
#######################################################
#                                                     #
#                        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   87 (   87),  selected   87 , name T0358TS599_2
# Molecule2: number of CA atoms   66 ( 1047),  selected   66 , name T0358.pdb
# PARAMETERS: T0358TS599_2.T0358.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      G      10           -
LGA    T       2      P      11           -
LGA    Q       3      -       -           -
LGA    S       4      -       -           -
LGA    V       5      -       -           -
LGA    L       6      -       -           -
LGA    L       7      -       -           -
LGA    P       8      F      12           #
LGA    P       9      T      13          1.784
LGA    -       -      R      14           -
LGA    -       -      R      15           -
LGA    G      10      Q      16          2.677
LGA    P      11      A      17           -
LGA    -       -      Q      18           -
LGA    F      12      A      19          4.929
LGA    T      13      V      20           -
LGA    R      14      T      21           -
LGA    R      15      T      22           -
LGA    Q      16      -       -           -
LGA    A      17      -       -           -
LGA    Q      18      T      23          2.628
LGA    A      19      -       -           -
LGA    V      20      -       -           -
LGA    T      21      Y      24          0.848
LGA    T      22      S      25           #
LGA    T      23      -       -           -
LGA    Y      24      -       -           -
LGA    S      25      -       -           -
LGA    N      26      N      26          2.359
LGA    I      27      I      27          1.479
LGA    T      28      T      28          0.839
LGA    L      29      L      29          1.202
LGA    E      30      E      30          2.750
LGA    -       -      D      31           -
LGA    D      31      D      32          3.113
LGA    D      32      Q      33          1.792
LGA    -       -      G      34           -
LGA    Q      33      S      35          3.182
LGA    G      34      H      36          2.635
LGA    S      35      F      37          2.218
LGA    H      36      R      38          2.012
LGA    F      37      L      39          2.122
LGA    R      38      V      40          1.835
LGA    L      39      V      41          2.565
LGA    V      40      R      42          2.435
LGA    V      41      D      43          1.396
LGA    R      42      T      44          2.320
LGA    D      43      E      45          5.014
LGA    T      44      G      46           -
LGA    E      45      -       -           -
LGA    G      46      -       -           -
LGA    R      47      -       -           -
LGA    M      48      -       -           -
LGA    V      49      R      47          2.098
LGA    W      50      M      48          2.038
LGA    R      51      V      49          2.896
LGA    A      52      W      50          4.613
LGA    W      53      R      51          0.974
LGA    N      54      A      52          3.661
LGA    F      55      W      53          1.306
LGA    E      56      N      54          3.559
LGA    P      57      F      55          3.374
LGA    D      58      E      56          3.711
LGA    A      59      P      57           #
LGA    G      60      -       -           -
LGA    E      61      D      58          2.008
LGA    G      62      A      59          0.714
LGA    L      63      G      60          2.431
LGA    N      64      E      61          4.134
LGA    R      65      G      62          3.110
LGA    Y      66      L      63          0.793
LGA    I      67      N      64          1.939
LGA    R      68      R      65          3.193
LGA    T      69      Y      66          2.681
LGA    S      70      I      67          1.445
LGA    G      71      R      68          0.653
LGA    I      72      T      69          2.322
LGA    R      73      S      70           -
LGA    T      74      G      71           -
LGA    D      75      I      72           -
LGA    T      76      R      73           -
LGA    A      77      T      74           -
LGA    T      78      D      75           -
LGA    R      79      -       -           -
LGA    L      80      -       -           -
