
#######################################################
#                                                     #
#                        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 T0300TS599_1
# Molecule2: number of CA atoms   89 (  695),  selected   89 , name T0300
# PARAMETERS: T0300TS599_1.T0300  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D       7           -
LGA    A       2      K       8           -
LGA    S       3      T       9           -
LGA    K       4      Y      10           -
LGA    K       5      E      11           -
LGA    P       6      E      12           -
LGA    D       7      M      13           -
LGA    -       -      V      14           -
LGA    -       -      K      15           -
LGA    -       -      E      16           -
LGA    -       -      V      17           -
LGA    -       -      E      18           -
LGA    -       -      R      19           -
LGA    -       -      L      20           -
LGA    -       -      K      21           -
LGA    -       -      L      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    -       -      K      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      Q      29           -
LGA    -       -      K      30           -
LGA    -       -      V      31           -
LGA    -       -      S      39           -
LGA    -       -      D      40           -
LGA    -       -      D      41           -
LGA    -       -      S      42           -
LGA    -       -      I      43           -
LGA    K       8      L      44           #
LGA    T       9      T      45          3.087
LGA    Y      10      A      46          2.292
LGA    E      11      A      47          2.906
LGA    -       -      K      48           -
LGA    E      12      R      49          0.805
LGA    M      13      E      50          1.748
LGA    V      14      S      51          2.066
LGA    K      15      I      52          1.111
LGA    E      16      I      53          1.029
LGA    V      17      V      54          1.914
LGA    E      18      S      55          1.728
LGA    R      19      S      56          0.908
LGA    L      20      S      57          0.951
LGA    K      21      R      58          1.803
LGA    L      22      A      59          1.794
LGA    E      23      L      60          0.916
LGA    N      24      G      61          1.771
LGA    K      25      A      62          2.254
LGA    T      26      V      63          1.564
LGA    L      27      A      64          1.121
LGA    K      28      M      65          1.569
LGA    Q      29      R      66          1.150
LGA    K      30      K      67          1.386
LGA    V      31      I      68          1.669
LGA    K      32      E      69          0.956
LGA    S      33      A      70          1.702
LGA    S      34      K      71          2.746
LGA    -       -      V      72           -
LGA    -       -      R      73           -
LGA    G      35      S      74          0.368
LGA    A      36      R      75          0.949
LGA    V      37      A      76          1.407
LGA    S      38      A      77           #
LGA    S      39      K      78          2.950
LGA    D      40      A      79          4.145
LGA    D      41      V      80          2.352
LGA    S      42      T      81          3.987
LGA    I      43      E      82           -
LGA    L      44      -       -           -
LGA    T      45      Q      83          1.912
LGA    A      46      E      84           #
LGA    A      47      -       -           -
LGA    K      48      -       -           -
LGA    R      49      L      85          1.841
LGA    E      50      T      86          3.248
LGA    S      51      S      87          5.153
LGA    I      52      L      88          2.589
LGA    I      53      L      89          2.265
LGA    V      54      Q      90          5.213
LGA    S      55      S      91          4.551
