
#######################################################
#                                                     #
#                        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   76 (   76),  selected   76 , name T0309TS599_1
# Molecule2: number of CA atoms   62 (  501),  selected   62 , name T0309.pdb
# PARAMETERS: T0309TS599_1.T0309.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      A       2           -
LGA    A       2      S       3           -
LGA    S       3      K       4           -
LGA    K       4      K       5           -
LGA    K       5      V       6           -
LGA    V       6      H       7           -
LGA    H       7      -       -           -
LGA    Q       8      -       -           -
LGA    I       9      -       -           -
LGA    N      10      -       -           -
LGA    V      11      -       -           -
LGA    K      12      -       -           -
LGA    G      13      Q       8          3.905
LGA    F      14      I       9          3.564
LGA    F      15      N      10          5.134
LGA    D      16      V      11          1.369
LGA    M      17      K      12          2.478
LGA    D      18      -       -           -
LGA    V      19      -       -           -
LGA    M      20      -       -           -
LGA    E      21      G      13          4.437
LGA    V      22      F      14          4.222
LGA    T      23      F      15           #
LGA    -       -      D      16           -
LGA    -       -      M      17           -
LGA    -       -      D      18           -
LGA    -       -      V      19           -
LGA    -       -      M      20           -
LGA    -       -      E      21           -
LGA    -       -      V      22           -
LGA    -       -      T      23           -
LGA    E      24      E      24          3.814
LGA    Q      25      Q      25          3.804
LGA    T      26      T      26           -
LGA    K      27      K      27           -
LGA    -       -      E      28           -
LGA    E      28      A      29           #
LGA    A      29      E      30           #
LGA    E      30      Y      31          4.821
LGA    Y      31      T      32          1.356
LGA    T      32      Y      33          3.311
LGA    Y      33      D      34          2.472
LGA    -       -      F      35           -
LGA    D      34      K      36           #
LGA    F      35      E      37          2.246
LGA    K      36      -       -           -
LGA    E      37      I      38          3.795
LGA    I      38      L      39          2.934
LGA    L      39      S      40          1.729
LGA    S      40      E      41          1.864
LGA    E      41      F      42          3.634
LGA    F      42      N      43          4.640
LGA    N      43      G      44          4.114
LGA    G      44      K      45          3.325
LGA    K      45      N      46          3.503
LGA    -       -      V      47           -
LGA    N      46      S      48          3.728
LGA    V      47      I      49          0.971
LGA    S      48      T      50          2.920
LGA    I      49      V      51          1.569
LGA    T      50      K      52          2.639
LGA    V      51      E      53          1.623
LGA    K      52      E      54          1.706
LGA    E      53      N      55          1.528
LGA    E      54      E      56          4.190
LGA    N      55      L      57           -
LGA    E      56      P      58           -
LGA    L      57      V      59           -
LGA    P      58      K      60           -
LGA    V      59      G      61           -
LGA    K      60      V      62           -
LGA    G      61      E      63           -
LGA    V      62      -       -           -
LGA    E      63      -       -           -
LGA    M      64      -       -           -
LGA    A      65      -       -           -
LGA    G      66      -       -           -