LGA    E      81      -       -           -
LGA    H      82      -       -           -
LGA    H      83      -       -           -
LGA    H      84      -       -           -
LGA    H      85      -       -           -
LGA    H      86      -       -           -
LGA    H      87      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   87   66    5.0     45    2.63    15.56     44.284     1.650

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.561080 * X  +   0.619824 * Y  +   0.548642 * Z  +   2.264031
  Y_new =  -0.046078 * X  +  -0.638387 * Y  +   0.768335 * Z  +  -2.874316
  Z_new =   0.826478 * X  +  -0.456378 * Y  +  -0.329626 * Z  +  -0.121126 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.196310    0.945283  [ DEG:  -125.8393     54.1607 ]
  Theta =  -0.972823   -2.168770  [ DEG:   -55.7387   -124.2613 ]
  Phi   =  -0.081940    3.059653  [ DEG:    -4.6948    175.3052 ]
 
# 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: T0358TS599_2                                  
REMARK     2: T0358.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS599_2.T0358.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   87   66   5.0   45   2.63   15.56  44.284
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS599_2
PFRMAT TS                                                                       
TARGET T0358                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -4.556   9.500 -10.875  1.00  0.00              
ATOM      2  CA  THR     2      -8.145   7.643 -12.066  1.00  0.00              
ATOM      3  CA  GLN     3      -9.272   3.669 -11.249  1.00  0.00              
ATOM      4  CA  SER     4      -6.627   2.151  -9.349  1.00  0.00              
ATOM      5  CA  VAL     5      -3.105   3.312 -10.038  1.00  0.00              
ATOM      6  CA  LEU     6      -0.248   1.406  -8.787  1.00  0.00              
ATOM      7  CA  LEU     7       2.909   3.252  -7.951  1.00  0.00              
ATOM      8  CA  PRO     8       6.199   1.472  -7.713  1.00  0.00              
ATOM      9  CA  PRO     9       7.864   2.998  -4.663  1.00  0.00              
ATOM     10  CA  GLY    10       9.662   0.097  -3.200  1.00  0.00              
ATOM     11  CA  PRO    11      12.167  -2.298  -4.608  1.00  0.00              
ATOM     12  CA  PHE    12      10.221  -5.533  -4.610  1.00  0.00              
ATOM     13  CA  THR    13      11.447  -9.071  -4.851  1.00  0.00              
ATOM     14  CA  ARG    14       8.746 -11.432  -6.257  1.00  0.00              
ATOM     15  CA  ARG    15       8.150 -13.443  -3.142  1.00  0.00              
ATOM     16  CA  GLN    16       7.750 -10.363  -0.939  1.00  0.00              
ATOM     17  CA  ALA    17       5.322  -8.665  -3.221  1.00  0.00              
ATOM     18  CA  GLN    18       3.183 -11.760  -3.471  1.00  0.00              
ATOM     19  CA  ALA    19       3.105 -12.166   0.328  1.00  0.00              
ATOM     20  CA  VAL    20       2.090  -8.552   1.057  1.00  0.00              
ATOM     21  CA  THR    21      -0.628  -8.799  -1.617  1.00  0.00              
ATOM     22  CA  THR    22      -2.026 -12.067  -0.204  1.00  0.00              
ATOM     23  CA  THR    23      -2.163 -10.767   3.373  1.00  0.00              
ATOM     24  CA  TYR    24      -4.142  -7.638   2.180  1.00  0.00              
ATOM     25  CA  SER    25      -6.670  -8.932  -0.327  1.00  0.00              
ATOM     26  CA  ASN    26      -6.622  -6.374  -2.951  1.00  0.00              
ATOM     27  CA  ILE    27      -3.950  -3.803  -2.875  1.00  0.00              
ATOM     28  CA  THR    28      -4.430  -0.602  -4.820  1.00  0.00              
ATOM     29  CA  LEU    29      -1.994   2.209  -4.675  1.00  0.00              
ATOM     30  CA  GLU    30      -2.913   5.427  -6.079  1.00  0.00              
ATOM     31  CA  ASP    31      -0.290   7.832  -7.128  1.00  0.00              
ATOM     32  CA  ASP    32      -1.227  11.324  -7.424  1.00  0.00              
ATOM     33  CA  GLN    33       1.374  13.217  -5.499  1.00  0.00              
ATOM     34  CA  GLY    34      -0.015  12.678  -1.961  1.00  0.00              
ATOM     35  CA  SER    35      -0.097   8.925  -1.797  1.00  0.00              
