
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms   89 (  695),  selected   89 , name T0300
# PARAMETERS: T0300TS599_4.T0300  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    A       2      -       -           -
LGA    S       3      -       -           -
LGA    K       4      -       -           -
LGA    K       5      -       -           -
LGA    P       6      -       -           -
LGA    D       7      -       -           -
LGA    K       8      -       -           -
LGA    T       9      -       -           -
LGA    Y      10      -       -           -
LGA    E      11      -       -           -
LGA    E      12      -       -           -
LGA    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      D       7           #
LGA    Q      29      K       8           #
LGA    -       -      T       9           -
LGA    -       -      Y      10           -
LGA    K      30      E      11          4.327
LGA    V      31      E      12          3.642
LGA    K      32      M      13          4.047
LGA    S      33      -       -           -
LGA    S      34      -       -           -
LGA    G      35      -       -           -
LGA    A      36      -       -           -
LGA    V      37      V      14           #
LGA    -       -      K      15           -
LGA    -       -      E      16           -
LGA    -       -      V      17           -
LGA    S      38      E      18           #
LGA    S      39      R      19           -
LGA    D      40      L      20           #
LGA    D      41      K      21          1.761
LGA    S      42      L      22          5.290
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    I      43      D      41           #
LGA    L      44      S      42           #
LGA    -       -      I      43           -
LGA    T      45      L      44          4.222
LGA    -       -      T      45           -
LGA    -       -      A      46           -
LGA    -       -      A      47           -
LGA    -       -      K      48           -
LGA    A      46      R      49          3.848
LGA    A      47      E      50          2.400
LGA    K      48      S      51          3.740
LGA    R      49      I      52          3.592
LGA    E      50      I      53          1.883
LGA    S      51      V      54          1.601
LGA    I      52      S      55          2.385
LGA    I      53      S      56          1.983
LGA    V      54      S      57          0.916
LGA    S      55      R      58          0.981
LGA    S      56      A      59          1.086
LGA    S      57      L      60          1.753
LGA    R      58      G      61          1.856
LGA    A      59      A      62          1.240
LGA    L      60      V      63          1.031
LGA    G      61      A      64          1.955
LGA    A      62      M      65          2.144
LGA    V      63      R      66          1.224
LGA    A      64      K      67          1.060
LGA    M      65      I      68          1.548
LGA    R      66      E      69          1.373
LGA    K      67      A      70          0.827
LGA    I      68      K      71          0.967
LGA    E      69      V      72          1.168
LGA    A      70      R      73          1.070
LGA    K      71      S      74          0.907
LGA    V      72      R      75          0.462
LGA    R      73      A      76          0.828
LGA    S      74      A      77          1.384
LGA    R      75      K      78          3.291
LGA    A      76      A      79          4.890
LGA    A      77      -       -           -
LGA    K      78      -       -           -
LGA    A      79      -       -           -
LGA    V      80      -       -           -
LGA    T      81      V      80           #
LGA    E      82      T      81          3.043
LGA    -       -      E      82           -
LGA    Q      83      Q      83          2.313
LGA    E      84      E      84          3.507
LGA    L      85      L      85          3.038
LGA    T      86      T      86          1.316
LGA    S      87      S      87          1.582
LGA    L      88      L      88          1.586
LGA    L      89      L      89          1.457
LGA    Q      90      Q      90          2.897
LGA    S      91      S      91          4.037
LGA    L      92      L      92          4.011
LGA    -       -      T      93           -
LGA    T      93      L      94          3.559
LGA    L      94      R      95           #
LGA    R      95      V      96          3.577
LGA    V      96      D      97           #
LGA    D      97      V      98          1.916
LGA    V      98      S      99          4.578
LGA    S      99      M     100          1.031
LGA    M     100      E     101           #
LGA    E     101      E     102           -
