
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS599_2.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      -       -           -
LGA    I      10      L       6           #
LGA    -       -      R       7           -
LGA    -       -      Y       8           -
LGA    L      11      A       9           #
LGA    K      12      I      10          2.780
LGA    E      13      L      11          4.011
LGA    I      14      K      12          2.431
LGA    -       -      E      13           -
LGA    -       -      I      14           -
LGA    F      15      F      15          4.546
LGA    E      16      -       -           -
LGA    G      17      -       -           -
LGA    N      18      -       -           -
LGA    T      19      -       -           -
LGA    P      20      E      16           #
LGA    L      21      G      17           -
LGA    S      22      N      18           -
LGA    E      23      T      19           -
LGA    N      24      P      20           -
LGA    D      25      L      21           -
LGA    -       -      S      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    I      26      D      25          4.186
LGA    G      27      I      26          3.945
LGA    V      28      G      27          3.698
LGA    -       -      V      28           -
LGA    T      29      T      29          2.040
LGA    E      30      E      30          1.707
LGA    D      31      D      31          1.210
LGA    Q      32      Q      32          1.354
LGA    F      33      F      33          1.459
LGA    D      34      D      34          0.965
LGA    D      35      D      35          0.788
LGA    A      36      A      36          1.012
LGA    V      37      V      37          0.787
LGA    N      38      N      38          1.047
LGA    F      39      F      39          1.229
LGA    L      40      L      40          0.569
LGA    K      41      K      41          1.214
LGA    R      42      R      42          1.722
LGA    E      43      E      43          1.406
LGA    G      44      G      44          0.778
LGA    Y      45      Y      45          1.203
LGA    I      46      I      46          1.196
LGA    I      47      I      47          2.174
LGA    G      48      G      48          2.777
LGA    V      49      V      49          1.134
LGA    -       -      H      50           -
LGA    -       -      Y      51           -
LGA    -       -      S      52           -
LGA    -       -      D      53           -
LGA    -       -      D      54           -
LGA    -       -      R      55           -
LGA    H      50      P      56           #
LGA    Y      51      H      57          3.485
LGA    S      52      L      58           #
LGA    D      53      Y      59           #
LGA    D      54      -       -           -
LGA    R      55      -       -           -
LGA    P      56      -       -           -
LGA    H      57      K      60          4.394
LGA    L      58      L      61           #
LGA    Y      59      G      62          3.128
LGA    K      60      P      63          1.240
LGA    L      61      E      64          4.827
LGA    G      62      -       -           -
LGA    P      63      L      65           #
LGA    E      64      T      66          3.631
LGA    L      65      E      67          2.446
LGA    T      66      K      68          1.582
LGA    -       -      G      69           -
LGA    E      67      E      70          4.003
LGA    K      68      N      71          2.750
LGA    G      69      Y      72          5.500
LGA    E      70      L      73           #
LGA    N      71      -       -           -
LGA    Y      72      K      74           #
LGA    L      73      E      75           -
LGA    K      74      N      76           -
LGA    E      75      G      77           -
LGA    N      76      -       -           -
LGA    G      77      -       -           -
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     39    2.68    58.97     39.242     1.401

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.918405 * X  +  -0.393926 * Y  +   0.036794 * Z  +   6.019310
  Y_new =  -0.386636 * X  +  -0.913341 * Y  +  -0.127756 * Z  +   2.207808
  Z_new =   0.083932 * X  +   0.103106 * Y  +  -0.991123 * Z  +  -2.809810 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.037936   -0.103657  [ DEG:   174.0609     -5.9391 ]
  Theta =  -0.084030   -3.057562  [ DEG:    -4.8146   -175.1854 ]