LGA    D      67      -       -           -
LGA    P      68      -       -           -
LGA    L      69      -       -           -
LGA    E      70      -       -           -
LGA    H      71      -       -           -
LGA    H      72      -       -           -
LGA    H      73      -       -           -
LGA    H      74      -       -           -
LGA    H      75      -       -           -
LGA    H      76      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   76   62    5.0     32    3.25     9.38     30.541     0.954

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.961684 * X  +  -0.265978 * Y  +   0.066478 * Z  +   1.319722
  Y_new =   0.115183 * X  +  -0.612015 * Y  +  -0.782413 * Z  + -13.443280
  Z_new =   0.248790 * X  +  -0.744777 * Y  +   0.619201 * Z  +  -4.140949 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.877205    2.264387  [ DEG:   -50.2602    129.7398 ]
  Theta =  -0.251430   -2.890162  [ DEG:   -14.4059   -165.5941 ]
  Phi   =   3.022389   -0.119204  [ DEG:   173.1701     -6.8299 ]
 
# 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: T0309TS599_1                                  
REMARK     2: T0309.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0309TS599_1.T0309.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   76   62   5.0   32   3.25    9.38  30.541
REMARK  ---------------------------------------------------------- 
MOLECULE T0309TS599_1
PFRMAT TS                                                                       
TARGET T0309                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       8.348 -26.550   9.796  1.00  0.00              
ATOM      2  CA  ALA     2      10.268 -28.156   6.452  1.00  0.00              
ATOM      3  CA  SER     3       7.969 -29.425   9.076  1.00  0.00              
ATOM      4  CA  LYS     4       9.142 -27.897   5.347  1.00  0.00              
ATOM      5  CA  LYS     5       5.429 -27.310   4.612  1.00  0.00              
ATOM      6  CA  VAL     6       4.805 -25.543   7.898  1.00  0.00              
ATOM      7  CA  HIS     7       7.708 -23.140   7.584  1.00  0.00              
ATOM      8  CA  GLN     8       6.601 -22.227   4.035  1.00  0.00              
ATOM      9  CA  ILE     9       3.006 -21.521   3.652  1.00  0.00              
ATOM     10  CA  ASN    10       1.753 -20.950   0.285  1.00  0.00              
ATOM     11  CA  VAL    11      -1.416 -19.029  -0.308  1.00  0.00              
ATOM     12  CA  LYS    12      -2.732 -19.548  -3.739  1.00  0.00              
ATOM     13  CA  GLY    13      -6.090 -17.849  -3.613  1.00  0.00              
ATOM     14  CA  PHE    14      -5.413 -14.631  -1.634  1.00  0.00              
ATOM     15  CA  PHE    15      -2.044 -14.046  -3.393  1.00  0.00              
ATOM     16  CA  ASP    16      -2.783 -15.071  -6.962  1.00  0.00              
ATOM     17  CA  MET    17       0.347 -17.106  -7.370  1.00  0.00              
ATOM     18  CA  ASP    18       1.711 -19.747  -9.484  1.00  0.00              
ATOM     19  CA  VAL    19       5.284 -18.435  -9.927  1.00  0.00              
ATOM     20  CA  MET    20       5.760 -19.035 -13.607  1.00  0.00              
ATOM     21  CA  GLU    21       2.315 -17.501 -14.300  1.00  0.00              
ATOM     22  CA  VAL    22       3.025 -14.402 -12.182  1.00  0.00              
ATOM     23  CA  THR    23       6.431 -13.735 -13.827  1.00  0.00              
ATOM     24  CA  GLU    24       5.018 -14.081 -17.360  1.00  0.00              
ATOM     25  CA  GLN    25       2.173 -11.716 -16.612  1.00  0.00              
ATOM     26  CA  THR    26       4.533  -9.177 -15.140  1.00  0.00              
ATOM     27  CA  LYS    27       6.993  -9.141 -18.065  1.00  0.00              
ATOM     28  CA  GLU    28       4.252  -8.584 -20.652  1.00  0.00              
ATOM     29  CA  ALA    29       2.568  -5.852 -18.564  1.00  0.00              
