
#######################################################
#                                                     #
#                        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   19 (   76),  selected   19 , name T0353AL381_5
# Molecule2: number of CA atoms   85 ( 1334),  selected   85 , name T0353.pdb
# PARAMETERS: T0353AL381_5.T0353.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      Q       2           -
LGA    -       -      I       3           -
LGA    -       -      H       4           -
LGA    -       -      V       5           -
LGA    -       -      Y       6           -
LGA    -       -      D       7           -
LGA    -       -      T       8           -
LGA    -       -      Y       9           -
LGA    -       -      V      10           -
LGA    -       -      K      11           -
LGA    -       -      A      12           -
LGA    -       -      K      13           -
LGA    -       -      D      14           -
LGA    -       -      G      15           -
LGA    -       -      H      16           -
LGA    -       -      V      17           -
LGA    -       -      M      18           -
LGA    -       -      H      19           -
LGA    -       -      F      20           -
LGA    -       -      D      21           -
LGA    -       -      V      22           -
LGA    -       -      F      23           -
LGA    -       -      T      24           -
LGA    -       -      D      25           -
LGA    -       -      V      26           -
LGA    -       -      R      27           -
LGA    -       -      D      28           -
LGA    P      64      D      29          1.640
LGA    D      65      K      30          0.779
LGA    E      66      K      31          0.641
LGA    V      67      A      32          1.214
LGA    I      68      I      33          0.824
LGA    E      69      E      34          0.509
LGA    A      70      F      35          0.686
LGA    I      71      A      36          1.237
LGA    K      72      K      37          1.073
LGA    Q      73      Q      38          0.853
LGA    N      74      W      39          1.131
LGA    G      75      L      40          2.109
LGA    -       -      S      41           -
LGA    -       -      S      42           -
LGA    -       -      I      43           -
LGA    -       -      G      44           -
LGA    -       -      E      45           -
LGA    Y      76      E      46          3.466
LGA    -       -      G      47           -
LGA    F      77      A      48          3.100
LGA    I      78      T      49          3.724
LGA    Y      79      V      50          2.317
LGA    -       -      T      51           -
LGA    K      80      S      52          2.449
LGA    M      81      E      53          1.475
LGA    -       -      E      54           -
LGA    -       -      C      55           -
LGA    E      82      R      56          6.153
LGA    -       -      F      57           -
LGA    -       -      C      58           -
LGA    -       -      H      59           -
LGA    -       -      S      60           -
LGA    -       -      Q      61           -
LGA    -       -      K      62           -
LGA    -       -      A      63           -
LGA    -       -      P      64           -
LGA    -       -      D      65           -
LGA    -       -      E      66           -
LGA    -       -      V      67           -
LGA    -       -      I      68           -
LGA    -       -      E      69           -
LGA    -       -      A      70           -
LGA    -       -      I      71           -
LGA    -       -      K      72           -
LGA    -       -      Q      73           -
LGA    -       -      N      74           -
LGA    -       -      G      75           -
LGA    -       -      Y      76           -
LGA    -       -      F      77           -
LGA    -       -      I      78           -
LGA    -       -      Y      79           -
LGA    -       -      K      80           -
LGA    -       -      M      81           -
LGA    -       -      E      82           -
LGA    -       -      G      83           -
LGA    -       -      C      84           -
LGA    -       -      N      85           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   19   85    5.0     19    2.32    21.05     19.670     0.784

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.389259 * X  +   0.899263 * Y  +  -0.199511 * Z  +  -1.579870
  Y_new =  -0.574168 * X  +  -0.406245 * Y  +  -0.710842 * Z  +   1.817193
  Z_new =  -0.720284 * X  +  -0.162149 * Y  +   0.674462 * Z  +   2.435104 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.235935    2.905658  [ DEG:   -13.5181    166.4819 ]
  Theta =   0.804212    2.337381  [ DEG:    46.0780    133.9220 ]
  Phi   =  -2.166572    0.975021  [ DEG:  -124.1354     55.8646 ]
 
# 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: T0353AL381_5                                  
REMARK     2: T0353.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0353AL381_5.T0353.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   19   85   5.0   19   2.32   21.05  19.670
REMARK  ---------------------------------------------------------- 
MOLECULE T0353AL381_5
REMARK Aligment from pdb entry: 1mwyA
ATOM      1  N   PRO    64      -2.682   7.163  -5.098  1.00  0.00              
ATOM      2  CA  PRO    64      -3.452   6.977  -3.869  1.00  0.00              
ATOM      3  C   PRO    64      -4.700   6.156  -4.123  1.00  0.00              
ATOM      4  O   PRO    64      -5.000   5.235  -3.368  1.00  0.00              
ATOM      5  N   ASP    65      -5.393   6.470  -5.218  1.00  0.00              
ATOM      6  CA  ASP    65      -6.543   5.709  -5.668  1.00  0.00              
