
#######################################################
#                                                     #
#                        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_5-D2
# Molecule2: number of CA atoms   64 (  528),  selected   64 , name T0379_D2.pdb
# PARAMETERS: T0379TS393_5-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          0.897
LGA    R      18      R      18          1.693
LGA    E      19      E      19          1.467
LGA    E      20      E      20          1.641
LGA    S      21      S      21          1.610
LGA    I      22      I      22          1.233
LGA    R      23      R      23          1.443
LGA    R      24      R      24          2.041
LGA    F      25      F      25          1.875
LGA    K      26      K      26          2.326
LGA    A      27      A      27          2.904
LGA    I      28      I      28          2.899
LGA    G      29      -       -           -
LGA    V      30      G      29          2.144
LGA    A      31      V      30          4.348
LGA    D      32      A      31          2.380
LGA    I      33      D      32          3.220
LGA    E      34      I      33          3.518
LGA    E      35      E      34          3.963
LGA    M      36      E      35          3.434
LGA    L      37      M      36          3.853
LGA    D      38      -       -           -
LGA    P      39      -       -           -
LGA    Y      40      L      37           #
LGA    L      41      D      38           -
LGA    Q      42      P      39           -
LGA    K      43      K      43          2.883
LGA    G      44      G      44          4.116
LGA    L      45      L      45          5.164
LGA    -       -      F      46           -
LGA    -       -      L      47           -
LGA    F      46      D      48          3.754
LGA    L      47      L      49           -
LGA    D      48      E      50           -
LGA    L      49      -       -           -
LGA    E      50      -       -           -
LGA    S      51      -       -           -
LGA    G      52      S      51           #
LGA    -       -      G      52           -
LGA    R      53      R      53          5.456
LGA    K      54      K      54          2.562
LGA    S      55      S      55          1.869
LGA    E      56      E      56          1.328
LGA    E      57      E      57          1.140
LGA    E      58      E      58          1.220
LGA    F      59      F      59          1.425
LGA    R      60      R      60          1.356
LGA    T      61      T      61          1.685
LGA    E      62      E      62          1.988
LGA    L      63      L      63          1.486
LGA    S      64      S      64          1.678
LGA    R      65      R      65          2.176
LGA    Y      66      Y      66          1.932
LGA    I      67      I      67          1.503
LGA    G      68      G      68          2.286
LGA    K      69      K      69          2.590
LGA    E      70      -       -           -
LGA    L      71      -       -           -
LGA    T      72      E      70          3.281
LGA    Y      73      L      71          0.591
LGA    Q      74      T      72          1.927
LGA    -       -      Y      73           -
LGA    Q      75      Q      74          5.105
LGA    V      76      Q      75          3.281
LGA    Y      77      V      76          1.403
LGA    D      78      Y      77          2.861
LGA    A      79      D      78          2.443
LGA    L      80      A      79          3.443
LGA    L      81      L      80          4.117
LGA    G      82      L      81          1.633
LGA    F      83      G      82          3.030
LGA    -       -      F      83           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   67   64    5.0     53    2.73    66.04     55.344     1.870

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.180405 * X  +   0.950971 * Y  +  -0.251212 * Z  +  60.467575
  Y_new =   0.814430 * X  +  -0.287630 * Y  +  -0.503957 * Z  +   6.634005
  Z_new =  -0.551504 * X  +  -0.113679 * Y  +  -0.826390 * Z  +   9.169167 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.004890    0.136702  [ DEG:  -172.1675      7.8325 ]
  Theta =   0.584166    2.557426  [ DEG:    33.4703    146.5297 ]
  Phi   =   1.352805   -1.788787  [ DEG:    77.5100   -102.4900 ]
 
# 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_5-D2                               
REMARK     2: T0379_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0379TS393_5-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   53   2.73   66.04  55.344
REMARK  ---------------------------------------------------------- 
MOLECULE T0379TS393_5-D2
PFRMAT TS
TARGET T0379
MODEL 5
PARENT N/A
ATOM     17  CA  ASN    17      69.046   6.373  13.631  1.00 25.00           C
ATOM     18  CA  ARG    18      67.063   3.542  15.247  1.00 25.00           C
ATOM     19  CA  GLU    19      70.042   1.956  17.058  1.00 25.00           C
ATOM     20  CA  GLU    20      71.368   5.431  17.972  1.00 25.00           C
