
#######################################################
#                                                     #
#                        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   65 (   65),  selected   65 , name T0358TS168_1-D1
# Molecule2: number of CA atoms   65 ( 1035),  selected   65 , name T0358_D1.pdb
# PARAMETERS: T0358TS168_1-D1.T0358_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G      10      G      10           -
LGA    P      11      P      11           -
LGA    F      12      F      12           -
LGA    T      13      T      13           -
LGA    R      14      R      14           -
LGA    R      15      R      15           -
LGA    Q      16      Q      16           -
LGA    A      17      A      17           -
LGA    Q      18      Q      18           -
LGA    A      19      A      19           -
LGA    V      20      V      20           -
LGA    T      21      T      21           -
LGA    T      22      T      22           -
LGA    T      23      T      23           -
LGA    Y      24      Y      24           #
LGA    S      25      S      25           #
LGA    N      26      N      26          2.149
LGA    I      27      I      27          2.954
LGA    T      28      T      28          2.795
LGA    L      29      L      29          3.049
LGA    E      30      E      30          1.841
LGA    D      31      D      31          4.012
LGA    D      32      D      32          2.149
LGA    Q      33      Q      33          3.410
LGA    G      34      G      34           -
LGA    -       -      S      35           -
LGA    S      35      H      36          4.187
LGA    H      36      F      37          4.561
LGA    F      37      R      38          2.151
LGA    R      38      L      39          2.892
LGA    L      39      V      40          4.825
LGA    V      40      V      41          0.763
LGA    V      41      R      42          1.866
LGA    R      42      D      43          2.339
LGA    D      43      T      44          4.781
LGA    T      44      E      45          3.427
LGA    E      45      -       -           -
LGA    G      46      G      46           #
LGA    R      47      R      47          3.548
LGA    M      48      M      48          2.842
LGA    V      49      V      49           #
LGA    W      50      W      50          4.369
LGA    R      51      R      51          1.962
LGA    A      52      A      52          3.900
LGA    W      53      W      53           #
LGA    N      54      N      54           #
LGA    -       -      F      55           -
LGA    F      55      E      56          1.812
LGA    E      56      P      57          2.692
LGA    P      57      D      58          3.411
LGA    D      58      A      59           #
LGA    A      59      -       -           -
LGA    G      60      -       -           -
LGA    E      61      G      60          4.771
LGA    G      62      E      61          4.870
LGA    L      63      G      62          3.707
LGA    N      64      L      63          1.913
LGA    R      65      N      64          1.219
LGA    Y      66      R      65          2.952
LGA    I      67      Y      66          2.558
LGA    R      68      I      67          2.829
LGA    T      69      R      68          3.980
LGA    S      70      T      69          4.889
LGA    G      71      S      70           -
LGA    I      72      G      71           -
LGA    R      73      I      72           -
LGA    T      74      R      73           -
LGA    -       -      T      74           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   65   65    5.0     36    3.31    38.89     32.231     1.056

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.824482 * X  +   0.077335 * Y  +   0.560579 * Z  +  -0.077506
  Y_new =   0.462819 * X  +   0.477860 * Y  +  -0.746624 * Z  +   0.212471
  Z_new =  -0.325618 * X  +   0.875025 * Y  +   0.358195 * Z  +   8.879875 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.182252   -1.959341  [ DEG:    67.7380   -112.2620 ]
  Theta =   0.331666    2.809927  [ DEG:    19.0030    160.9970 ]
  Phi   =   0.511512   -2.630081  [ DEG:    29.3075   -150.6925 ]
 
# 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: T0358TS168_1-D1                               
REMARK     2: T0358_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS168_1-D1.T0358_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   65   65   5.0   36   3.31   38.89  32.231
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS168_1-D1
PFRMAT TS
TARGET T0358
MODEL 1
PARENT N/A
ATOM     10  CA  GLY    10      -7.141  11.409  17.287  1.00 25.00           C
ATOM     11  CA  PRO    11     -10.210   9.406  16.468  1.00 25.00           C
ATOM     12  CA  PHE    12      -8.822   9.328  12.881  1.00 25.00           C
ATOM     13  CA  THR    13     -12.468   8.494  12.052  1.00 25.00           C