LGA    S      56      L      92          2.233
LGA    S      57      -       -           -
LGA    R      58      -       -           -
LGA    A      59      T      93          2.167
LGA    L      60      L      94          1.735
LGA    G      61      -       -           -
LGA    A      62      -       -           -
LGA    V      63      R      95          1.378
LGA    A      64      V      96          1.171
LGA    M      65      -       -           -
LGA    R      66      -       -           -
LGA    K      67      -       -           -
LGA    I      68      D      97          3.954
LGA    E      69      V      98           #
LGA    A      70      S      99           -
LGA    K      71      -       -           -
LGA    V      72      M     100           #
LGA    R      73      E     101           -
LGA    S      74      E     102           -
LGA    R      75      -       -           -
LGA    A      76      -       -           -
LGA    A      77      -       -           -
LGA    K      78      -       -           -
LGA    A      79      -       -           -
LGA    V      80      -       -           -
LGA    T      81      -       -           -
LGA    E      82      -       -           -
LGA    Q      83      -       -           -
LGA    E      84      -       -           -
LGA    L      85      -       -           -
LGA    T      86      -       -           -
LGA    S      87      -       -           -
LGA    L      88      -       -           -
LGA    L      89      -       -           -
LGA    Q      90      -       -           -
LGA    S      91      -       -           -
LGA    L      92      -       -           -
LGA    T      93      -       -           -
LGA    L      94      -       -           -
LGA    R      95      -       -           -
LGA    V      96      -       -           -
LGA    D      97      -       -           -
LGA    V      98      -       -           -
LGA    S      99      -       -           -
LGA    M     100      -       -           -
LGA    E     101      -       -           -
LGA    E     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   89    5.0     47    2.38    12.77     41.177     1.893

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.872339 * X  +   0.078695 * Y  +  -0.482526 * Z  +  40.338001
  Y_new =   0.487811 * X  +  -0.205950 * Y  +   0.848307 * Z  + -20.806103
  Z_new =  -0.032619 * X  +  -0.975393 * Y  +  -0.218046 * Z  +   0.149996 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.790727    1.350865  [ DEG:  -102.6011     77.3989 ]
  Theta =   0.032624    3.108968  [ DEG:     1.8692    178.1308 ]
  Phi   =   0.509878   -2.631714  [ DEG:    29.2139   -150.7861 ]
 
# 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: T0300TS599_1                                  
REMARK     2: T0300                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0300TS599_1.T0300 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   89   5.0   47   2.38   12.77  41.177
REMARK  ---------------------------------------------------------- 
MOLECULE T0300TS599_1
PFRMAT TS                                                                       
TARGET T0300                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      52.668 -34.299  -9.790  1.00  0.00              
ATOM      2  CA  ALA     2      56.330 -36.382  -9.891  1.00  0.00              
ATOM      3  CA  SER     3      58.222 -33.181 -11.865  1.00  0.00              
ATOM      4  CA  LYS     4      55.634 -31.456 -13.616  1.00  0.00              
ATOM      5  CA  LYS     5      55.536 -28.107 -11.906  1.00  0.00              
ATOM      6  CA  PRO     6      53.640 -25.921 -14.359  1.00  0.00              
ATOM      7  CA  ASP     7      55.638 -22.759 -14.692  1.00  0.00              
ATOM      8  CA  LYS     8      53.831 -19.590 -13.852  1.00  0.00              
