
#######################################################
#                                                     #
#                        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_5-D1
# Molecule2: number of CA atoms   65 ( 1035),  selected   65 , name T0358_D1.pdb
# PARAMETERS: T0358TS168_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           -
LGA    -       -      A      17           -
LGA    -       -      Q      18           -
LGA    -       -      A      19           -
LGA    -       -      V      20           -
LGA    -       -      T      21           -
LGA    -       -      T      22           -
LGA    -       -      T      23           -
LGA    -       -      Y      24           -
LGA    -       -      S      25           -
LGA    -       -      N      26           -
LGA    -       -      I      27           -
LGA    -       -      T      28           -
LGA    -       -      L      29           -
LGA    Q      16      E      30          4.846
LGA    A      17      D      31          2.200
LGA    Q      18      -       -           -
LGA    A      19      -       -           -
LGA    V      20      -       -           -
LGA    T      21      -       -           -
LGA    T      22      -       -           -
LGA    T      23      -       -           -
LGA    Y      24      -       -           -
LGA    S      25      -       -           -
LGA    N      26      -       -           -
LGA    I      27      -       -           -
LGA    T      28      -       -           -
LGA    L      29      D      32           #
LGA    E      30      Q      33           -
LGA    D      31      -       -           -
LGA    D      32      -       -           -
LGA    Q      33      -       -           -
LGA    G      34      G      34          4.457
LGA    S      35      S      35          1.499
LGA    H      36      H      36          3.459
LGA    F      37      F      37          1.591
LGA    R      38      R      38          3.598
LGA    L      39      L      39           #
LGA    V      40      V      40          4.800
LGA    V      41      V      41           #
LGA    R      42      -       -           -
LGA    D      43      -       -           -
LGA    T      44      -       -           -
LGA    E      45      -       -           -
LGA    G      46      -       -           -
LGA    R      47      R      42          4.528
LGA    M      48      D      43          2.911
LGA    -       -      T      44           -
LGA    -       -      E      45           -
LGA    -       -      G      46           -
LGA    -       -      R      47           -
LGA    -       -      M      48           -
LGA    V      49      V      49          3.986
LGA    W      50      W      50          4.235
LGA    R      51      R      51          3.394
LGA    A      52      A      52          3.747
LGA    W      53      W      53          1.401
LGA    N      54      N      54          4.386
LGA    F      55      F      55          3.969
LGA    E      56      E      56          1.556
LGA    P      57      P      57          2.634
LGA    D      58      D      58          1.355
LGA    A      59      A      59          1.964
LGA    G      60      G      60          0.934
LGA    E      61      E      61          2.022
LGA    G      62      G      62          3.680
LGA    L      63      -       -           -
LGA    N      64      L      63          4.752
LGA    R      65      N      64           -
LGA    Y      66      R      65           -
LGA    I      67      Y      66           -
LGA    R      68      I      67           -
LGA    T      69      R      68           -
LGA    S      70      T      69           -
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     25    3.36    84.00     22.948     0.722

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.411152 * X  +   0.493151 * Y  +   0.766653 * Z  +  -4.447408
  Y_new =   0.824559 * X  +   0.157386 * Y  +  -0.543445 * Z  +   7.005873
  Z_new =  -0.388661 * X  +   0.855589 * Y  +  -0.341922 * Z  +   5.713315 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.950987   -1.190606  [ DEG:   111.7833    -68.2167 ]
  Theta =   0.399178    2.742415  [ DEG:    22.8712    157.1288 ]
  Phi   =   1.108243   -2.033350  [ DEG:    63.4977   -116.5023 ]
 
# 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_5-D1                               
REMARK     2: T0358_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS168_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   25   3.36   84.00  22.948
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS168_5-D1
PFRMAT TS
TARGET T0358
MODEL 5
PARENT N/A
ATOM     10  CA  GLY    10     -14.447  17.538  -1.422  1.00 25.00           C
ATOM     11  CA  PRO    11     -15.925  14.156  -2.216  1.00 25.00           C
ATOM     12  CA  PHE    12     -12.480  12.916  -0.996  1.00 25.00           C