  Phi   =  -0.398466    2.743127  [ DEG:   -22.8304    157.1696 ]
 
# 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_2                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS599_2.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   39   2.68   58.97  39.242
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS599_2
PFRMAT TS                                                                       
TARGET T0327                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       2.098  13.363  -2.675  1.00  0.00              
ATOM      2  CA  ASN     2       4.317  16.130  -3.661  1.00  0.00              
ATOM      3  CA  LYS     3       7.910  17.317  -5.508  1.00  0.00              
ATOM      4  CA  ASP     4       7.996  13.573  -7.422  1.00  0.00              
ATOM      5  CA  LYS     5       8.860  11.730  -4.168  1.00  0.00              
ATOM      6  CA  LEU     6       6.057   9.246  -3.916  1.00  0.00              
ATOM      7  CA  ARG     7       4.752   8.576  -0.463  1.00  0.00              
ATOM      8  CA  TYR     8       3.495   5.102   0.504  1.00  0.00              
ATOM      9  CA  ALA     9       0.194   5.252   2.420  1.00  0.00              
ATOM     10  CA  ILE    10      -1.046   7.565  -0.400  1.00  0.00              
ATOM     11  CA  LEU    11       0.243   5.381  -3.264  1.00  0.00              
ATOM     12  CA  LYS    12      -1.304   2.293  -1.655  1.00  0.00              
ATOM     13  CA  GLU    13      -4.719   3.956  -1.220  1.00  0.00              
ATOM     14  CA  ILE    14      -4.719   5.140  -4.814  1.00  0.00              
ATOM     15  CA  PHE    15      -3.769   1.807  -6.253  1.00  0.00              
ATOM     16  CA  GLU    16      -6.428  -0.141  -4.392  1.00  0.00              
ATOM     17  CA  GLY    17      -9.540   1.694  -5.583  1.00  0.00              
ATOM     18  CA  ASN    18      -8.484   2.672  -9.079  1.00  0.00              
ATOM     19  CA  THR    19      -9.140   6.438  -8.918  1.00  0.00              
ATOM     20  CA  PRO    20      -6.151   8.640  -9.748  1.00  0.00              
ATOM     21  CA  LEU    21      -4.860  10.530  -6.744  1.00  0.00              
ATOM     22  CA  SER    22      -4.782  14.202  -6.544  1.00  0.00              
ATOM     23  CA  GLU    23      -1.613  15.798  -5.309  1.00  0.00              
ATOM     24  CA  ASN    24      -3.458  18.217  -3.117  1.00  0.00              
ATOM     25  CA  ASP    25      -5.186  15.577  -1.078  1.00  0.00              
ATOM     26  CA  ILE    26      -2.329  13.433   0.118  1.00  0.00              
ATOM     27  CA  GLY    27      -1.864  13.063   3.833  1.00  0.00              
ATOM     28  CA  VAL    28      -0.861   9.711   5.287  1.00  0.00              
ATOM     29  CA  THR    29       0.619   9.671   8.736  1.00  0.00              
ATOM     30  CA  GLU    30       3.574   7.383   9.519  1.00  0.00              
ATOM     31  CA  ASP    31       1.385   5.181  11.769  1.00  0.00              
ATOM     32  CA  GLN    32      -1.339   4.913   9.130  1.00  0.00              
ATOM     33  CA  PHE    33       1.369   3.911   6.561  1.00  0.00              
ATOM     34  CA  ASP    34       2.676   1.142   8.736  1.00  0.00              
ATOM     35  CA  ASP    35      -0.933  -0.118   9.197  1.00  0.00              
ATOM     36  CA  ALA    36      -1.523  -0.137   5.472  1.00  0.00              
ATOM     37  CA  VAL    37       1.743  -2.067   5.025  1.00  0.00              
ATOM     38  CA  ASN    38       0.819  -4.637   7.664  1.00  0.00              
ATOM     39  CA  PHE    39      -2.642  -5.193   6.142  1.00  0.00              
ATOM     40  CA  LEU    40      -1.172  -5.604   2.704  1.00  0.00              
ATOM     41  CA  LYS    41       1.405  -8.139   3.991  1.00  0.00              
ATOM     42  CA  ARG    42      -1.191 -10.219   5.725  1.00  0.00              
ATOM     43  CA  GLU    43      -3.391 -10.303   2.580  1.00  0.00              
ATOM     44  CA  GLY    44      -0.547 -11.353   0.333  1.00  0.00              
ATOM     45  CA  TYR    45      -0.436  -8.197  -1.737  1.00  0.00              
ATOM     46  CA  ILE    46       3.120  -6.786  -1.497  1.00  0.00              
ATOM     47  CA  ILE    47       5.608  -8.843   0.401  1.00  0.00              
ATOM     48  CA  GLY    48       8.568  -6.991   1.721  1.00  0.00              
ATOM     49  CA  VAL    49       8.309  -3.279   1.920  1.00  0.00              