ATOM      7  C   ASP    65      -6.135   4.260  -5.913  1.00  0.00              
ATOM      8  O   ASP    65      -6.931   3.341  -5.720  1.00  0.00              
ATOM      9  N   GLU    66      -4.886   4.046  -6.344  1.00  0.00              
ATOM     10  CA  GLU    66      -4.421   2.718  -6.662  1.00  0.00              
ATOM     11  C   GLU    66      -4.216   1.947  -5.366  1.00  0.00              
ATOM     12  O   GLU    66      -4.653   0.800  -5.242  1.00  0.00              
ATOM     13  N   VAL    67      -3.582   2.590  -4.385  1.00  0.00              
ATOM     14  CA  VAL    67      -3.343   1.941  -3.119  1.00  0.00              
ATOM     15  C   VAL    67      -4.689   1.675  -2.441  1.00  0.00              
ATOM     16  O   VAL    67      -4.935   0.566  -1.974  1.00  0.00              
ATOM     17  N   ILE    68      -5.570   2.681  -2.397  1.00  0.00              
ATOM     18  CA  ILE    68      -6.945   2.475  -1.968  1.00  0.00              
ATOM     19  C   ILE    68      -7.560   1.261  -2.638  1.00  0.00              
ATOM     20  O   ILE    68      -7.941   0.349  -1.923  1.00  0.00              
ATOM     21  N   GLU    69      -7.645   1.212  -3.970  1.00  0.00              
ATOM     22  CA  GLU    69      -8.225   0.063  -4.662  1.00  0.00              
ATOM     23  C   GLU    69      -7.624  -1.243  -4.123  1.00  0.00              
ATOM     24  O   GLU    69      -8.335  -2.217  -3.867  1.00  0.00              
ATOM     25  N   ALA    70      -6.304  -1.254  -3.936  1.00  0.00              
ATOM     26  CA  ALA    70      -5.587  -2.386  -3.383  1.00  0.00              
ATOM     27  C   ALA    70      -6.074  -2.760  -1.976  1.00  0.00              
ATOM     28  O   ALA    70      -6.323  -3.927  -1.685  1.00  0.00              
ATOM     29  N   ILE    71      -6.188  -1.777  -1.087  1.00  0.00              
ATOM     30  CA  ILE    71      -6.541  -1.976   0.310  1.00  0.00              
ATOM     31  C   ILE    71      -8.009  -2.369   0.433  1.00  0.00              
ATOM     32  O   ILE    71      -8.370  -3.263   1.201  1.00  0.00              
ATOM     33  N   LYS    72      -8.837  -1.745  -0.397  1.00  0.00              
ATOM     34  CA  LYS    72     -10.202  -2.185  -0.621  1.00  0.00              
ATOM     35  C   LYS    72     -10.234  -3.676  -0.983  1.00  0.00              
ATOM     36  O   LYS    72     -10.847  -4.447  -0.246  1.00  0.00              
ATOM     37  N   GLN    73      -9.552  -4.122  -2.051  1.00  0.00              
ATOM     38  CA  GLN    73      -9.581  -5.553  -2.383  1.00  0.00              
ATOM     39  C   GLN    73      -9.003  -6.409  -1.247  1.00  0.00              
ATOM     40  O   GLN    73      -9.470  -7.520  -1.008  1.00  0.00              
ATOM     41  N   ASN    74      -7.980  -5.902  -0.549  1.00  0.00              
ATOM     42  CA  ASN    74      -7.378  -6.589   0.586  1.00  0.00              
ATOM     43  C   ASN    74      -8.363  -6.735   1.752  1.00  0.00              
ATOM     44  O   ASN    74      -8.169  -7.597   2.609  1.00  0.00              
ATOM     45  N   GLY    75      -9.412  -5.907   1.778  1.00  0.00              
ATOM     46  CA  GLY    75     -10.520  -6.015   2.709  1.00  0.00              
ATOM     47  C   GLY    75     -10.374  -5.039   3.869  1.00  0.00              
ATOM     48  O   GLY    75     -10.729  -5.379   4.996  1.00  0.00              
ATOM     49  N   TYR    76      -9.873  -3.827   3.600  1.00  0.00              
ATOM     50  CA  TYR    76      -9.790  -2.765   4.591  1.00  0.00              
ATOM     51  C   TYR    76     -10.441  -1.505   4.030  1.00  0.00              
ATOM     52  O   TYR    76     -10.028  -0.998   2.987  1.00  0.00              
ATOM     53  N   PHE    77     -11.440  -0.980   4.738  1.00  0.00              
ATOM     54  CA  PHE    77     -12.069   0.277   4.390  1.00  0.00              
ATOM     55  C   PHE    77     -11.177   1.387   4.932  1.00  0.00              
ATOM     56  O   PHE    77     -11.017   1.508   6.149  1.00  0.00              
ATOM     57  N   ILE    78     -10.589   2.172   4.029  1.00  0.00              
ATOM     58  CA  ILE    78      -9.823   3.354   4.378  1.00  0.00              
ATOM     59  C   ILE    78     -10.549   4.619   3.951  1.00  0.00              
ATOM     60  O   ILE    78     -11.637   4.565   3.376  1.00  0.00              
ATOM     61  N   TYR    79      -9.919   5.759   4.223  1.00  0.00              
ATOM     62  CA  TYR    79     -10.234   7.036   3.631  1.00  0.00              
ATOM     63  C   TYR    79      -8.894   7.612   3.201  1.00  0.00              
ATOM     64  O   TYR    79      -7.943   7.611   3.989  1.00  0.00              
ATOM     65  N   LYS    80      -8.828   8.029   1.939  1.00  0.00              
ATOM     66  CA  LYS    80      -7.683   8.635   1.321  1.00  0.00              
ATOM     67  C   LYS    80      -7.429   9.946   2.028  1.00  0.00              
ATOM     68  O   LYS    80      -8.284  10.832   1.990  1.00  0.00              
ATOM     69  N   MET    81      -6.286  10.046   2.694  1.00  0.00              
ATOM     70  CA  MET    81      -5.891  11.297   3.303  1.00  0.00              
ATOM     71  C   MET    81      -5.057  12.157   2.369  1.00  0.00              
ATOM     72  O   MET    81      -4.537  11.725   1.342  1.00  0.00              
ATOM     73  N   GLU    82      -4.947  13.418   2.775  1.00  0.00              
ATOM     74  CA  GLU    82      -4.122  14.398   2.089  1.00  0.00              
ATOM     75  C   GLU    82      -2.639  14.001   2.145  1.00  0.00              
ATOM     76  O   GLU    82      -2.240  13.087   2.875  1.00  0.00              
END
