
#######################################################
#                                                     #
#                        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   57 (   57),  selected   57 , name T0349TS599_5-D1
# Molecule2: number of CA atoms   57 (  873),  selected   57 , name T0349_D1.pdb
# PARAMETERS: T0349TS599_5-D1.T0349_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    R       2      -       -           -
LGA    E       3      -       -           -
LGA    L       4      -       -           -
LGA    L       5      -       -           -
LGA    R       6      -       -           -
LGA    T       7      -       -           -
LGA    N       8      -       -           -
LGA    D       9      -       -           -
LGA    A      10      M       1           #
LGA    V      11      R       2           -
LGA    L      12      E       3           -
LGA    L      13      L       4           -
LGA    S      14      -       -           -
LGA    A      15      L       5           #
LGA    V      16      R       6          4.324
LGA    G      17      T       7          5.990
LGA    A      18      N       8          2.579
LGA    L      19      D       9          2.626
LGA    L      20      -       -           -
LGA    D      21      A      10          2.827
LGA    G      22      V      11          3.987
LGA    A      23      L      12          3.974
LGA    D      24      L      13           #
LGA    I      25      S      14          5.706
LGA    G      26      A      15          1.737
LGA    H      27      V      16          1.682
LGA    L      28      -       -           -
LGA    V      29      -       -           -
LGA    P      45      G      17          2.540
LGA    R      46      A      18          1.405
LGA    R      47      L      19          2.331
LGA    V      48      L      20          2.353
LGA    -       -      D      21           -
LGA    -       -      G      22           -
LGA    -       -      A      23           -
LGA    -       -      D      24           -
LGA    L      49      I      25          3.098
LGA    V      50      G      26          2.523
LGA    -       -      H      27           -
LGA    -       -      L      28           -
LGA    -       -      V      29           -
LGA    -       -      P      45           -
LGA    -       -      R      46           -
LGA    -       -      R      47           -
LGA    -       -      V      48           -
LGA    -       -      L      49           -
LGA    -       -      V      50           -
LGA    H      51      H      51          2.155
LGA    E      52      E      52          0.892
LGA    D      53      D      53          2.153
LGA    D      54      D      54          1.609
LGA    L      55      L      55          1.190
LGA    A      56      A      56          1.555
LGA    G      57      G      57          1.208
LGA    A      58      A      58          0.919
LGA    R      59      R      59          1.196
LGA    R      60      R      60          1.345
LGA    L      61      L      61          1.081
LGA    L      62      L      62          0.627
LGA    T      63      T      63          0.932
LGA    D      64      D      64          2.230
LGA    A      65      A      65          2.826
LGA    G      66      G      66          3.331
LGA    L      67      L      67          2.710
LGA    A      68      A      68          2.481
LGA    H      69      H      69          2.252
LGA    E      70      -       -           -
LGA    L      71      -       -           -
LGA    R      72      E      70          3.502
LGA    -       -      L      71           -
LGA    -       -      R      72           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   57   57    5.0     36    2.69    52.78     47.966     1.289

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.645208 * X  +   0.661577 * Y  +  -0.382128 * Z  +   0.289962
  Y_new =   0.692122 * X  +  -0.294335 * Y  +   0.659040 * Z  +   2.808445
  Z_new =   0.323532 * X  +  -0.689697 * Y  +  -0.647800 * Z  +   0.757691 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.324880    0.816713  [ DEG:  -133.2058     46.7942 ]
  Theta =  -0.329460   -2.812133  [ DEG:   -18.8767   -161.1234 ]
  Phi   =   0.820464   -2.321128  [ DEG:    47.0091   -132.9909 ]
 
# 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: T0349TS599_5-D1                               
REMARK     2: T0349_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS599_5-D1.T0349_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   57   57   5.0   36   2.69   52.78  47.966
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS599_5-D1
PFRMAT TS                                                                       
