
#######################################################
#                                                     #
#                        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 T0358TS599_3-D1
# Molecule2: number of CA atoms   65 ( 1035),  selected   65 , name T0358_D1.pdb
# PARAMETERS: T0358TS599_3-D1.T0358_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      G      10           -
LGA    -       -      P      11           -
LGA    -       -      F      12           -
LGA    -       -      T      13           -
LGA    -       -      R      14           -
LGA    -       -      R      15           -
LGA    G      10      Q      16          2.223
LGA    P      11      A      17           -
LGA    -       -      Q      18           -
LGA    F      12      A      19          3.427
LGA    T      13      V      20           -
LGA    R      14      T      21           -
LGA    R      15      -       -           -
LGA    Q      16      T      22          4.129
LGA    A      17      T      23           #
LGA    Q      18      -       -           -
LGA    A      19      -       -           -
LGA    V      20      Y      24          3.021
LGA    T      21      S      25          2.684
LGA    T      22      -       -           -
LGA    T      23      -       -           -
LGA    Y      24      N      26          1.477
LGA    S      25      I      27           -
LGA    N      26      -       -           -
LGA    I      27      T      28          2.505
LGA    T      28      L      29          3.882
LGA    L      29      E      30          1.816
LGA    E      30      D      31          1.633
LGA    D      31      D      32          2.392
LGA    D      32      Q      33          2.695
LGA    -       -      G      34           -
LGA    Q      33      S      35           #
LGA    G      34      H      36           #
LGA    S      35      F      37          3.041
LGA    H      36      R      38          2.872
LGA    F      37      L      39          2.318
LGA    R      38      V      40          1.966
LGA    L      39      V      41          3.296
LGA    V      40      R      42          3.216
LGA    V      41      D      43          2.838
LGA    R      42      T      44          2.686
LGA    D      43      -       -           -
LGA    T      44      -       -           -
LGA    E      45      -       -           -
LGA    G      46      -       -           -
LGA    R      47      E      45          4.479
LGA    M      48      G      46          4.300
LGA    V      49      R      47          2.985
LGA    W      50      M      48          1.981
LGA    R      51      V      49          2.708
LGA    A      52      W      50          2.266
LGA    W      53      R      51          2.279
LGA    N      54      A      52          0.808
LGA    F      55      W      53          1.629
LGA    E      56      N      54          3.246
LGA    P      57      F      55          1.033
LGA    D      58      E      56          4.892
LGA    A      59      P      57          5.968
LGA    G      60      -       -           -
LGA    E      61      D      58          0.348
LGA    G      62      A      59          0.743
LGA    L      63      G      60          0.650
LGA    N      64      E      61          0.660
LGA    R      65      G      62          2.705
LGA    Y      66      L      63          2.885
LGA    I      67      N      64          2.985
LGA    R      68      R      65          3.772
LGA    T      69      -       -           -
LGA    S      70      -       -           -
LGA    G      71      Y      66          5.406
LGA    I      72      I      67          5.532
LGA    -       -      R      68           -
LGA    R      73      T      69           #
LGA    T      74      S      70           -
LGA    -       -      G      71           -
LGA    -       -      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     43    3.05     6.98     41.239     1.366

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.891998 * X  +   0.070245 * Y  +  -0.446548 * Z  +   0.025718
  Y_new =  -0.447511 * X  +   0.276699 * Y  +  -0.850395 * Z  +  -1.537019
  Z_new =   0.063823 * X  +   0.958386 * Y  +   0.278250 * Z  +  -0.502246 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.288233   -1.853360  [ DEG:    73.8103   -106.1897 ]
  Theta =  -0.063867   -3.077726  [ DEG:    -3.6593   -176.3407 ]
  Phi   =  -0.465003    2.676590  [ DEG:   -26.6427    153.3573 ]
 
# 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_3-D1                               
REMARK     2: T0358_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS599_3-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   43   3.05    6.98  41.239
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS599_3-D1
PFRMAT TS                                                                       
TARGET T0358                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM     10  CA  GLY    10       8.951   1.416  -6.604  1.00  0.00              
ATOM     11  CA  PRO    11      10.379  -2.029  -7.079  1.00  0.00              
ATOM     12  CA  PHE    12       8.272  -4.295  -9.104  1.00  0.00              