LGA    E     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   89    5.0     53    2.63    22.64     44.327     1.940

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.234331 * X  +  -0.351511 * Y  +   0.906383 * Z  +  31.344254
  Y_new =   0.186467 * X  +   0.931282 * Y  +   0.312959 * Z  + -13.478971
  Z_new =  -0.954107 * X  +   0.095674 * Y  +   0.283773 * Z  +  -1.728528 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.325182   -2.816410  [ DEG:    18.6316   -161.3684 ]
  Theta =   1.266662    1.874931  [ DEG:    72.5744    107.4256 ]
  Phi   =   0.672139   -2.469453  [ DEG:    38.5107   -141.4893 ]
 
# 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_4                                  
REMARK     2: T0300                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0300TS599_4.T0300 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   89   5.0   53   2.63   22.64  44.327
REMARK  ---------------------------------------------------------- 
MOLECULE T0300TS599_4
PFRMAT TS                                                                       
TARGET T0300                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      10.953 -21.332 -15.729  1.00  0.00              
ATOM      2  CA  ALA     2      10.038 -17.944 -15.005  1.00  0.00              
ATOM      3  CA  SER     3      10.170 -19.695 -11.410  1.00  0.00              
ATOM      4  CA  LYS     4       8.230 -21.576  -8.188  1.00  0.00              
ATOM      5  CA  LYS     5       9.241 -25.036  -9.494  1.00  0.00              
ATOM      6  CA  PRO     6      12.559 -24.331 -11.141  1.00  0.00              
ATOM      7  CA  ASP     7      12.264 -25.931 -14.572  1.00  0.00              
ATOM      8  CA  LYS     8      14.291 -23.667 -16.751  1.00  0.00              
ATOM      9  CA  THR     9      14.472 -23.043 -20.500  1.00  0.00              
ATOM     10  CA  TYR    10      13.785 -19.447 -21.699  1.00  0.00              
ATOM     11  CA  GLU    11      17.382 -19.122 -22.730  1.00  0.00              
ATOM     12  CA  GLU    12      18.723 -20.302 -19.422  1.00  0.00              
ATOM     13  CA  MET    13      16.362 -17.919 -17.511  1.00  0.00              
ATOM     14  CA  VAL    14      17.442 -15.004 -19.633  1.00  0.00              
ATOM     15  CA  LYS    15      21.110 -15.911 -18.979  1.00  0.00              
ATOM     16  CA  GLU    16      20.472 -16.137 -15.248  1.00  0.00              
ATOM     17  CA  VAL    17      18.818 -12.683 -15.361  1.00  0.00              
ATOM     18  CA  GLU    18      21.774 -11.229 -17.268  1.00  0.00              
ATOM     19  CA  ARG    19      24.210 -12.683 -14.723  1.00  0.00              
ATOM     20  CA  LEU    20      22.194 -11.238 -11.864  1.00  0.00              
ATOM     21  CA  LYS    21      22.087  -7.777 -13.480  1.00  0.00              
ATOM     22  CA  LEU    22      22.822  -6.012 -10.181  1.00  0.00              
ATOM     23  CA  GLU    23      25.623  -8.516  -9.471  1.00  0.00              
ATOM     24  CA  ASN    24      27.387  -8.044 -12.796  1.00  0.00              
ATOM     25  CA  LYS    25      27.241  -4.244 -12.422  1.00  0.00              
ATOM     26  CA  THR    26      28.679  -4.572  -8.919  1.00  0.00              
ATOM     27  CA  LEU    27      31.566  -6.858  -9.995  1.00  0.00              
ATOM     28  CA  LYS    28      32.521  -4.464 -12.793  1.00  0.00              
ATOM     29  CA  GLN    29      32.497  -1.610 -10.294  1.00  0.00              
ATOM     30  CA  LYS    30      34.724  -3.623  -7.912  1.00  0.00              
ATOM     31  CA  VAL    31      37.113  -4.469 -10.749  1.00  0.00              
ATOM     32  CA  LYS    32      37.342  -0.834 -11.891  1.00  0.00              
ATOM     33  CA  SER    33      38.148   0.196  -8.312  1.00  0.00              
ATOM     34  CA  SER    34      40.841  -2.384  -7.741  1.00  0.00              
ATOM     35  CA  GLY    35      43.024  -2.317 -10.886  1.00  0.00              
ATOM     36  CA  ALA    36      43.567  -6.045 -11.393  1.00  0.00              
ATOM     37  CA  VAL    37      41.875  -6.540 -14.784  1.00  0.00              
ATOM     38  CA  SER    38      44.197  -9.082 -16.474  1.00  0.00              
ATOM     39  CA  SER    39      44.027  -8.036 -20.078  1.00  0.00              
ATOM     40  CA  ASP    40      42.144 -10.597 -22.082  1.00  0.00              
ATOM     41  CA  ASP    41      40.009 -12.157 -19.354  1.00  0.00              
ATOM     42  CA  SER    42      40.690 -15.783 -20.334  1.00  0.00              
ATOM     43  CA  ILE    43      44.485 -15.851 -20.633  1.00  0.00              
ATOM     44  CA  LEU    44      45.498 -14.263 -17.303  1.00  0.00              
ATOM     45  CA  THR    45      48.426 -16.130 -16.081  1.00  0.00              
