      -1.222  12.088  -7.325  1.00  0.00              
ATOM     87  CA  LYS    87      -1.184  14.051 -10.622  1.00  0.00              
ATOM     88  CA  GLU    88      -3.055  16.971  -8.963  1.00  0.00              
ATOM     89  CA  ILE    89      -0.560  16.973  -6.065  1.00  0.00              
ATOM     90  CA  LYS    90       2.352  17.021  -8.553  1.00  0.00              
ATOM     91  CA  ASP    91       0.775  19.944 -10.364  1.00  0.00              
ATOM     92  CA  TRP    92       0.311  21.836  -7.079  1.00  0.00              
ATOM     93  CA  ILE    93       3.912  21.230  -5.875  1.00  0.00              
ATOM     94  CA  LYS    94       5.332  22.283  -9.259  1.00  0.00              
ATOM     95  CA  LEU    95       3.325  25.558  -9.485  1.00  0.00              
ATOM     96  CA  GLU    96       2.004  25.325 -13.001  1.00  0.00              
ATOM     97  CA  HIS    97      -0.483  28.106 -13.426  1.00  0.00              
ATOM     98  CA  HIS    98      -2.612  27.704 -10.335  1.00  0.00              
ATOM     99  CA  HIS    99      -1.171  28.947  -7.052  1.00  0.00              
ATOM    100  CA  HIS   100      -0.723  25.431  -5.295  1.00  0.00              
ATOM    101  CA  HIS   101      -0.074  26.286  -1.237  1.00  0.00              
ATOM    102  CA  HIS   102       3.786  26.400  -0.810  1.00  0.00              
TER                                                                             
END