ATOM      9  CA  THR     9      54.628 -16.134 -15.335  1.00  0.00              
ATOM     10  CA  TYR    10      55.086 -13.219 -12.975  1.00  0.00              
ATOM     11  CA  GLU    11      51.962 -11.537 -14.181  1.00  0.00              
ATOM     12  CA  GLU    12      49.753 -14.584 -13.724  1.00  0.00              
ATOM     13  CA  MET    13      50.975 -15.226 -10.204  1.00  0.00              
ATOM     14  CA  VAL    14      50.398 -11.660  -9.160  1.00  0.00              
ATOM     15  CA  LYS    15      46.881 -11.704 -10.562  1.00  0.00              
ATOM     16  CA  GLU    16      46.160 -14.971  -8.681  1.00  0.00              
ATOM     17  CA  VAL    17      47.524 -13.438  -5.430  1.00  0.00              
ATOM     18  CA  GLU    18      45.317 -10.345  -5.928  1.00  0.00              
ATOM     19  CA  ARG    19      42.275 -12.576  -6.492  1.00  0.00              
ATOM     20  CA  LEU    20      42.970 -14.616  -3.359  1.00  0.00              
ATOM     21  CA  LYS    21      43.247 -11.371  -1.357  1.00  0.00              
ATOM     22  CA  LEU    22      39.841 -10.161  -2.646  1.00  0.00              
ATOM     23  CA  GLU    23      38.136 -13.506  -1.880  1.00  0.00              
ATOM     24  CA  ASN    24      39.596 -13.667   1.657  1.00  0.00              
ATOM     25  CA  LYS    25      38.384 -10.067   2.278  1.00  0.00              
ATOM     26  CA  THR    26      34.902 -10.945   1.036  1.00  0.00              
ATOM     27  CA  LEU    27      34.672 -13.991   3.342  1.00  0.00              
ATOM     28  CA  LYS    28      35.811 -11.852   6.291  1.00  0.00              
ATOM     29  CA  GLN    29      32.935  -9.390   5.674  1.00  0.00              
ATOM     30  CA  LYS    30      30.349 -12.150   5.417  1.00  0.00              
ATOM     31  CA  VAL    31      31.536 -13.727   8.719  1.00  0.00              
ATOM     32  CA  LYS    32      31.466 -10.471  10.581  1.00  0.00              
ATOM     33  CA  SER    33      27.896  -9.831   9.341  1.00  0.00              
ATOM     34  CA  SER    34      26.492 -13.246  10.242  1.00  0.00              
ATOM     35  CA  GLY    35      25.355 -13.003  13.744  1.00  0.00              
ATOM     36  CA  ALA    36      26.819 -16.070  15.372  1.00  0.00              
ATOM     37  CA  VAL    37      27.441 -14.711  18.880  1.00  0.00              
ATOM     38  CA  SER    38      26.774 -17.739  20.996  1.00  0.00              
ATOM     39  CA  SER    39      24.302 -16.478  23.617  1.00  0.00              
ATOM     40  CA  ASP    40      26.361 -16.136  26.811  1.00  0.00              
ATOM     41  CA  ASP    41      26.733 -12.394  26.891  1.00  0.00              
ATOM     42  CA  SER    42      26.082 -11.803  30.605  1.00  0.00              
ATOM     43  CA  ILE    43      28.458 -14.282  32.142  1.00  0.00              
ATOM     44  CA  LEU    44      31.502 -13.873  30.096  1.00  0.00              
ATOM     45  CA  THR    45      33.989 -11.223  30.429  1.00  0.00              
ATOM     46  CA  ALA    46      34.910  -8.850  27.669  1.00  0.00              
ATOM     47  CA  ALA    47      38.070 -10.866  26.848  1.00  0.00              
ATOM     48  CA  LYS    48      36.135 -14.101  26.767  1.00  0.00              
ATOM     49  CA  ARG    49      33.549 -12.523  24.494  1.00  0.00              
ATOM     50  CA  GLU    50      36.184 -11.276  22.031  1.00  0.00              
ATOM     51  CA  SER    51      37.841 -14.730  21.946  1.00  0.00              
ATOM     52  CA  ILE    52      34.530 -16.537  21.373  1.00  0.00              
ATOM     53  CA  ILE    53      33.569 -14.206  18.605  1.00  0.00              
ATOM     54  CA  VAL    54      36.977 -14.586  16.867  1.00  0.00              
ATOM     55  CA  SER    55      36.954 -18.326  17.094  1.00  0.00              
