
#######################################################
#                                                     #
#                        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 T0309TS168_4
# Molecule2: number of CA atoms   62 (  501),  selected   62 , name T0309.pdb
# PARAMETERS: T0309TS168_4.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      -       -           -
LGA    K       4      -       -           -
LGA    K       5      -       -           -
LGA    V       6      -       -           -
LGA    H       7      -       -           -
LGA    Q       8      -       -           -
LGA    I       9      -       -           -
LGA    N      10      -       -           -
LGA    V      11      -       -           -
LGA    K      12      -       -           -
LGA    G      13      -       -           -
LGA    F      14      -       -           -
LGA    F      15      -       -           -
LGA    D      16      K       4           #
LGA    -       -      K       5           -
LGA    M      17      V       6          0.854
LGA    D      18      H       7          1.222
LGA    V      19      Q       8          1.294
LGA    M      20      I       9          2.546
LGA    E      21      N      10          1.817
LGA    V      22      V      11          0.657
LGA    T      23      K      12          2.823
LGA    E      24      G      13          0.680
LGA    Q      25      F      14          1.645
LGA    T      26      -       -           -
LGA    K      27      F      15           #
LGA    E      28      D      16          3.571
LGA    A      29      M      17          3.878
LGA    E      30      D      18          3.726
LGA    -       -      V      19           -
LGA    -       -      M      20           -
LGA    Y      31      E      21          3.212
LGA    T      32      V      22          4.252
LGA    Y      33      T      23           -
LGA    D      34      E      24           -
LGA    -       -      Q      25           -
LGA    -       -      T      26           -
LGA    -       -      K      27           -
LGA    -       -      E      28           -
LGA    -       -      A      29           -
LGA    -       -      E      30           -
LGA    -       -      Y      31           -
LGA    -       -      T      32           -
LGA    -       -      Y      33           -
LGA    F      35      D      34           #
LGA    K      36      F      35           #
LGA    E      37      K      36          2.100
LGA    I      38      E      37          2.809
LGA    L      39      I      38          3.955
LGA    S      40      L      39          4.797
LGA    E      41      S      40          3.910
LGA    F      42      E      41          2.511
LGA    N      43      -       -           -
LGA    G      44      -       -           -
LGA    K      45      -       -           -
LGA    N      46      -       -           -
LGA    V      47      -       -           -
LGA    S      48      -       -           -
LGA    I      49      -       -           -
LGA    T      50      F      42           #
LGA    V      51      N      43           -
LGA    K      52      G      44           -
LGA    E      53      K      45           -
LGA    E      54      N      46           -
LGA    N      55      -       -           -
LGA    E      56      -       -           -
LGA    L      57      -       -           -
LGA    P      58      -       -           -
LGA    V      59      -       -           -
LGA    K      60      V      47           #
LGA    G      61      S      48          4.491
LGA    V      62      I      49          1.494
LGA    E      63      T      50          0.532
LGA    M      64      V      51          5.286
LGA    A      65      K      52           #
LGA    G      66      E      53           -