ATOM     46  CA  ALA    46      48.604 -18.168 -12.940  1.00  0.00              
ATOM     47  CA  ALA    47      50.075 -15.267 -10.884  1.00  0.00              
ATOM     48  CA  LYS    48      47.410 -12.914 -12.107  1.00  0.00              
ATOM     49  CA  ARG    49      44.703 -15.438 -11.236  1.00  0.00              
ATOM     50  CA  GLU    50      46.050 -16.009  -7.695  1.00  0.00              
ATOM     51  CA  SER    51      46.433 -12.296  -6.868  1.00  0.00              
ATOM     52  CA  ILE    52      42.921 -11.574  -8.177  1.00  0.00              
ATOM     53  CA  ILE    53      41.463 -14.425  -6.188  1.00  0.00              
ATOM     54  CA  VAL    54      43.133 -13.429  -2.957  1.00  0.00              
ATOM     55  CA  SER    55      41.908  -9.880  -3.275  1.00  0.00              
ATOM     56  CA  SER    56      38.346 -11.054  -4.009  1.00  0.00              
ATOM     57  CA  SER    57      38.244 -13.401  -1.055  1.00  0.00              
ATOM     58  CA  ARG    58      39.606 -10.691   1.293  1.00  0.00              
ATOM     59  CA  ALA    59      36.797  -8.340   0.205  1.00  0.00              
ATOM     60  CA  LEU    60      34.136 -11.035   0.556  1.00  0.00              
ATOM     61  CA  GLY    61      35.750 -12.304   3.783  1.00  0.00              
ATOM     62  CA  ALA    62      35.402  -8.889   5.395  1.00  0.00              
ATOM     63  CA  VAL    63      31.689  -8.777   4.739  1.00  0.00              
ATOM     64  CA  ALA    64      31.050 -12.453   5.650  1.00  0.00              
ATOM     65  CA  MET    65      33.229 -12.409   8.724  1.00  0.00              
ATOM     66  CA  ARG    66      31.498  -9.401  10.247  1.00  0.00              
ATOM     67  CA  LYS    67      28.056 -10.954   9.702  1.00  0.00              
ATOM     68  CA  ILE    68      29.161 -14.326  11.182  1.00  0.00              
ATOM     69  CA  GLU    69      30.611 -12.804  14.282  1.00  0.00              
ATOM     70  CA  ALA    70      27.592 -10.728  15.020  1.00  0.00              
ATOM     71  CA  LYS    71      25.126 -13.550  14.688  1.00  0.00              
ATOM     72  CA  VAL    72      27.095 -15.981  16.720  1.00  0.00              
ATOM     73  CA  ARG    73      27.590 -13.540  19.565  1.00  0.00              
ATOM     74  CA  SER    74      23.978 -12.711  19.911  1.00  0.00              
ATOM     75  CA  ARG    75      22.799 -16.279  20.035  1.00  0.00              
ATOM     76  CA  ALA    76      25.457 -17.251  22.531  1.00  0.00              
ATOM     77  CA  ALA    77      24.793 -14.381  24.913  1.00  0.00              
ATOM     78  CA  LYS    78      21.261 -15.616  25.241  1.00  0.00              
ATOM     79  CA  ALA    79      22.692 -19.053  26.206  1.00  0.00              
ATOM     80  CA  VAL    80      25.236 -18.052  28.633  1.00  0.00              
ATOM     81  CA  THR    81      27.447 -15.728  30.236  1.00  0.00              
ATOM     82  CA  GLU    82      29.668 -12.950  29.068  1.00  0.00              
ATOM     83  CA  GLN    83      32.911 -14.866  29.754  1.00  0.00              
ATOM     84  CA  GLU    84      31.783 -17.767  27.630  1.00  0.00              
ATOM     85  CA  LEU    85      30.865 -15.330  24.792  1.00  0.00              
ATOM     86  CA  THR    86      34.234 -13.641  24.868  1.00  0.00              
ATOM     87  CA  SER    87      35.815 -17.049  24.290  1.00  0.00              
ATOM     88  CA  LEU    88      33.474 -17.785  21.398  1.00  0.00              
ATOM     89  CA  LEU    89      34.233 -14.372  19.764  1.00  0.00              
ATOM     90  CA  GLN    90      37.926 -15.217  19.805  1.00  0.00              
ATOM     91  CA  SER    91      37.073 -18.396  17.828  1.00  0.00              
ATOM     92  CA  LEU    92      35.277 -16.694  14.876  1.00  0.00              
ATOM     93  CA  THR    93      35.983 -18.292  11.537  1.00  0.00              
ATOM     94  CA  LEU    94      36.215 -16.393   8.431  1.00  0.00              
ATOM     95  CA  ARG    95      36.034 -17.912   5.019  1.00  0.00              
ATOM     96  CA  VAL    96      37.154 -16.154   1.907  1.00  0.00              
ATOM     97  CA  ASP    97      35.710 -17.291  -1.499  1.00  0.00              
ATOM     98  CA  VAL    98      37.463 -15.754  -4.505  1.00  0.00              
ATOM     99  CA  SER    99      35.719 -15.984  -7.882  1.00  0.00              
ATOM    100  CA  MET   100      37.719 -15.848 -11.026  1.00  0.00              
ATOM    101  CA  GLU   101      37.373 -17.865 -14.030  1.00  0.00              
ATOM    102  CA  GLU   102      36.128 -15.943 -16.809  1.00  0.00              
TER                                                                             
END