ATOM     56  CA  SER    56      33.402 -18.537  15.643  1.00  0.00              
ATOM     57  CA  SER    57      34.316 -16.246  12.798  1.00  0.00              
ATOM     58  CA  ARG    58      37.522 -18.159  11.942  1.00  0.00              
ATOM     59  CA  ALA    59      35.577 -21.420  11.839  1.00  0.00              
ATOM     60  CA  LEU    60      32.976 -19.816   9.516  1.00  0.00              
ATOM     61  CA  GLY    61      35.783 -18.508   7.248  1.00  0.00              
ATOM     62  CA  ALA    62      37.368 -21.921   7.129  1.00  0.00              
ATOM     63  CA  VAL    63      34.010 -23.502   6.215  1.00  0.00              
ATOM     64  CA  ALA    64      33.316 -21.007   3.496  1.00  0.00              
ATOM     65  CA  MET    65      36.794 -21.527   1.979  1.00  0.00              
ATOM     66  CA  ARG    66      36.353 -25.284   2.034  1.00  0.00              
ATOM     67  CA  LYS    67      32.932 -25.046   0.328  1.00  0.00              
ATOM     68  CA  ILE    68      34.270 -22.742  -2.330  1.00  0.00              
ATOM     69  CA  GLU    69      37.228 -25.111  -2.957  1.00  0.00              
ATOM     70  CA  ALA    70      34.917 -28.088  -3.317  1.00  0.00              
ATOM     71  CA  LYS    71      32.710 -26.204  -5.760  1.00  0.00              
ATOM     72  CA  VAL    72      35.695 -25.179  -7.828  1.00  0.00              
ATOM     73  CA  ARG    73      37.016 -28.699  -7.915  1.00  0.00              
ATOM     74  CA  SER    74      33.657 -30.035  -9.076  1.00  0.00              
ATOM     75  CA  ARG    75      33.411 -27.371 -11.760  1.00  0.00              
ATOM     76  CA  ALA    76      36.942 -28.175 -13.009  1.00  0.00              
ATOM     77  CA  ALA    77      36.199 -31.904 -13.106  1.00  0.00              
ATOM     78  CA  LYS    78      33.062 -31.271 -15.118  1.00  0.00              
ATOM     79  CA  ALA    79      34.822 -29.011 -17.664  1.00  0.00              
ATOM     80  CA  VAL    80      37.475 -31.696 -18.125  1.00  0.00              
ATOM     81  CA  THR    81      35.586 -35.016 -18.398  1.00  0.00              
ATOM     82  CA  GLU    82      35.972 -37.533 -15.562  1.00  0.00              
ATOM     83  CA  GLN    83      37.900 -39.909 -17.835  1.00  0.00              
ATOM     84  CA  GLU    84      40.182 -37.069 -18.909  1.00  0.00              
ATOM     85  CA  LEU    85      40.897 -35.966 -15.307  1.00  0.00              
ATOM     86  CA  THR    86      41.749 -39.524 -14.291  1.00  0.00              
ATOM     87  CA  SER    87      44.109 -39.793 -17.208  1.00  0.00              
ATOM     88  CA  LEU    88      45.800 -36.460 -16.295  1.00  0.00              
ATOM     89  CA  LEU    89      46.220 -37.577 -12.664  1.00  0.00              
ATOM     90  CA  GLN    90      47.758 -40.937 -13.610  1.00  0.00              
ATOM     91  CA  SER    91      50.206 -39.074 -15.907  1.00  0.00              
ATOM     92  CA  LEU    92      51.312 -36.500 -13.362  1.00  0.00              
ATOM     93  CA  THR    93      50.060 -32.909 -13.775  1.00  0.00              
ATOM     94  CA  LEU    94      52.025 -30.487 -11.668  1.00  0.00              
ATOM     95  CA  ARG    95      51.036 -26.908 -11.193  1.00  0.00              
ATOM     96  CA  VAL    96      53.896 -24.551 -10.331  1.00  0.00              
ATOM     97  CA  ASP    97      53.315 -21.124  -8.938  1.00  0.00              
ATOM     98  CA  VAL    98      56.262 -18.823  -9.036  1.00  0.00              
ATOM     99  CA  SER    99      57.291 -15.760  -7.316  1.00  0.00              
ATOM    100  CA  MET   100      59.270 -13.053  -8.587  1.00  0.00              
ATOM    101  CA  GLU   101      58.040  -9.720  -6.331  1.00  0.00              
ATOM    102  CA  GLU   102      54.612  -7.277  -6.352  1.00  0.00              
TER                                                                             
END