TARGET T0349                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -2.354  -5.582 -11.304  1.00  0.00              
ATOM      2  CA  ARG     2      -1.459  -1.871 -11.770  1.00  0.00              
ATOM      3  CA  GLU     3      -2.592  -4.469 -14.874  1.00  0.00              
ATOM      4  CA  LEU     4      -0.628  -2.115 -12.771  1.00  0.00              
ATOM      5  CA  LEU     5       2.775  -3.523 -13.855  1.00  0.00              
ATOM      6  CA  ARG     6       1.793  -3.332 -17.510  1.00  0.00              
ATOM      7  CA  THR     7       0.587   0.268 -17.418  1.00  0.00              
ATOM      8  CA  ASN     8       3.332   1.698 -15.161  1.00  0.00              
ATOM      9  CA  ASP     9       0.955   3.449 -12.757  1.00  0.00              
ATOM     10  CA  ALA    10       1.549   1.776  -9.345  1.00  0.00              
ATOM     11  CA  VAL    11      -1.549   0.225  -7.917  1.00  0.00              
ATOM     12  CA  LEU    12      -2.248  -3.053  -6.076  1.00  0.00              
ATOM     13  CA  LEU    13      -5.357  -2.403  -3.940  1.00  0.00              
ATOM     14  CA  SER    14      -5.880  -5.910  -2.553  1.00  0.00              
ATOM     15  CA  ALA    15      -2.217  -6.597  -1.863  1.00  0.00              
ATOM     16  CA  VAL    16      -1.807  -3.318  -0.037  1.00  0.00              
ATOM     17  CA  GLY    17      -5.076  -3.712   1.911  1.00  0.00              
ATOM     18  CA  ALA    18      -4.321  -7.205   3.022  1.00  0.00              
ATOM     19  CA  LEU    19      -0.790  -6.471   4.114  1.00  0.00              
ATOM     20  CA  LEU    20      -1.780  -3.451   6.115  1.00  0.00              
ATOM     21  CA  ASP    21      -4.590  -5.211   7.910  1.00  0.00              
ATOM     22  CA  GLY    22      -2.502  -8.171   8.920  1.00  0.00              
ATOM     23  CA  ALA    23       0.166  -5.985  10.474  1.00  0.00              
ATOM     24  CA  ASP    24      -2.367  -3.709  12.244  1.00  0.00              
ATOM     25  CA  ILE    25      -1.084  -0.618  10.510  1.00  0.00              
ATOM     26  CA  GLY    26      -3.407   1.784   8.898  1.00  0.00              
ATOM     27  CA  HIS    27      -0.998   4.093   6.944  1.00  0.00              
ATOM     28  CA  LEU    28      -1.609   4.946   3.321  1.00  0.00              
ATOM     29  CA  VAL    29       0.819   6.952   1.296  1.00  0.00              
ATOM     45  CA  PRO    45      -6.979   4.315   4.851  1.00  0.00              
ATOM     46  CA  ARG    46      -6.457   4.644   8.558  1.00  0.00              
ATOM     47  CA  ARG    47      -3.877   7.501   8.205  1.00  0.00              
ATOM     48  CA  VAL    48      -3.706   8.690   4.641  1.00  0.00              
ATOM     49  CA  LEU    49      -0.947  10.718   3.329  1.00  0.00              
ATOM     50  CA  VAL    50      -1.367  12.152  -0.123  1.00  0.00              
ATOM     51  CA  HIS    51       0.196  14.811  -2.054  1.00  0.00              
ATOM     52  CA  GLU    52       3.511  14.890  -3.845  1.00  0.00              
ATOM     53  CA  ASP    53       4.476  18.231  -2.308  1.00  0.00              
ATOM     54  CA  ASP    54       3.791  16.874   1.169  1.00  0.00              
ATOM     55  CA  LEU    55       5.843  13.690   0.705  1.00  0.00              
ATOM     56  CA  ALA    56       8.096  14.419   3.691  1.00  0.00              
ATOM     57  CA  GLY    57       5.134  14.920   6.012  1.00  0.00              
ATOM     58  CA  ALA    58       3.545  11.654   4.870  1.00  0.00              
ATOM     59  CA  ARG    59       6.759   9.740   5.401  1.00  0.00              
ATOM     60  CA  ARG    60       7.086  11.243   8.856  1.00  0.00              
ATOM     61  CA  LEU    61       3.614  10.011   9.869  1.00  0.00              
ATOM     62  CA  LEU    62       4.361   6.509   8.621  1.00  0.00              
ATOM     63  CA  THR    63       7.737   6.495  10.499  1.00  0.00              
ATOM     64  CA  ASP    64       6.156   7.693  13.713  1.00  0.00              
ATOM     65  CA  ALA    65       3.623   4.942  13.549  1.00  0.00              
ATOM     66  CA  GLY    66       6.248   2.258  12.901  1.00  0.00              
ATOM     67  CA  LEU    67       4.808   1.116   9.654  1.00  0.00              
ATOM     68  CA  ALA    68       7.740   0.204   7.497  1.00  0.00              
ATOM     69  CA  HIS    69       9.501  -1.997   9.952  1.00  0.00              
ATOM     70  CA  GLU    70       6.403  -3.941  10.764  1.00  0.00              
ATOM     71  CA  LEU    71       5.158  -4.556   7.188  1.00  0.00              
ATOM     72  CA  ARG    72       8.667  -5.280   5.936  1.00  0.00              
TER                                                                             
END
