
#######################################################
#                                                     #
#                        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 T0358TS393_5-D1
# Molecule2: number of CA atoms   65 ( 1035),  selected   65 , name T0358_D1.pdb
# PARAMETERS: T0358TS393_5-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      -       -           -
LGA    S      25      Y      24           #
LGA    N      26      S      25          3.520
LGA    -       -      N      26           -
LGA    I      27      I      27          2.013
LGA    T      28      T      28          1.189
LGA    L      29      L      29          1.364
LGA    E      30      E      30          4.407
LGA    D      31      D      31          3.292
LGA    D      32      D      32          2.462
LGA    Q      33      Q      33          1.703
LGA    G      34      G      34           #
LGA    -       -      S      35           -
LGA    S      35      H      36          2.539
LGA    H      36      F      37          3.296
LGA    F      37      R      38          1.858
LGA    R      38      L      39          2.455
LGA    L      39      V      40          2.539
LGA    V      40      V      41          1.815
LGA    V      41      R      42          2.429
LGA    R      42      D      43          1.666
LGA    D      43      T      44          3.636
LGA    T      44      E      45          2.210
LGA    E      45      G      46           #
LGA    G      46      -       -           -
LGA    R      47      -       -           -
LGA    M      48      R      47          0.782
LGA    V      49      M      48          3.173
LGA    W      50      V      49          0.891
LGA    R      51      W      50          1.627
LGA    A      52      R      51          3.063
LGA    W      53      A      52          1.115
LGA    N      54      W      53          2.502
LGA    F      55      N      54          2.414
LGA    -       -      F      55           -
LGA    -       -      E      56           -
LGA    -       -      P      57           -
LGA    E      56      D      58          3.411
LGA    P      57      A      59          4.785
LGA    D      58      -       -           -
LGA    A      59      -       -           -
LGA    G      60      -       -           -
LGA    E      61      G      60           #
LGA    G      62      E      61          4.989
LGA    L      63      G      62          3.306
LGA    N      64      L      63          2.474
LGA    R      65      N      64          1.292
LGA    Y      66      R      65          2.695
LGA    I      67      Y      66          3.477
LGA    R      68      -       -           -
LGA    T      69      I      67           #
LGA    S      70      R      68          3.253
LGA    G      71      T      69           -
LGA    I      72      S      70           -
LGA    R      73      G      71           -
LGA    T      74      I      72           -
LGA    -       -      R      73           -
LGA    -       -      T      74           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   65   65    5.0     35    2.76    22.86     33.431     1.223

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.987263 * X  +  -0.157343 * Y  +   0.023560 * Z  +  -1.273660
  Y_new =   0.082915 * X  +  -0.382466 * Y  +   0.920242 * Z  +   2.010852
  Z_new =  -0.135783 * X  +   0.910474 * Y  +   0.390641 * Z  +   7.497397 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.165498   -1.976094  [ DEG:    66.7781   -113.2219 ]
  Theta =   0.136203    3.005389  [ DEG:     7.8039    172.1961 ]
  Phi   =   3.057804   -0.083789  [ DEG:   175.1993     -4.8007 ]
 
# 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: T0358TS393_5-D1                               
REMARK     2: T0358_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS393_5-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   35   2.76   22.86  33.431
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS393_5-D1
PFRMAT TS
TARGET T0358
MODEL 5
PARENT N/A
ATOM     10  CA  GLY    10      -7.189  12.436  15.647  1.00 25.00           C
ATOM     11  CA  PRO    11      -7.562  14.288  12.362  1.00 25.00           C
ATOM     12  CA  PHE    12      -7.992  10.766  10.944  1.00 25.00           C
ATOM     13  CA  THR    13     -11.765  10.497  11.673  1.00 25.00           C
ATOM     14  CA  ARG    14     -11.679   7.001  10.088  1.00 25.00           C
ATOM     15  CA  ARG    15     -11.157   8.943   6.829  1.00 25.00           C
ATOM     16  CA  GLN    16      -7.726   7.301   6.371  1.00 25.00           C
