
#######################################################
#                                                     #
#                        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   93 (   93),  selected   93 , name T0288TS393_4
# Molecule2: number of CA atoms   91 (  667),  selected   91 , name T0288
# PARAMETERS: T0288TS393_4.T0288  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1           -
LGA    M       2      M       2           -
LGA    V       3      -       -           -
LGA    P       4      V       3          6.180
LGA    G       5      P       4          3.921
LGA    K       6      G       5          3.381
LGA    V       7      K       6          2.680
LGA    T       8      V       7          2.644
LGA    L       9      T       8          3.413
LGA    Q      10      L       9          1.724
LGA    K      11      Q      10          1.618
LGA    -       -      K      11           -
LGA    D      12      D      12          2.604
LGA    A      13      A      13          2.859
LGA    Q      14      Q      14          2.560
LGA    N      15      N      15          0.424
LGA    L      16      L      16          1.319
LGA    I      17      I      17          1.806
LGA    G      18      G      18          1.286
LGA    I      19      I      19          2.365
LGA    S      20      S      20          2.024
LGA    I      21      I      21          1.934
LGA    G      22      G      22          1.174
LGA    G      23      G      23          3.072
LGA    G      24      G      24          1.330
LGA    A      25      A      25          3.994
LGA    Q      26      Q      26          2.177
LGA    Y      27      -       -           -
LGA    C      28      -       -           -
LGA    P      29      P      29          3.163
LGA    C      30      C      30          1.890
LGA    L      31      L      31          1.307
LGA    Y      32      Y      32          1.416
LGA    I      33      I      33          1.227
LGA    V      34      V      34          0.415
LGA    Q      35      Q      35          0.423
LGA    V      36      V      36          1.418
LGA    F      37      F      37          1.212
LGA    D      38      D      38          1.332
LGA    N      39      N      39          1.469
LGA    T      40      T      40          1.513
LGA    P      41      P      41          1.234
LGA    A      42      A      42          0.564
LGA    A      43      A      43          0.677
LGA    L      44      L      44          0.381
LGA    D      45      D      45          1.835
LGA    G      46      G      46          2.311
LGA    T      47      T      47          1.477
LGA    V      48      V      48          1.147
LGA    A      49      A      49          1.329
LGA    A      50      A      50          1.392
LGA    G      51      G      51          1.253
LGA    D      52      D      52          0.454
LGA    E      53      E      53          0.407
LGA    I      54      I      54          1.217
LGA    T      55      T      55          1.951
LGA    G      56      G      56          2.003
LGA    V      57      V      57          1.914
LGA    N      58      N      58          0.730
LGA    G      59      G      59          3.001
LGA    R      60      R      60          2.610
LGA    S      61      S      61          3.030
LGA    I      62      I      62          2.332
LGA    K      63      K      63          2.983
LGA    G      64      G      64          1.141
LGA    K      65      K      65          1.326
LGA    T      66      T      66          1.690
LGA    K      67      K      67          0.842
LGA    V      68      V      68          0.889
LGA    E      69      E      69          0.647
LGA    V      70      V      70          1.034
LGA    A      71      A      71          0.622
LGA    K      72      K      72          0.900
LGA    M      73      M      73          1.539
LGA    I      74      I      74          1.419
LGA    Q      75      Q      75          0.313
LGA    E      76      E      76          2.209
LGA    V      77      V      77          2.650
LGA    K      78      K      78          3.240
LGA    G      79      G      79          3.194
LGA    E      80      E      80          3.516
LGA    V      81      V      81          1.454
LGA    T      82      T      82          0.430
LGA    I      83      I      83          0.583
LGA    H      84      H      84          0.733
LGA    Y      85      Y      85          1.265