ATOM     13  CA  THR    13     -10.912  13.680  -4.411  1.00 25.00           C
ATOM     14  CA  ARG    14      -8.270  11.214  -3.417  1.00 25.00           C
ATOM     15  CA  ARG    15     -11.104   8.641  -3.295  1.00 25.00           C
ATOM     16  CA  GLN    16      -9.740   6.953  -6.451  1.00 25.00           C
ATOM     17  CA  ALA    17      -6.239   6.831  -4.903  1.00 25.00           C
ATOM     18  CA  GLN    18      -7.679   5.281  -1.710  1.00 25.00           C
ATOM     19  CA  ALA    19      -9.540   2.660  -3.792  1.00 25.00           C
ATOM     20  CA  VAL    20      -6.315   1.839  -5.687  1.00 25.00           C
ATOM     21  CA  THR    21      -4.434   1.463  -2.372  1.00 25.00           C
ATOM     22  CA  THR    22      -7.173  -0.867  -1.054  1.00 25.00           C
ATOM     23  CA  THR    23      -6.962  -2.963  -4.252  1.00 25.00           C
ATOM     24  CA  TYR    24      -3.157  -3.186  -3.884  1.00 25.00           C
ATOM     25  CA  SER    25      -3.902  -5.024  -0.588  1.00 25.00           C
ATOM     26  CA  ASN    26      -0.276  -4.288   0.288  1.00 25.00           C
ATOM     27  CA  ILE    27      -0.504  -0.531  -0.267  1.00 25.00           C
ATOM     28  CA  THR    28       1.403   1.188  -2.995  1.00 25.00           C
ATOM     29  CA  LEU    29       0.587   4.468  -4.701  1.00 25.00           C
ATOM     30  CA  GLU    30       2.192   5.261  -8.087  1.00 25.00           C
ATOM     31  CA  ASP    31       5.961   4.928  -8.623  1.00 25.00           C
ATOM     32  CA  ASP    32       5.374   4.374 -12.398  1.00 25.00           C
ATOM     33  CA  GLN    33       6.853   7.851 -12.904  1.00 25.00           C
ATOM     34  CA  GLY    34       5.482  10.029 -10.100  1.00 25.00           C
ATOM     35  CA  SER    35       4.049  10.150  -6.602  1.00 25.00           C
ATOM     36  CA  HIS    36       2.198   9.133  -3.419  1.00 25.00           C
ATOM     37  CA  PHE    37      -1.427   8.660  -2.424  1.00 25.00           C
ATOM     38  CA  ARG    38      -3.892   8.529   0.493  1.00 25.00           C
ATOM     39  CA  LEU    39      -4.773   6.053   3.308  1.00 25.00           C
ATOM     40  CA  VAL    40      -6.169   2.786   4.762  1.00 25.00           C
ATOM     41  CA  VAL    41      -9.194   1.276   2.996  1.00 25.00           C
ATOM     42  CA  ARG    42     -11.715  -1.471   2.068  1.00 25.00           C
ATOM     43  CA  ASP    43     -13.261  -4.381   0.168  1.00 25.00           C
ATOM     44  CA  THR    44     -14.911  -7.690   1.096  1.00 25.00           C
ATOM     45  CA  GLU    45     -14.372 -10.010  -1.833  1.00 25.00           C
ATOM     46  CA  GLY    46     -10.767 -10.623  -0.947  1.00 25.00           C
ATOM     47  CA  ARG    47      -9.908  -7.955   1.604  1.00 25.00           C
ATOM     48  CA  MET    48      -7.981  -4.838   2.497  1.00 25.00           C
ATOM     49  CA  VAL    49      -5.458  -2.161   3.611  1.00 25.00           C
ATOM     50  CA  TRP    50      -1.951  -0.928   4.564  1.00 25.00           C
ATOM     51  CA  ARG    51      -1.329   2.360   2.755  1.00 25.00           C
ATOM     52  CA  ALA    52       0.436   4.883   0.474  1.00 25.00           C
ATOM     53  CA  TRP    53       0.570   7.632   3.111  1.00 25.00           C
ATOM     54  CA  ASN    54       1.173  10.903   1.323  1.00 25.00           C
ATOM     55  CA  PHE    55       3.580  12.478   3.888  1.00 25.00           C
ATOM     56  CA  GLU    56       6.306  10.398   5.520  1.00 25.00           C
ATOM     57  CA  PRO    57       9.113   8.310   4.017  1.00 25.00           C
ATOM     58  CA  ASP    58       7.487   5.490   6.082  1.00 25.00           C
ATOM     59  CA  ALA    59       5.100   3.648   3.751  1.00 25.00           C
ATOM     60  CA  GLY    60       6.772   0.542   5.129  1.00 25.00           C
ATOM     61  CA  GLU    61       4.527   0.586   8.181  1.00 25.00           C
ATOM     62  CA  GLY    62       4.559   3.713  10.394  1.00 25.00           C
ATOM     63  CA  LEU    63       2.527   5.622   7.767  1.00 25.00           C
ATOM     64  CA  ASN    64      -0.003   2.752   7.603  1.00 25.00           C
ATOM     65  CA  ARG    65      -0.296   2.759  11.422  1.00 25.00           C
ATOM     66  CA  TYR    66      -0.868   6.545  11.395  1.00 25.00           C
ATOM     67  CA  ILE    67      -3.579   6.143   8.722  1.00 25.00           C
ATOM     68  CA  ARG    68      -5.270   3.414  10.811  1.00 25.00           C
ATOM     69  CA  THR    69      -5.175   5.684  13.896  1.00 25.00           C
ATOM     70  CA  SER    70      -4.687   2.450  15.813  1.00 25.00           C
ATOM     71  CA  GLY    71      -3.441   2.606  19.379  1.00 25.00           C
ATOM     72  CA  ILE    72      -3.969   6.346  18.863  1.00 25.00           C
ATOM     73  CA  ARG    73      -3.135   7.472  22.370  1.00 25.00           C
ATOM     74  CA  THR    74      -0.638   8.260  25.196  1.00 25.00           C
TER
END