ATOM     17  CA  ALA    17      -9.275   3.848   6.955  1.00 25.00           C
ATOM     18  CA  GLN    18     -12.001   4.605   4.375  1.00 25.00           C
ATOM     19  CA  ALA    19      -9.341   5.713   1.853  1.00 25.00           C
ATOM     20  CA  VAL    20      -7.373   2.487   2.475  1.00 25.00           C
ATOM     21  CA  THR    21     -10.551   0.417   1.947  1.00 25.00           C
ATOM     22  CA  THR    22     -11.249   2.280  -1.325  1.00 25.00           C
ATOM     23  CA  THR    23      -7.663   1.621  -2.495  1.00 25.00           C
ATOM     24  CA  TYR    24      -8.044  -2.096  -1.650  1.00 25.00           C
ATOM     25  CA  SER    25      -8.243  -5.025  -4.085  1.00 25.00           C
ATOM     26  CA  ASN    26      -5.526  -6.776  -2.008  1.00 25.00           C
ATOM     27  CA  ILE    27      -2.663  -4.648  -3.329  1.00 25.00           C
ATOM     28  CA  THR    28      -3.354  -0.902  -3.405  1.00 25.00           C
ATOM     29  CA  LEU    29      -2.244   2.598  -4.284  1.00 25.00           C
ATOM     30  CA  GLU    30      -1.384   5.305  -6.753  1.00 25.00           C
ATOM     31  CA  ASP    31      -4.508   7.366  -7.350  1.00 25.00           C
ATOM     32  CA  ASP    32      -4.029  10.582  -9.260  1.00 25.00           C
ATOM     33  CA  GLN    33      -2.582  14.130  -8.960  1.00 25.00           C
ATOM     34  CA  GLY    34      -3.905  13.843  -5.368  1.00 25.00           C
ATOM     35  CA  SER    35      -1.397  11.547  -3.661  1.00 25.00           C
ATOM     36  CA  HIS    36      -2.070   9.058  -0.827  1.00 25.00           C
ATOM     37  CA  PHE    37      -2.746   5.369  -0.150  1.00 25.00           C
ATOM     38  CA  ARG    38       0.067   2.966   0.609  1.00 25.00           C
ATOM     39  CA  LEU    39      -2.741   0.457   1.423  1.00 25.00           C
ATOM     40  CA  VAL    40      -3.118  -3.298   1.843  1.00 25.00           C
ATOM     41  CA  VAL    41      -5.873  -5.584   3.142  1.00 25.00           C
ATOM     42  CA  ARG    42      -9.241  -7.148   2.109  1.00 25.00           C
ATOM     43  CA  ASP    43     -10.554  -8.882  -1.019  1.00 25.00           C
ATOM     44  CA  THR    44     -13.715 -10.863  -0.374  1.00 25.00           C
ATOM     45  CA  GLU    45     -16.998  -9.674  -1.846  1.00 25.00           C
ATOM     46  CA  GLY    46     -18.653  -8.182   1.222  1.00 25.00           C
ATOM     47  CA  ARG    47     -16.139  -6.037   3.060  1.00 25.00           C
ATOM     48  CA  MET    48     -13.112  -3.721   3.159  1.00 25.00           C
ATOM     49  CA  VAL    49     -12.145  -1.798   6.262  1.00 25.00           C
ATOM     50  CA  TRP    50      -8.323  -1.897   5.788  1.00 25.00           C
ATOM     51  CA  ARG    51      -4.762  -0.604   5.884  1.00 25.00           C
ATOM     52  CA  ALA    52      -3.373   2.909   6.582  1.00 25.00           C
ATOM     53  CA  TRP    53      -1.541   5.719   4.701  1.00 25.00           C
ATOM     54  CA  ASN    54       1.450   7.922   4.054  1.00 25.00           C
ATOM     55  CA  PHE    55       4.654   7.688   1.965  1.00 25.00           C
ATOM     56  CA  GLU    56       5.773   5.370   4.720  1.00 25.00           C
ATOM     57  CA  PRO    57       9.175   4.963   3.110  1.00 25.00           C
ATOM     58  CA  ASP    58       9.591   1.507   1.535  1.00 25.00           C
ATOM     59  CA  ALA    59       6.324   1.863  -0.443  1.00 25.00           C
ATOM     60  CA  GLY    60       6.230  -1.942  -0.016  1.00 25.00           C
ATOM     61  CA  GLU    61       2.772  -1.329   1.452  1.00 25.00           C
ATOM     62  CA  GLY    62       4.660   0.373   4.316  1.00 25.00           C
ATOM     63  CA  LEU    63       1.345   1.190   6.050  1.00 25.00           C
ATOM     64  CA  ASN    64       0.219  -2.450   5.667  1.00 25.00           C
ATOM     65  CA  ARG    65       3.538  -3.658   7.150  1.00 25.00           C
ATOM     66  CA  TYR    66       3.122  -1.253  10.101  1.00 25.00           C
ATOM     67  CA  ILE    67      -0.441  -2.535  10.676  1.00 25.00           C
ATOM     68  CA  ARG    68       0.824  -6.150  10.609  1.00 25.00           C
ATOM     69  CA  THR    69       3.558  -5.267  13.140  1.00 25.00           C
ATOM     70  CA  SER    70       5.670  -8.102  11.693  1.00 25.00           C
ATOM     71  CA  GLY    71       6.715  -8.936  15.314  1.00 25.00           C
ATOM     72  CA  ILE    72       7.131  -5.484  16.897  1.00 25.00           C
ATOM     73  CA  ARG    73       9.973  -6.870  19.044  1.00 25.00           C
ATOM     74  CA  THR    74       9.324  -3.925  21.362  1.00 25.00           C
TER
END