LGA    N      86      N      86          1.055
LGA    K      87      K      87          2.084
LGA    L      88      L      88          0.893
LGA    Q      89      Q      89          0.879
LGA    -       -      Y      90           -
LGA    Y      90      Y      91           #
LGA    Y      91      K      92           -
LGA    K      92      V      93           -
LGA    V      93      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   93   91    5.0     84    2.03    90.48     80.690     3.951

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.972961 * X  +   0.229326 * Y  +   0.027489 * Z  +  27.567232
  Y_new =   0.079981 * X  +  -0.446180 * Y  +   0.891362 * Z  +  17.174696
  Z_new =   0.216678 * X  +  -0.865062 * Y  +  -0.452458 * Z  +  13.556170 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.052702    1.088891  [ DEG:  -117.6111     62.3889 ]
  Theta =  -0.218410   -2.923183  [ DEG:   -12.5140   -167.4860 ]
  Phi   =   0.082019   -3.059573  [ DEG:     4.6994   -175.3006 ]
 
# 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: T0288TS393_4                                  
REMARK     2: T0288                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0288TS393_4.T0288 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   93   91   5.0   84   2.03   90.48  80.690
REMARK  ---------------------------------------------------------- 
MOLECULE T0288TS393_4
PFRMAT TS
TARGET T0288
MODEL 4
PARENT N/A
ATOM      1  CA  SER     1      23.468   6.227  31.074  1.00 25.00           C
ATOM      2  CA  MET     2      24.726   9.694  30.179  1.00 25.00           C
ATOM      3  CA  VAL     3      22.610   9.482  26.974  1.00 25.00           C
ATOM      4  CA  PRO     4      24.622  12.317  25.365  1.00 25.00           C
ATOM      5  CA  GLY     5      22.288  15.058  24.007  1.00 25.00           C
ATOM      6  CA  LYS     6      20.493  18.078  22.629  1.00 25.00           C
ATOM      7  CA  VAL     7      21.164  19.468  19.091  1.00 25.00           C
ATOM      8  CA  THR     8      17.918  21.416  18.476  1.00 25.00           C
ATOM      9  CA  LEU     9      19.984  23.466  16.115  1.00 25.00           C
ATOM     10  CA  GLN    10      18.734  25.256  12.947  1.00 25.00           C
ATOM     11  CA  LYS    11      18.001  26.469   9.419  1.00 25.00           C
ATOM     12  CA  ASP    12      19.661  29.742   8.409  1.00 25.00           C
ATOM     13  CA  ALA    13      18.312  29.237   4.951  1.00 25.00           C
ATOM     14  CA  GLN    14      21.816  28.902   3.558  1.00 25.00           C
ATOM     15  CA  ASN    15      21.055  25.230   2.771  1.00 25.00           C
ATOM     16  CA  LEU    16      23.019  24.559   5.980  1.00 25.00           C
ATOM     17  CA  ILE    17      24.725  23.257   9.189  1.00 25.00           C
ATOM     18  CA  GLY    18      28.052  25.031   8.623  1.00 25.00           C
ATOM     19  CA  ILE    19      29.485  21.547   8.078  1.00 25.00           C
ATOM     20  CA  SER    20      32.493  19.643   6.800  1.00 25.00           C
ATOM     21  CA  ILE    21      32.021  15.947   7.634  1.00 25.00           C
ATOM     22  CA  GLY    22      35.727  15.160   7.709  1.00 25.00           C
ATOM     23  CA  GLY    23      36.716  11.489   7.338  1.00 25.00           C
ATOM     24  CA  GLY    24      36.672   8.381   9.613  1.00 25.00           C
ATOM     25  CA  ALA    25      38.303   5.296   8.012  1.00 25.00           C
ATOM     26  CA  GLN    26      41.490   5.802  10.043  1.00 25.00           C
ATOM     27  CA  TYR    27      40.480   8.139  12.922  1.00 25.00           C
ATOM     28  CA  CYS    28      39.099   6.121  15.836  1.00 25.00           C
ATOM     29  CA  PRO    29      35.695   6.686  14.217  1.00 25.00           C
ATOM     30  CA  CYS    30      32.836   9.093  14.748  1.00 25.00           C
ATOM     31  CA  LEU    31      34.293  11.799  12.576  1.00 25.00           C
ATOM     32  CA  TYR    32      33.908  15.567  12.439  1.00 25.00           C
ATOM     33  CA  ILE    33      32.331  18.988  12.257  1.00 25.00           C
ATOM     34  CA  VAL    34      35.864  20.305  11.501  1.00 25.00           C
ATOM     35  CA  GLN    35      34.496  23.890  11.415  1.00 25.00           C
ATOM     36  CA  VAL    36      32.819  26.758  13.266  1.00 25.00           C
ATOM     37  CA  PHE    37      32.398  28.525   9.891  1.00 25.00           C