ATOM     36  CA  HIS    36      -3.400   7.095  -1.518  1.00  0.00              
ATOM     37  CA  PHE    37      -3.490   3.620  -0.304  1.00  0.00              
ATOM     38  CA  ARG    38      -6.378   1.421  -0.725  1.00  0.00              
ATOM     39  CA  LEU    39      -6.477  -1.919   0.843  1.00  0.00              
ATOM     40  CA  VAL    40      -9.167  -4.437   0.299  1.00  0.00              
ATOM     41  CA  VAL    41      -9.456  -7.187   2.672  1.00  0.00              
ATOM     42  CA  ARG    42     -11.435 -10.237   1.918  1.00  0.00              
ATOM     43  CA  ASP    43     -12.348 -12.469   4.789  1.00  0.00              
ATOM     44  CA  THR    44     -12.678 -16.223   4.227  1.00  0.00              
ATOM     45  CA  GLU    45     -16.455 -15.765   4.301  1.00  0.00              
ATOM     46  CA  GLY    46     -16.533 -13.294   1.462  1.00  0.00              
ATOM     47  CA  ARG    47     -16.999 -10.193   3.651  1.00  0.00              
ATOM     48  CA  MET    48     -15.288  -7.223   2.289  1.00  0.00              
ATOM     49  CA  VAL    49     -13.325  -5.070   4.470  1.00  0.00              
ATOM     50  CA  TRP    50     -12.019  -1.836   3.084  1.00  0.00              
ATOM     51  CA  ARG    51      -9.048  -0.138   4.532  1.00  0.00              
ATOM     52  CA  ALA    52      -8.136   3.133   3.404  1.00  0.00              
ATOM     53  CA  TRP    53      -4.812   4.207   4.192  1.00  0.00              
ATOM     54  CA  ASN    54      -3.515   7.713   3.356  1.00  0.00              
ATOM     55  CA  PHE    55       0.199   7.592   2.959  1.00  0.00              
ATOM     56  CA  GLU    56       2.301  10.376   1.619  1.00  0.00              
ATOM     57  CA  PRO    57       5.083  10.759   4.244  1.00  0.00              
ATOM     58  CA  ASP    58       8.133  10.072   2.194  1.00  0.00              
ATOM     59  CA  ALA    59       6.897   6.906   0.510  1.00  0.00              
ATOM     60  CA  GLY    60       9.641   4.645   1.907  1.00  0.00              
ATOM     61  CA  GLU    61       8.697   5.218   5.536  1.00  0.00              
ATOM     62  CA  GLY    62       5.056   4.352   4.805  1.00  0.00              
ATOM     63  CA  LEU    63       5.905   1.207   2.774  1.00  0.00              
ATOM     64  CA  ASN    64       8.223  -0.004   5.521  1.00  0.00              
ATOM     65  CA  ARG    65       5.383   0.511   8.055  1.00  0.00              
ATOM     66  CA  TYR    66       2.958  -1.436   5.818  1.00  0.00              
ATOM     67  CA  ILE    67       5.344  -4.317   5.397  1.00  0.00              
ATOM     68  CA  ARG    68       5.826  -4.449   9.202  1.00  0.00              
ATOM     69  CA  THR    69       2.100  -4.400   9.808  1.00  0.00              
ATOM     70  CA  SER    70       1.734  -7.451   7.560  1.00  0.00              
ATOM     71  CA  GLY    71       4.305  -9.413   9.455  1.00  0.00              
ATOM     72  CA  ILE    72       7.294  -9.288   7.184  1.00  0.00              
ATOM     73  CA  ARG    73      10.634  -9.280   8.977  1.00  0.00              
ATOM     74  CA  THR    74      13.385  -6.787   8.143  1.00  0.00              
ATOM     75  CA  ASP    75      16.095  -9.436   8.062  1.00  0.00              
ATOM     76  CA  THR    76      14.214 -11.813   5.756  1.00  0.00              
ATOM     77  CA  ALA    77      12.749  -9.362   3.249  1.00  0.00              
ATOM     78  CA  THR    78      16.237  -7.767   2.848  1.00  0.00              
ATOM     79  CA  ARG    79      17.956 -11.113   2.313  1.00  0.00              
ATOM     80  CA  LEU    80      15.591 -12.392  -0.309  1.00  0.00              
ATOM     81  CA  GLU    81      15.872  -9.166  -2.279  1.00  0.00              
ATOM     82  CA  HIS    82      19.661  -9.295  -2.115  1.00  0.00              
ATOM     83  CA  HIS    83      20.359 -12.866  -3.285  1.00  0.00              
ATOM     84  CA  HIS    84      18.536 -11.533  -6.372  1.00  0.00              
ATOM     85  CA  HIS    85      20.330  -7.694  -6.599  1.00  0.00              
ATOM     86  CA  HIS    86      23.503  -5.054  -7.527  1.00  0.00              
ATOM     87  CA  HIS    87      26.657  -3.429  -5.477  1.00  0.00              
TER                                                                             
END