ATOM     14  CA  ARG    14     -10.842   6.278   9.360  1.00 25.00           C
ATOM     15  CA  ARG    15     -12.164   3.118  11.072  1.00 25.00           C
ATOM     16  CA  GLN    16     -12.670   1.451   7.661  1.00 25.00           C
ATOM     17  CA  ALA    17      -9.097   2.387   6.647  1.00 25.00           C
ATOM     18  CA  GLN    18      -7.758   0.926   9.923  1.00 25.00           C
ATOM     19  CA  ALA    19      -9.721  -2.305   9.313  1.00 25.00           C
ATOM     20  CA  VAL    20      -8.303  -2.525   5.763  1.00 25.00           C
ATOM     21  CA  THR    21      -4.758  -2.020   7.120  1.00 25.00           C
ATOM     22  CA  THR    22      -5.332  -4.780   9.713  1.00 25.00           C
ATOM     23  CA  THR    23      -6.604  -7.129   6.969  1.00 25.00           C
ATOM     24  CA  TYR    24      -3.514  -6.357   4.842  1.00 25.00           C
ATOM     25  CA  SER    25      -2.878  -8.091   1.549  1.00 25.00           C
ATOM     26  CA  ASN    26      -3.068  -6.124  -1.766  1.00 25.00           C
ATOM     27  CA  ILE    27      -0.282  -3.657  -0.839  1.00 25.00           C
ATOM     28  CA  THR    28      -2.345  -0.796  -2.104  1.00 25.00           C
ATOM     29  CA  LEU    29      -3.615   2.812  -2.515  1.00 25.00           C
ATOM     30  CA  GLU    30      -5.022   6.160  -3.642  1.00 25.00           C
ATOM     31  CA  ASP    31      -2.320   7.097  -6.150  1.00 25.00           C
ATOM     32  CA  ASP    32      -5.085   8.614  -8.173  1.00 25.00           C
ATOM     33  CA  GLN    33      -5.422  12.384  -8.242  1.00 25.00           C
ATOM     34  CA  GLY    34      -5.370  12.983  -4.459  1.00 25.00           C
ATOM     35  CA  SER    35      -2.637  11.235  -2.440  1.00 25.00           C
ATOM     36  CA  HIS    36      -2.080   8.800   0.506  1.00 25.00           C
ATOM     37  CA  PHE    37       0.041   5.662   0.080  1.00 25.00           C
ATOM     38  CA  ARG    38      -0.254   2.117   1.434  1.00 25.00           C
ATOM     39  CA  LEU    39      -1.867  -0.384   3.769  1.00 25.00           C
ATOM     40  CA  VAL    40      -4.304  -2.775   2.059  1.00 25.00           C
ATOM     41  CA  VAL    41      -7.338  -4.064   0.189  1.00 25.00           C
ATOM     42  CA  ARG    42      -9.689  -6.622   1.778  1.00 25.00           C
ATOM     43  CA  ASP    43     -13.160  -8.201   1.239  1.00 25.00           C
ATOM     44  CA  THR    44     -14.056  -9.502  -2.260  1.00 25.00           C
ATOM     45  CA  GLU    45     -16.759  -6.956  -3.126  1.00 25.00           C
ATOM     46  CA  GLY    46     -18.244  -5.749   0.206  1.00 25.00           C
ATOM     47  CA  ARG    47     -15.122  -3.628   0.679  1.00 25.00           C
ATOM     48  CA  MET    48     -11.801  -2.017   1.626  1.00 25.00           C
ATOM     49  CA  VAL    49      -8.897   0.383   1.875  1.00 25.00           C
ATOM     50  CA  TRP    50      -5.818   2.506   2.293  1.00 25.00           C
ATOM     51  CA  ARG    51      -3.695   5.293   3.738  1.00 25.00           C
ATOM     52  CA  ALA    52      -2.844   3.422   6.900  1.00 25.00           C
ATOM     53  CA  TRP    53       0.605   4.678   8.039  1.00 25.00           C
ATOM     54  CA  ASN    54       1.215   7.284   5.289  1.00 25.00           C
ATOM     55  CA  PHE    55       4.686   8.713   5.908  1.00 25.00           C
ATOM     56  CA  GLU    56       7.895   7.208   7.365  1.00 25.00           C
ATOM     57  CA  PRO    57       9.246   5.779   4.102  1.00 25.00           C
ATOM     58  CA  ASP    58       7.547   8.099   1.655  1.00 25.00           C
ATOM     59  CA  ALA    59       4.724   5.491   1.923  1.00 25.00           C
ATOM     60  CA  GLY    60       6.397   2.829  -0.207  1.00 25.00           C
ATOM     61  CA  GLU    61       5.653  -0.730   0.925  1.00 25.00           C
ATOM     62  CA  GLY    62       7.168   0.482   4.227  1.00 25.00           C
ATOM     63  CA  LEU    63       3.663   1.135   5.624  1.00 25.00           C
ATOM     64  CA  ASN    64       2.561  -2.378   4.567  1.00 25.00           C
ATOM     65  CA  ARG    65       5.645  -3.884   6.266  1.00 25.00           C
ATOM     66  CA  TYR    66       4.871  -1.922   9.463  1.00 25.00           C
ATOM     67  CA  ILE    67       1.251  -3.171   9.383  1.00 25.00           C
ATOM     68  CA  ARG    68       2.477  -6.773   8.943  1.00 25.00           C
ATOM     69  CA  THR    69       4.866  -6.347  11.905  1.00 25.00           C
ATOM     70  CA  SER    70       5.405 -10.114  11.288  1.00 25.00           C
ATOM     71  CA  GLY    71       9.208 -10.090  11.053  1.00 25.00           C
ATOM     72  CA  ILE    72       9.013  -8.149  14.298  1.00 25.00           C
ATOM     73  CA  ARG    73      12.137 -10.109  15.177  1.00 25.00           C
ATOM     74  CA  THR    74      15.900 -10.555  15.255  1.00 25.00           C
TER
END