ATOM     13  CA  THR    13       8.343  -6.704 -11.942  1.00  0.00              
ATOM     14  CA  ARG    14       5.122  -7.426 -13.879  1.00  0.00              
ATOM     15  CA  ARG    15       4.543 -10.869 -12.400  1.00  0.00              
ATOM     16  CA  GLN    16       5.021  -9.502  -8.845  1.00  0.00              
ATOM     17  CA  ALA    17       2.609  -6.658  -9.432  1.00  0.00              
ATOM     18  CA  GLN    18      -0.045  -9.044 -10.772  1.00  0.00              
ATOM     19  CA  ALA    19       0.444 -11.252  -7.702  1.00  0.00              
ATOM     20  CA  VAL    20       0.128  -8.309  -5.262  1.00  0.00              
ATOM     21  CA  THR    21      -3.008  -7.209  -7.011  1.00  0.00              
ATOM     22  CA  THR    22      -4.588 -10.669  -6.913  1.00  0.00              
ATOM     23  CA  THR    23      -3.865 -11.147  -3.192  1.00  0.00              
ATOM     24  CA  TYR    24      -5.452  -7.776  -2.351  1.00  0.00              
ATOM     25  CA  SER    25      -8.605  -7.601  -4.504  1.00  0.00              
ATOM     26  CA  ASN    26      -8.980  -4.149  -5.788  1.00  0.00              
ATOM     27  CA  ILE    27      -6.073  -1.878  -5.578  1.00  0.00              
ATOM     28  CA  THR    28      -6.760   1.835  -5.625  1.00  0.00              
ATOM     29  CA  LEU    29      -3.918   4.309  -5.596  1.00  0.00              
ATOM     30  CA  GLU    30      -4.638   7.891  -5.519  1.00  0.00              
ATOM     31  CA  ASP    31      -1.892  10.279  -5.814  1.00  0.00              
ATOM     32  CA  ASP    32      -2.830  13.853  -6.057  1.00  0.00              
ATOM     33  CA  GLN    33      -0.860  15.546  -3.463  1.00  0.00              
ATOM     34  CA  GLY    34      -1.644  13.721  -0.330  1.00  0.00              
ATOM     35  CA  SER    35      -1.134  10.087  -1.095  1.00  0.00              
ATOM     36  CA  HIS    36      -4.022   7.748  -0.676  1.00  0.00              
ATOM     37  CA  PHE    37      -3.566   4.030  -0.735  1.00  0.00              
ATOM     38  CA  ARG    38      -6.592   1.700  -0.547  1.00  0.00              
ATOM     39  CA  LEU    39      -6.105  -1.988  -0.511  1.00  0.00              
ATOM     40  CA  VAL    40      -9.005  -4.383  -0.784  1.00  0.00              
ATOM     41  CA  VAL    41      -8.649  -7.760   0.655  1.00  0.00              
ATOM     42  CA  ARG    42     -11.241 -10.400   0.043  1.00  0.00              
ATOM     43  CA  ASP    43     -11.366 -13.336   2.363  1.00  0.00              
ATOM     44  CA  THR    44     -12.344 -16.752   0.976  1.00  0.00              
ATOM     45  CA  GLU    45     -15.805 -16.258   2.536  1.00  0.00              
ATOM     46  CA  GLY    46     -16.499 -13.063   0.670  1.00  0.00              
ATOM     47  CA  ARG    47     -15.778 -10.829   3.643  1.00  0.00              
ATOM     48  CA  MET    48     -14.195  -7.577   2.654  1.00  0.00              
ATOM     49  CA  VAL    49     -11.341  -6.321   4.440  1.00  0.00              
ATOM     50  CA  TRP    50     -10.169  -2.844   3.665  1.00  0.00              
ATOM     51  CA  ARG    51      -6.712  -1.859   4.273  1.00  0.00              
ATOM     52  CA  ALA    52      -5.865   1.580   4.222  1.00  0.00              
ATOM     53  CA  TRP    53      -2.419   2.324   3.530  1.00  0.00              
ATOM     54  CA  ASN    54      -0.983   5.897   3.663  1.00  0.00              
ATOM     55  CA  PHE    55       1.472   6.724   0.934  1.00  0.00              
ATOM     56  CA  GLU    56       4.310   8.276   2.878  1.00  0.00              
ATOM     57  CA  PRO    57       6.611  10.639   1.087  1.00  0.00              
ATOM     58  CA  ASP    58       9.830   9.398   2.784  1.00  0.00              
ATOM     59  CA  ALA    59       9.431   5.757   1.754  1.00  0.00              
ATOM     60  CA  GLY    60      10.377   4.128   4.992  1.00  0.00              
ATOM     61  CA  GLU    61       8.234   6.080   7.450  1.00  0.00              
ATOM     62  CA  GLY    62       4.916   5.330   5.860  1.00  0.00              
ATOM     63  CA  LEU    63       5.802   1.632   5.457  1.00  0.00              
ATOM     64  CA  ASN    64       6.895   1.405   9.121  1.00  0.00              
ATOM     65  CA  ARG    65       3.684   3.094  10.255  1.00  0.00              
ATOM     66  CA  TYR    66       1.633   0.624   8.180  1.00  0.00              
ATOM     67  CA  ILE    67       3.496  -2.356   9.482  1.00  0.00              
ATOM     68  CA  ARG    68       2.966  -1.278  13.094  1.00  0.00              
ATOM     69  CA  THR    69      -0.708  -0.634  12.684  1.00  0.00              
ATOM     70  CA  SER    70      -1.293  -3.995  11.116  1.00  0.00              
ATOM     71  CA  GLY    71       0.762  -5.933  13.684  1.00  0.00              
ATOM     72  CA  ILE    72       3.711  -6.678  11.453  1.00  0.00              
ATOM     73  CA  ARG    73       7.211  -6.648  12.843  1.00  0.00              
ATOM     74  CA  THR    74       9.975  -4.751  10.995  1.00  0.00              
TER                                                                             
END
