
#######################################################
#                                                     #
#                        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   67 (   67),  selected   67 , name T0379TS393_3-D2
# Molecule2: number of CA atoms   64 (  528),  selected   64 , name T0379_D2.pdb
# PARAMETERS: T0379TS393_3-D2.T0379_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      17      N      17          2.275
LGA    R      18      R      18          1.428
LGA    E      19      E      19          1.709
LGA    E      20      E      20          0.648
LGA    S      21      S      21          1.200
LGA    I      22      I      22          1.786
LGA    R      23      R      23          1.336
LGA    R      24      R      24          1.480
LGA    F      25      F      25          2.488
LGA    K      26      K      26          2.547
LGA    A      27      A      27          1.966
LGA    I      28      I      28          2.699
LGA    G      29      G      29          2.347
LGA    V      30      V      30          2.776
LGA    A      31      A      31          2.964
LGA    D      32      D      32          3.883
LGA    I      33      I      33          3.192
LGA    E      34      E      34          3.175
LGA    E      35      E      35          4.231
LGA    M      36      M      36          3.990
LGA    L      37      L      37          2.930
LGA    D      38      D      38          3.704
LGA    -       -      P      39           -
LGA    P      39      K      43          5.723
LGA    Y      40      G      44          0.185
LGA    L      41      L      45          1.098
LGA    Q      42      F      46          2.629
LGA    K      43      L      47          2.559
LGA    G      44      D      48          1.797
LGA    L      45      L      49          2.851
LGA    F      46      E      50          4.192
LGA    L      47      S      51          3.923
LGA    D      48      G      52          2.616
LGA    L      49      R      53           #
LGA    E      50      -       -           -
LGA    S      51      -       -           -
LGA    G      52      -       -           -
LGA    R      53      -       -           -
LGA    K      54      -       -           -
LGA    S      55      -       -           -
LGA    E      56      -       -           -
LGA    E      57      K      54           #
LGA    E      58      S      55          1.067
LGA    F      59      -       -           -
LGA    R      60      E      56          1.830
LGA    T      61      E      57          2.005
LGA    E      62      E      58          3.209
LGA    L      63      F      59          2.334
LGA    S      64      R      60          1.624
LGA    R      65      T      61          2.739
LGA    Y      66      E      62          2.135
LGA    -       -      L      63           -
LGA    I      67      S      64          1.836
LGA    G      68      R      65          1.747
LGA    -       -      Y      66           -
LGA    -       -      I      67           -
LGA    K      69      G      68          3.975
LGA    E      70      K      69          4.247
LGA    L      71      E      70          2.956
LGA    T      72      L      71          1.265
LGA    Y      73      T      72          1.847
LGA    Q      74      Y      73          3.806
LGA    -       -      Q      74           -
LGA    Q      75      Q      75          1.340
LGA    V      76      V      76          0.609
LGA    Y      77      Y      77          1.561
LGA    D      78      D      78          1.371
LGA    A      79      A      79          0.614
LGA    L      80      L      80          2.028
LGA    L      81      L      81          2.483
LGA    G      82      G      82          2.027
LGA    F      83      F      83          2.102

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   67   64    5.0     57    2.61    59.65     57.408     2.104

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.650396 * X  +  -0.738455 * Y  +   0.177960 * Z  +  63.722588
  Y_new =  -0.647261 * X  +  -0.661399 * Y  +  -0.378952 * Z  +   9.463263
  Z_new =   0.397542 * X  +   0.131283 * Y  +  -0.908144 * Z  +   7.368148 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.998026   -0.143567  [ DEG:   171.7742     -8.2258 ]
  Theta =  -0.408836   -2.732757  [ DEG:   -23.4246   -156.5754 ]
  Phi   =  -0.782982    2.358610  [ DEG:   -44.8616    135.1384 ]
 