LGA    D      67      E      54           -
LGA    P      68      N      55           -
LGA    L      69      E      56           -
LGA    E      70      L      57           -
LGA    H      71      P      58           -
LGA    H      72      V      59           -
LGA    H      73      K      60           -
LGA    H      74      G      61           -
LGA    H      75      V      62           -
LGA    H      76      E      63           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   76   62    5.0     24    3.02     4.17     25.795     0.770

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.960390 * X  +   0.051070 * Y  +  -0.273938 * Z  +  -0.168526
  Y_new =  -0.174391 * X  +  -0.876906 * Y  +   0.447910 * Z  + -16.712921
  Z_new =  -0.217344 * X  +   0.477941 * Y  +   0.851078 * Z  +  -1.808597 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.511683   -2.629910  [ DEG:    29.3173   -150.6827 ]
  Theta =   0.219092    2.922500  [ DEG:    12.5531    167.4469 ]
  Phi   =  -2.961967    0.179626  [ DEG:  -169.7082     10.2918 ]
 
# 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: T0309TS168_4                                  
REMARK     2: T0309.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0309TS168_4.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   24   3.02    4.17  25.795
REMARK  ---------------------------------------------------------- 
MOLECULE T0309TS168_4
PFRMAT TS
TARGET T0309
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      21.128 -20.620  -9.701  1.00 25.00           C
ATOM      2  CA  ALA     2      18.897 -22.990  -7.769  1.00 25.00           C
ATOM      3  CA  SER     3      15.437 -22.232  -6.428  1.00 25.00           C
ATOM      4  CA  LYS     4      12.095 -20.535  -5.979  1.00 25.00           C
ATOM      5  CA  LYS     5       8.817 -18.627  -5.388  1.00 25.00           C
ATOM      6  CA  VAL     6       5.339 -17.214  -6.284  1.00 25.00           C
ATOM      7  CA  HIS     7       4.085 -16.488  -2.723  1.00 25.00           C
ATOM      8  CA  GLN     8       0.870 -14.568  -3.541  1.00 25.00           C
ATOM      9  CA  ILE     9      -1.901 -16.629  -1.998  1.00 25.00           C
ATOM     10  CA  ASN    10      -3.641 -19.267   0.131  1.00 25.00           C
ATOM     11  CA  VAL    11      -6.273 -18.078   2.645  1.00 25.00           C
ATOM     12  CA  LYS    12      -8.186 -17.633   5.895  1.00 25.00           C
ATOM     13  CA  GLY    13      -9.192 -19.922   8.811  1.00 25.00           C
ATOM     14  CA  PHE    14     -12.731 -19.169   7.590  1.00 25.00           C
ATOM     15  CA  PHE    15     -13.873 -17.403   4.424  1.00 25.00           C
ATOM     16  CA  ASP    16     -15.538 -20.623   3.439  1.00 25.00           C
ATOM     17  CA  MET    17     -12.096 -21.872   2.560  1.00 25.00           C
ATOM     18  CA  ASP    18     -11.036 -18.911   0.417  1.00 25.00           C
ATOM     19  CA  VAL    19      -8.241 -18.593  -2.146  1.00 25.00           C
ATOM     20  CA  MET    20      -6.107 -18.929  -5.219  1.00 25.00           C
ATOM     21  CA  GLU    21      -2.523 -19.007  -6.611  1.00 25.00           C
ATOM     22  CA  VAL    22      -1.445 -15.677  -8.168  1.00 25.00           C
ATOM     23  CA  THR    23       2.038 -14.120  -8.665  1.00 25.00           C
ATOM     24  CA  GLU    24       3.840 -14.009 -11.981  1.00 25.00           C
ATOM     25  CA  GLN    25       5.478 -10.710 -13.138  1.00 25.00           C
ATOM     26  CA  THR    26       2.610 -10.667 -15.686  1.00 25.00           C
ATOM     27  CA  LYS    27       2.338  -7.053 -14.733  1.00 25.00           C
ATOM     28  CA  GLU    28       4.296  -5.361 -11.887  1.00 25.00           C
ATOM     29  CA  ALA    29       6.164  -4.625  -8.657  1.00 25.00           C