ATOM     38  CA  ASP    38      31.270  32.147  10.245  1.00 25.00           C
ATOM     39  CA  ASN    39      27.933  33.698   9.394  1.00 25.00           C
ATOM     40  CA  THR    40      26.600  30.083   9.290  1.00 25.00           C
ATOM     41  CA  PRO    41      23.777  28.873  11.524  1.00 25.00           C
ATOM     42  CA  ALA    42      25.632  26.836  14.152  1.00 25.00           C
ATOM     43  CA  ALA    43      27.616  29.797  15.554  1.00 25.00           C
ATOM     44  CA  LEU    44      24.355  31.663  16.296  1.00 25.00           C
ATOM     45  CA  ASP    45      21.509  29.303  17.391  1.00 25.00           C
ATOM     46  CA  GLY    46      24.020  27.807  19.836  1.00 25.00           C
ATOM     47  CA  THR    47      24.606  24.098  20.325  1.00 25.00           C
ATOM     48  CA  VAL    48      27.713  23.594  18.215  1.00 25.00           C
ATOM     49  CA  ALA    49      31.276  23.319  19.481  1.00 25.00           C
ATOM     50  CA  ALA    50      34.259  22.898  17.194  1.00 25.00           C
ATOM     51  CA  GLY    51      35.472  19.294  16.904  1.00 25.00           C
ATOM     52  CA  ASP    52      32.365  17.633  18.268  1.00 25.00           C
ATOM     53  CA  GLU    53      31.863  14.003  17.082  1.00 25.00           C
ATOM     54  CA  ILE    54      29.285  13.984  14.302  1.00 25.00           C
ATOM     55  CA  THR    55      26.215  11.786  15.005  1.00 25.00           C
ATOM     56  CA  GLY    56      22.960  12.050  12.976  1.00 25.00           C
ATOM     57  CA  VAL    57      20.300  12.908  10.443  1.00 25.00           C
ATOM     58  CA  ASN    58      17.232  12.673  12.726  1.00 25.00           C
ATOM     59  CA  GLY    59      17.521   8.927  12.409  1.00 25.00           C
ATOM     60  CA  ARG    60      20.756   7.690  10.875  1.00 25.00           C
ATOM     61  CA  SER    61      24.177   6.045  11.298  1.00 25.00           C
ATOM     62  CA  ILE    62      27.501   7.683  12.290  1.00 25.00           C
ATOM     63  CA  LYS    63      30.159   5.023  13.021  1.00 25.00           C
ATOM     64  CA  GLY    64      29.265   2.437  10.372  1.00 25.00           C
ATOM     65  CA  LYS    65      29.179   5.439   8.010  1.00 25.00           C
ATOM     66  CA  THR    66      32.250   7.301   6.592  1.00 25.00           C
ATOM     67  CA  LYS    67      32.287  10.806   5.074  1.00 25.00           C
ATOM     68  CA  VAL    68      30.287  11.019   1.815  1.00 25.00           C
ATOM     69  CA  GLU    69      27.228   9.520   3.566  1.00 25.00           C
ATOM     70  CA  VAL    70      27.577  12.065   6.406  1.00 25.00           C
ATOM     71  CA  ALA    71      27.803  14.916   3.858  1.00 25.00           C
ATOM     72  CA  LYS    72      24.662  13.617   2.092  1.00 25.00           C
ATOM     73  CA  MET    73      22.815  13.455   5.444  1.00 25.00           C
ATOM     74  CA  ILE    74      23.884  17.046   6.235  1.00 25.00           C
ATOM     75  CA  GLN    75      22.647  18.198   2.799  1.00 25.00           C
ATOM     76  CA  GLU    76      19.295  16.443   3.390  1.00 25.00           C
ATOM     77  CA  VAL    77      18.572  19.201   5.936  1.00 25.00           C
ATOM     78  CA  LYS    78      14.809  19.257   6.492  1.00 25.00           C
ATOM     79  CA  GLY    79      15.005  22.083   9.029  1.00 25.00           C
ATOM     80  CA  GLU    80      15.302  19.443  11.709  1.00 25.00           C
ATOM     81  CA  VAL    81      19.001  19.902  11.222  1.00 25.00           C
ATOM     82  CA  THR    82      19.248  17.209  13.965  1.00 25.00           C
ATOM     83  CA  ILE    83      22.916  17.263  14.793  1.00 25.00           C
ATOM     84  CA  HIS    84      23.542  15.021  17.797  1.00 25.00           C
ATOM     85  CA  TYR    85      26.857  16.353  19.145  1.00 25.00           C
ATOM     86  CA  ASN    86      28.488  13.578  21.042  1.00 25.00           C
ATOM     87  CA  LYS    87      31.693  14.547  22.793  1.00 25.00           C
ATOM     88  CA  LEU    88      35.307  15.359  23.554  1.00 25.00           C
ATOM     89  CA  GLN    89      38.119  15.087  26.148  1.00 25.00           C
ATOM     90  CA  TYR    90      38.702  15.312  29.888  1.00 25.00           C
ATOM     91  CA  TYR    91      40.932  16.005  32.890  1.00 25.00           C
ATOM     92  CA  LYS    92      40.680  12.463  34.095  1.00 25.00           C
ATOM     93  CA  VAL    93      43.402  10.969  31.842  1.00 25.00           C
TER
END