# 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: T0379TS393_3-D2                               
REMARK     2: T0379_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0379TS393_3-D2.T0379_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   67   64   5.0   57   2.61   59.65  57.408
REMARK  ---------------------------------------------------------- 
MOLECULE T0379TS393_3-D2
PFRMAT TS
TARGET T0379
MODEL 3
PARENT N/A
ATOM     17  CA  ASN    17      69.814   5.993  12.110  1.00 25.00           C
ATOM     18  CA  ARG    18      67.291   4.882  14.788  1.00 25.00           C
ATOM     19  CA  GLU    19      70.354   3.215  16.370  1.00 25.00           C
ATOM     20  CA  GLU    20      70.830   6.230  18.684  1.00 25.00           C
ATOM     21  CA  SER    21      67.141   6.064  19.698  1.00 25.00           C
ATOM     22  CA  ILE    22      67.485   2.322  20.434  1.00 25.00           C
ATOM     23  CA  ARG    23      70.594   3.001  22.565  1.00 25.00           C
ATOM     24  CA  ARG    24      68.709   5.723  24.491  1.00 25.00           C
ATOM     25  CA  PHE    25      65.795   3.312  25.092  1.00 25.00           C
ATOM     26  CA  LYS    26      68.231   0.642  26.358  1.00 25.00           C
ATOM     27  CA  ALA    27      69.839   3.195  28.718  1.00 25.00           C
ATOM     28  CA  ILE    28      67.872   4.296  31.820  1.00 25.00           C
ATOM     29  CA  GLY    29      65.934   1.109  32.450  1.00 25.00           C
ATOM     30  CA  VAL    30      63.648   0.115  29.570  1.00 25.00           C
ATOM     31  CA  ALA    31      61.540  -2.271  27.445  1.00 25.00           C
ATOM     32  CA  ASP    32      58.859   0.336  28.268  1.00 25.00           C
ATOM     33  CA  ILE    33      60.823   2.999  26.339  1.00 25.00           C
ATOM     34  CA  GLU    34      61.120   0.642  23.337  1.00 25.00           C
ATOM     35  CA  GLU    35      57.351  -0.028  23.458  1.00 25.00           C
ATOM     36  CA  MET    36      56.661   3.737  23.570  1.00 25.00           C
ATOM     37  CA  LEU    37      58.968   4.274  20.559  1.00 25.00           C
ATOM     38  CA  ASP    38      56.803   1.843  18.600  1.00 25.00           C
ATOM     39  CA  PRO    39      53.401   1.059  20.199  1.00 25.00           C
ATOM     40  CA  TYR    40      50.286   1.748  22.318  1.00 25.00           C
ATOM     41  CA  LEU    41      51.607   5.241  23.167  1.00 25.00           C
ATOM     42  CA  GLN    42      52.256   5.925  19.456  1.00 25.00           C
ATOM     43  CA  LYS    43      48.703   4.780  18.598  1.00 25.00           C
ATOM     44  CA  GLY    44      47.281   7.079  21.310  1.00 25.00           C
ATOM     45  CA  LEU    45      49.320  10.012  19.929  1.00 25.00           C
ATOM     46  CA  PHE    46      48.029   9.280  16.398  1.00 25.00           C
ATOM     47  CA  LEU    47      44.431   9.187  17.708  1.00 25.00           C
ATOM     48  CA  ASP    48      44.965  12.537  19.486  1.00 25.00           C
ATOM     49  CA  LEU    49      46.371  14.052  16.261  1.00 25.00           C
ATOM     50  CA  GLU    50      43.341  12.762  14.306  1.00 25.00           C
ATOM     51  CA  SER    51      41.190  15.527  15.824  1.00 25.00           C
ATOM     52  CA  GLY    52      42.666  19.015  16.133  1.00 25.00           C
ATOM     53  CA  ARG    53      44.344  20.136  19.302  1.00 25.00           C
ATOM     54  CA  LYS    54      46.828  18.847  21.824  1.00 25.00           C
ATOM     55  CA  SER    55      50.205  20.065  20.561  1.00 25.00           C
ATOM     56  CA  GLU    56      53.126  17.861  21.608  1.00 25.00           C
ATOM     57  CA  GLU    57      51.907  18.673  25.147  1.00 25.00           C
ATOM     58  CA  GLU    58      49.245  15.933  24.885  1.00 25.00           C
ATOM     59  CA  PHE    59      51.897  13.433  23.710  1.00 25.00           C
ATOM     60  CA  ARG    60      54.149  14.401  26.654  1.00 25.00           C
ATOM     61  CA  THR    61      51.224  13.925  29.079  1.00 25.00           C
ATOM     62  CA  GLU    62      50.498  10.481  27.567  1.00 25.00           C
ATOM     63  CA  LEU    63      54.185   9.514  27.939  1.00 25.00           C
ATOM     64  CA  SER    64      54.140  10.653  31.595  1.00 25.00           C
ATOM     65  CA  ARG    65      50.979   8.585  32.226  1.00 25.00           C
ATOM     66  CA  TYR    66      52.631   5.524  30.624  1.00 25.00           C
ATOM     67  CA  ILE    67      55.728   6.015  32.823  1.00 25.00           C
ATOM     68  CA  GLY    68      54.268   6.189  36.279  1.00 25.00           C
ATOM     69  CA  LYS    69      57.584   6.572  38.190  1.00 25.00           C
ATOM     70  CA  GLU    70      59.581   9.816  38.582  1.00 25.00           C
ATOM     71  CA  LEU    71      62.089   8.984  35.784  1.00 25.00           C
ATOM     72  CA  THR    72      61.043  12.173  34.054  1.00 25.00           C
ATOM     73  CA  TYR    73      59.720  14.780  31.534  1.00 25.00           C
ATOM     74  CA  GLN    74      63.361  15.944  31.311  1.00 25.00           C
ATOM     75  CA  GLN    75      64.466  12.392  30.397  1.00 25.00           C
ATOM     76  CA  VAL    76      61.768  12.225  27.684  1.00 25.00           C
ATOM     77  CA  TYR    77      62.927  15.597  26.288  1.00 25.00           C
ATOM     78  CA  ASP    78      66.550  14.357  26.233  1.00 25.00           C
ATOM     79  CA  ALA    79      65.460  11.178  24.395  1.00 25.00           C
ATOM     80  CA  LEU    80      63.543  13.287  21.836  1.00 25.00           C
ATOM     81  CA  LEU    81      66.626  15.496  21.310  1.00 25.00           C
ATOM     82  CA  GLY    82      68.800  12.384  20.799  1.00 25.00           C
ATOM     83  CA  PHE    83      66.289  11.018  18.250  1.00 25.00           C
TER
END