ATOM     30  CA  GLU    30       3.983  -3.917  -5.621  1.00 25.00           C
ATOM     31  CA  TYR    31       0.574  -5.610  -6.047  1.00 25.00           C
ATOM     32  CA  THR    32       2.255  -9.051  -6.051  1.00 25.00           C
ATOM     33  CA  TYR    33       4.171  -8.146  -2.861  1.00 25.00           C
ATOM     34  CA  ASP    34       1.291  -8.210  -0.466  1.00 25.00           C
ATOM     35  CA  PHE    35      -1.893  -9.067  -2.327  1.00 25.00           C
ATOM     36  CA  LYS    36      -3.167  -6.891   0.556  1.00 25.00           C
ATOM     37  CA  GLU    37      -4.766  -4.471  -1.945  1.00 25.00           C
ATOM     38  CA  ILE    38      -6.450  -7.403  -3.743  1.00 25.00           C
ATOM     39  CA  LEU    39      -7.779  -8.721  -0.401  1.00 25.00           C
ATOM     40  CA  SER    40      -9.148  -5.248   0.452  1.00 25.00           C
ATOM     41  CA  GLU    41     -10.856  -5.052  -2.969  1.00 25.00           C
ATOM     42  CA  PHE    42     -12.408  -8.510  -2.419  1.00 25.00           C
ATOM     43  CA  ASN    43     -13.535  -7.979  -6.042  1.00 25.00           C
ATOM     44  CA  GLY    44     -12.583  -9.027  -9.592  1.00 25.00           C
ATOM     45  CA  LYS    45     -12.776 -12.625  -8.204  1.00 25.00           C
ATOM     46  CA  ASN    46     -10.361 -14.373  -5.829  1.00 25.00           C
ATOM     47  CA  VAL    47      -7.178 -14.787  -7.874  1.00 25.00           C
ATOM     48  CA  SER    48      -4.969 -13.705  -5.000  1.00 25.00           C
ATOM     49  CA  ILE    49      -5.503 -13.225  -1.250  1.00 25.00           C
ATOM     50  CA  THR    50      -3.396 -12.852   1.877  1.00 25.00           C
ATOM     51  CA  VAL    51       0.359 -13.104   1.215  1.00 25.00           C
ATOM     52  CA  LYS    52       3.703 -12.866   3.110  1.00 25.00           C
ATOM     53  CA  GLU    53       5.159 -10.420   5.687  1.00 25.00           C
ATOM     54  CA  GLU    54       6.432  -9.296   9.101  1.00 25.00           C
ATOM     55  CA  ASN    55       8.283 -12.571   9.882  1.00 25.00           C
ATOM     56  CA  GLU    56      10.756 -13.452   7.129  1.00 25.00           C
ATOM     57  CA  LEU    57       7.944 -15.448   5.505  1.00 25.00           C
ATOM     58  CA  PRO    58       6.599 -17.851   8.088  1.00 25.00           C
ATOM     59  CA  VAL    59       2.942 -17.326   7.372  1.00 25.00           C
ATOM     60  CA  LYS    60       1.337 -14.487   9.305  1.00 25.00           C
ATOM     61  CA  GLY    61      -0.608 -13.959   6.119  1.00 25.00           C
ATOM     62  CA  VAL    62      -1.267 -17.231   4.211  1.00 25.00           C
ATOM     63  CA  GLU    63       1.749 -18.109   2.005  1.00 25.00           C
ATOM     64  CA  MET    64       1.307 -20.392  -1.005  1.00 25.00           C
ATOM     65  CA  ALA    65       1.684 -21.004  -4.769  1.00 25.00           C
ATOM     66  CA  GLY    66      -1.172 -23.510  -4.494  1.00 25.00           C
ATOM     67  CA  ASP    67      -1.051 -26.199  -7.141  1.00 25.00           C
ATOM     68  CA  PRO    68       0.723 -29.075  -5.290  1.00 25.00           C
ATOM     69  CA  LEU    69       0.474 -31.675  -2.534  1.00 25.00           C
ATOM     70  CA  GLU    70       1.530 -35.332  -2.410  1.00 25.00           C
ATOM     71  CA  HIS    71       3.542 -37.636  -4.757  1.00 25.00           C
ATOM     72  CA  HIS    72       6.851 -38.580  -3.120  1.00 25.00           C
ATOM     73  CA  HIS    73       7.876 -38.185   0.503  1.00 25.00           C
ATOM     74  CA  HIS    74       6.339 -38.002   3.963  1.00 25.00           C
ATOM     75  CA  HIS    75       8.574 -36.187   6.431  1.00 25.00           C
ATOM     76  CA  HIS    76      11.726 -37.362   4.555  1.00 25.00           C
TER
END