ATOM     30  CA  GLU    30      -1.059  -6.834 -18.464  1.00  0.00              
ATOM     31  CA  TYR    31      -1.966  -7.368 -14.849  1.00  0.00              
ATOM     32  CA  THR    32      -5.390  -6.479 -13.362  1.00  0.00              
ATOM     33  CA  TYR    33      -6.382  -6.617  -9.691  1.00  0.00              
ATOM     34  CA  ASP    34      -9.857  -5.890  -8.473  1.00  0.00              
ATOM     35  CA  PHE    35      -9.968  -4.283  -5.001  1.00  0.00              
ATOM     36  CA  LYS    36     -12.972  -6.295  -3.791  1.00  0.00              
ATOM     37  CA  GLU    37     -11.206  -9.564  -4.671  1.00  0.00              
ATOM     38  CA  ILE    38      -8.067  -8.519  -2.859  1.00  0.00              
ATOM     39  CA  LEU    39      -9.976  -7.386   0.173  1.00  0.00              
ATOM     40  CA  SER    40     -11.992 -10.563   0.422  1.00  0.00              
ATOM     41  CA  GLU    41      -9.090 -12.763   0.213  1.00  0.00              
ATOM     42  CA  PHE    42      -7.179 -10.905   2.850  1.00  0.00              
ATOM     43  CA  ASN    43      -9.481 -10.670   5.715  1.00  0.00              
ATOM     44  CA  GLY    44      -6.977 -10.876   8.495  1.00  0.00              
ATOM     45  CA  LYS    45      -5.481 -14.251   7.761  1.00  0.00              
ATOM     46  CA  ASN    46      -1.759 -14.639   7.707  1.00  0.00              
ATOM     47  CA  VAL    47      -0.483 -15.910   4.411  1.00  0.00              
ATOM     48  CA  SER    48       3.167 -16.857   3.980  1.00  0.00              
ATOM     49  CA  ILE    49       4.558 -17.128   0.519  1.00  0.00              
ATOM     50  CA  THR    50       7.872 -18.889  -0.099  1.00  0.00              
ATOM     51  CA  VAL    51       9.602 -18.408  -3.474  1.00  0.00              
ATOM     52  CA  LYS    52      11.333 -21.274  -5.128  1.00  0.00              
ATOM     53  CA  GLU    53      14.202 -20.763  -7.513  1.00  0.00              
ATOM     54  CA  GLU    54      13.439 -23.612  -9.893  1.00  0.00              
ATOM     55  CA  ASN    55       9.941 -22.369 -10.643  1.00  0.00              
ATOM     56  CA  GLU    56      11.100 -18.803 -11.388  1.00  0.00              
ATOM     57  CA  LEU    57       9.382 -16.508  -8.993  1.00  0.00              
ATOM     58  CA  PRO    58      11.597 -14.034  -7.102  1.00  0.00              
ATOM     59  CA  VAL    59      10.521 -13.244  -3.584  1.00  0.00              
ATOM     60  CA  LYS    60      12.586 -14.180  -0.561  1.00  0.00              
ATOM     61  CA  GLY    61       9.962 -14.791   2.029  1.00  0.00              
ATOM     62  CA  VAL    62       6.852 -13.042   1.241  1.00  0.00              
ATOM     63  CA  GLU    63       4.409 -12.271   3.946  1.00  0.00              
ATOM     64  CA  MET    64       0.905 -11.312   2.993  1.00  0.00              
ATOM     65  CA  ALA    65      -1.194  -9.403   5.439  1.00  0.00              
ATOM     66  CA  GLY    66      -4.341  -7.615   4.453  1.00  0.00              
ATOM     67  CA  ASP    67      -3.019  -4.377   3.110  1.00  0.00              
ATOM     68  CA  PRO    68      -4.468  -3.640  -0.365  1.00  0.00              
ATOM     69  CA  LEU    69      -1.378  -2.643  -2.283  1.00  0.00              
ATOM     70  CA  GLU    70      -2.820  -1.139  -5.440  1.00  0.00              
ATOM     71  CA  HIS    71       0.115  -0.305  -7.732  1.00  0.00              
ATOM     72  CA  HIS    72      -1.438   2.339  -9.925  1.00  0.00              
ATOM     73  CA  HIS    73       0.005   2.113 -13.485  1.00  0.00              
ATOM     74  CA  HIS    74       0.625  -1.511 -12.427  1.00  0.00              
ATOM     75  CA  HIS    75       2.541  -3.502 -14.920  1.00  0.00              
ATOM     76  CA  HIS    76      -1.431  -3.304 -16.048  1.00  0.00              
TER                                                                             
END