ATOM     50  CA  HIS    50      11.292  -1.175   1.120  1.00  0.00              
ATOM     51  CA  TYR    51      11.261   2.495   1.903  1.00  0.00              
ATOM     52  CA  SER    52      14.386   4.466   1.201  1.00  0.00              
ATOM     53  CA  ASP    53      15.635   6.941   3.862  1.00  0.00              
ATOM     54  CA  ASP    54      15.561  10.168   1.935  1.00  0.00              
ATOM     55  CA  ARG    55      13.036   9.762  -0.661  1.00  0.00              
ATOM     56  CA  PRO    56       9.374   8.995  -0.419  1.00  0.00              
ATOM     57  CA  HIS    57       9.031   6.141  -2.846  1.00  0.00              
ATOM     58  CA  LEU    58       7.837   2.801  -1.374  1.00  0.00              
ATOM     59  CA  TYR    59       9.138  -0.301  -2.980  1.00  0.00              
ATOM     60  CA  LYS    60       7.272  -3.516  -2.651  1.00  0.00              
ATOM     61  CA  LEU    61       9.279  -6.679  -2.865  1.00  0.00              
ATOM     62  CA  GLY    62       7.845 -10.155  -2.917  1.00  0.00              
ATOM     63  CA  PRO    63       4.849 -11.397  -4.684  1.00  0.00              
ATOM     64  CA  GLU    64       1.303 -11.529  -3.524  1.00  0.00              
ATOM     65  CA  LEU    65      -0.751 -10.168  -6.351  1.00  0.00              
ATOM     66  CA  THR    66      -4.340  -8.869  -6.292  1.00  0.00              
ATOM     67  CA  GLU    67      -5.859  -8.611  -9.823  1.00  0.00              
ATOM     68  CA  LYS    68      -6.669  -4.953  -9.951  1.00  0.00              
ATOM     69  CA  GLY    69      -3.575  -4.046  -8.021  1.00  0.00              
ATOM     70  CA  GLU    70      -1.183  -5.585 -10.453  1.00  0.00              
ATOM     71  CA  ASN    71      -2.888  -4.018 -13.465  1.00  0.00              
ATOM     72  CA  TYR    72      -3.144  -0.523 -11.993  1.00  0.00              
ATOM     73  CA  LEU    73       0.483  -0.517 -10.949  1.00  0.00              
ATOM     74  CA  LYS    74       1.522  -1.664 -14.420  1.00  0.00              
ATOM     75  CA  GLU    75      -0.488   0.488 -16.775  1.00  0.00              
ATOM     76  CA  ASN    76       0.514   3.800 -15.206  1.00  0.00              
ATOM     77  CA  GLY    77       4.168   2.753 -14.692  1.00  0.00              
ATOM     78  CA  THR    78       4.134   3.232 -10.913  1.00  0.00              
ATOM     79  CA  TRP    79       5.518  -0.212 -10.008  1.00  0.00              
ATOM     80  CA  SER    80       8.346   0.180 -12.565  1.00  0.00              
ATOM     81  CA  LYS    81       9.281   3.602 -11.232  1.00  0.00              
ATOM     82  CA  ALA    82       9.234   2.281  -7.590  1.00  0.00              
ATOM     83  CA  TYR    83      11.420  -0.637  -8.665  1.00  0.00              
ATOM     84  CA  LYS    84      13.827   1.759 -10.408  1.00  0.00              
ATOM     85  CA  THR    85      14.107   3.878  -7.247  1.00  0.00              
ATOM     86  CA  ILE    86      14.783   0.702  -5.233  1.00  0.00              
ATOM     87  CA  LYS    87      17.523  -0.435  -7.633  1.00  0.00              
ATOM     88  CA  GLU    88      19.168   3.045  -7.452  1.00  0.00              
ATOM     89  CA  ILE    89      19.039   2.957  -3.634  1.00  0.00              
ATOM     90  CA  LYS    90      20.598  -0.551  -3.587  1.00  0.00              
ATOM     91  CA  ASP    91      23.502   0.573  -5.708  1.00  0.00              
ATOM     92  CA  TRP    92      24.121   3.607  -3.455  1.00  0.00              
ATOM     93  CA  ILE    93      23.901   1.544  -0.234  1.00  0.00              
ATOM     94  CA  LYS    94      26.331  -1.075  -1.665  1.00  0.00              
ATOM     95  CA  LEU    95      28.988   1.620  -2.203  1.00  0.00              
ATOM     96  CA  GLU    96      30.103   0.890  -5.725  1.00  0.00              
ATOM     97  CA  HIS    97      33.184   3.092  -6.224  1.00  0.00              
ATOM     98  CA  HIS    98      31.997   6.312  -4.702  1.00  0.00              
ATOM     99  CA  HIS    99      32.187   6.919  -1.000  1.00  0.00              
ATOM    100  CA  HIS   100      28.731   7.006   0.138  1.00  0.00              
ATOM    101  CA  HIS   101      25.212   5.742   2.059  1.00  0.00              
ATOM    102  CA  HIS   102      22.153   7.455   1.252  1.00  0.00              
TER                                                                             
END