ATOM     21  CA  SER    21      67.919   6.422  19.311  1.00 25.00           C
ATOM     22  CA  ILE    22      67.781   3.214  21.399  1.00 25.00           C
ATOM     23  CA  ARG    23      71.268   3.949  22.803  1.00 25.00           C
ATOM     24  CA  ARG    24      70.184   7.512  23.695  1.00 25.00           C
ATOM     25  CA  PHE    25      67.064   6.151  25.449  1.00 25.00           C
ATOM     26  CA  LYS    26      69.221   3.671  27.415  1.00 25.00           C
ATOM     27  CA  ALA    27      71.582   6.505  28.446  1.00 25.00           C
ATOM     28  CA  ILE    28      69.239   7.303  31.313  1.00 25.00           C
ATOM     29  CA  GLY    29      70.170   3.994  32.941  1.00 25.00           C
ATOM     30  CA  VAL    30      66.859   2.543  31.875  1.00 25.00           C
ATOM     31  CA  ALA    31      64.945  -0.580  30.915  1.00 25.00           C
ATOM     32  CA  ASP    32      62.552  -2.982  29.136  1.00 25.00           C
ATOM     33  CA  ILE    33      60.015  -0.152  28.674  1.00 25.00           C
ATOM     34  CA  GLU    34      62.756   2.104  27.235  1.00 25.00           C
ATOM     35  CA  GLU    35      63.808  -0.675  24.818  1.00 25.00           C
ATOM     36  CA  MET    36      60.168  -1.130  23.718  1.00 25.00           C
ATOM     37  CA  LEU    37      59.847   2.642  23.138  1.00 25.00           C
ATOM     38  CA  ASP    38      57.117   2.848  25.736  1.00 25.00           C
ATOM     39  CA  PRO    39      55.564   0.688  22.968  1.00 25.00           C
ATOM     40  CA  TYR    40      52.737  -1.895  22.973  1.00 25.00           C
ATOM     41  CA  LEU    41      51.339  -0.396  26.208  1.00 25.00           C
ATOM     42  CA  GLN    42      51.466   3.108  24.668  1.00 25.00           C
ATOM     43  CA  LYS    43      49.634   1.834  21.555  1.00 25.00           C
ATOM     44  CA  GLY    44      46.958   0.213  23.765  1.00 25.00           C
ATOM     45  CA  LEU    45      46.534   3.493  25.698  1.00 25.00           C
ATOM     46  CA  PHE    46      46.171   5.415  22.406  1.00 25.00           C
ATOM     47  CA  LEU    47      43.535   2.910  21.204  1.00 25.00           C
ATOM     48  CA  ASP    48      41.627   3.299  24.502  1.00 25.00           C
ATOM     49  CA  LEU    49      41.740   7.111  24.146  1.00 25.00           C
ATOM     50  CA  GLU    50      40.423   6.839  20.560  1.00 25.00           C
ATOM     51  CA  SER    51      38.251   9.811  21.719  1.00 25.00           C
ATOM     52  CA  GLY    52      41.321  12.001  22.463  1.00 25.00           C
ATOM     53  CA  ARG    53      42.304  14.847  24.835  1.00 25.00           C
ATOM     54  CA  LYS    54      45.960  13.880  24.935  1.00 25.00           C
ATOM     55  CA  SER    55      48.346  16.851  24.975  1.00 25.00           C
ATOM     56  CA  GLU    56      51.762  15.145  25.238  1.00 25.00           C
ATOM     57  CA  GLU    57      51.410  15.159  29.051  1.00 25.00           C
ATOM     58  CA  GLU    58      48.887  12.284  28.854  1.00 25.00           C
ATOM     59  CA  PHE    59      51.281  10.305  26.613  1.00 25.00           C
ATOM     60  CA  ARG    60      54.136  10.904  29.092  1.00 25.00           C
ATOM     61  CA  THR    61      51.916   9.712  31.976  1.00 25.00           C
ATOM     62  CA  GLU    62      50.996   6.564  29.998  1.00 25.00           C
ATOM     63  CA  LEU    63      54.701   5.887  29.306  1.00 25.00           C
ATOM     64  CA  SER    64      55.499   6.307  33.028  1.00 25.00           C
ATOM     65  CA  ARG    65      52.681   3.875  33.931  1.00 25.00           C
ATOM     66  CA  TYR    66      54.027   1.337  31.399  1.00 25.00           C
ATOM     67  CA  ILE    67      57.543   1.687  32.879  1.00 25.00           C
ATOM     68  CA  GLY    68      56.481   1.496  36.522  1.00 25.00           C
ATOM     69  CA  LYS    69      57.779   5.005  37.387  1.00 25.00           C
ATOM     70  CA  GLU    70      61.081   4.444  39.218  1.00 25.00           C
ATOM     71  CA  LEU    71      62.256   7.497  37.282  1.00 25.00           C
ATOM     72  CA  THR    72      62.258  11.245  37.035  1.00 25.00           C
ATOM     73  CA  TYR    73      61.037  11.258  33.472  1.00 25.00           C
ATOM     74  CA  GLN    74      62.543  14.636  32.479  1.00 25.00           C
ATOM     75  CA  GLN    75      65.652  12.875  31.101  1.00 25.00           C
ATOM     76  CA  VAL    76      63.435  10.483  29.092  1.00 25.00           C
ATOM     77  CA  TYR    77      61.465  13.452  27.687  1.00 25.00           C
ATOM     78  CA  ASP    78      64.734  15.187  26.703  1.00 25.00           C
ATOM     79  CA  ALA    79      65.938  11.992  24.969  1.00 25.00           C
ATOM     80  CA  LEU    80      62.620  11.741  23.072  1.00 25.00           C
ATOM     81  CA  LEU    81      62.938  15.399  21.984  1.00 25.00           C
ATOM     82  CA  GLY    82      66.515  14.756  20.776  1.00 25.00           C
ATOM     83  CA  PHE    83      65.323  11.697  18.804  1.00 25.00           C
TER
END
