
#######################################################
#                                                     #
#                        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   86 (   86),  selected   86 , name T0292TS168_3-D1
# Molecule2: number of CA atoms   77 (  591),  selected   77 , name T0292_D1.pdb
# PARAMETERS: T0292TS168_3-D1.T0292_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1           #
LGA    R       2      R       2          0.260
LGA    A       3      A       3          4.842
LGA    E       4      E       4          3.424
LGA    D       5      D       5          3.975
LGA    Y       6      Y       6           #
LGA    E       7      E       7          2.943
LGA    V       8      V       8          1.556
LGA    L       9      L       9          3.548
LGA    Y      10      Y      10          2.191
LGA    T      11      T      11          3.616
LGA    I      12      I      12          1.536
LGA    G      13      G      13          1.215
LGA    T      14      T      14          3.843
LGA    G      15      G      15          2.517
LGA    S      16      S      16          2.859
LGA    Y      17      Y      17          2.388
LGA    G      18      G      18          1.526
LGA    R      19      R      19          1.619
LGA    C      20      C      20          0.721
LGA    Q      21      Q      21          0.955
LGA    K      22      K      22          0.935
LGA    I      23      I      23          0.989
LGA    R      24      R      24          1.475
LGA    R      25      R      25          1.439
LGA    K      26      K      26          0.976
LGA    S      27      S      27          1.970
LGA    D      28      D      28          2.172
LGA    G      29      G      29          1.544
LGA    K      30      K      30          2.556
LGA    I      31      I      31          0.896
LGA    L      32      L      32          0.734
LGA    V      33      V      33          1.687
LGA    W      34      W      34          1.317
LGA    K      35      K      35          2.100
LGA    E      36      E      36          1.043
LGA    L      37      L      37          1.785
LGA    D      38      D      38          2.056
LGA    Y      39      Y      39          2.243
LGA    G      40      G      40          1.914
LGA    S      41      S      41          3.860
LGA    M      42      M      42          5.240
LGA    T      43      T      43          2.199
LGA    E      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      -       -           -
LGA    K      47      -       -           -
LGA    Q      48      M      49          2.206
LGA    M      49      L      50          2.419
LGA    L      50      -       -           -
LGA    V      51      V      51          1.730
LGA    S      52      S      52          1.806
LGA    E      53      E      53          1.893
LGA    V      54      V      54          1.582
LGA    N      55      N      55          1.581
LGA    L      56      L      56          1.914
LGA    L      57      L      57          1.743
LGA    R      58      R      58          1.815
LGA    E      59      E      59          1.528
LGA    L      60      L      60          1.079
LGA    K      61      K      61          1.198
LGA    H      62      H      62          1.660
LGA    P      63      P      63          2.323
LGA    N      64      N      64          2.972
LGA    I      65      I      65          3.128
LGA    V      66      V      66          0.879
LGA    R      67      R      67          0.378
LGA    Y      68      Y      68          0.838
LGA    Y      69      Y      69          1.481
LGA    D      70      D      70          1.787
LGA    R      71      R      71          2.769
LGA    I      72      I      72          1.421
LGA    I      73      I      73          3.544
LGA    D      74      -       -           -
LGA    R      75      -       -           -
LGA    T      76      D      74          2.863
LGA    N      77      -       -           -
LGA    T      78      -       -           -
LGA    T      79      T      79          4.985
LGA    L      80      L      80          1.359
LGA    Y      81      Y      81          2.567
LGA    I      82      I      82          2.278
LGA    V      83      V      83          2.377
LGA    M      84      M      84          3.174
LGA    E      85      E      85          1.501
LGA    Y      86      Y      86          2.130

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   86   77    5.0     75    2.32    96.00     73.626     3.103

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.324399 * X  +  -0.734223 * Y  +   0.596392 * Z  +   6.758147
  Y_new =   0.146096 * X  +   0.584033 * Y  +   0.798474 * Z  +  13.886967
  Z_new =  -0.934570 * X  +   0.346154 * Y  +  -0.082192 * Z  +  16.877329 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.803924   -1.337669  [ DEG:   103.3572    -76.6428 ]
  Theta =   1.207049    1.934543  [ DEG:    69.1588    110.8412 ]
  Phi   =   2.718440   -0.423153  [ DEG:   155.7551    -24.2449 ]
 
# 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: T0292TS168_3-D1                               
REMARK     2: T0292_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0292TS168_3-D1.T0292_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   86   77   5.0   75   2.32   96.00  73.626
REMARK  ---------------------------------------------------------- 
MOLECULE T0292TS168_3-D1
PFRMAT TS
TARGET T0292
MODEL 3
PARENT N/A
ATOM      1  CA  SER     1     -12.239  -5.025   3.906  1.00 25.00           C
ATOM      2  CA  ARG     2      -9.748  -7.023   5.947  1.00 25.00           C
ATOM      3  CA  ALA     3     -12.655  -8.836   7.489  1.00 25.00           C
ATOM      4  CA  GLU     4     -15.585  -9.794   9.652  1.00 25.00           C
ATOM      5  CA  ASP     5     -15.201  -7.164  12.376  1.00 25.00           C
ATOM      6  CA  TYR     6     -17.700  -4.847  14.069  1.00 25.00           C
ATOM      7  CA  GLU     7     -16.902  -1.568  15.719  1.00 25.00           C
ATOM      8  CA  VAL     8     -15.138   1.374  13.981  1.00 25.00           C
ATOM      9  CA  LEU     9     -16.126   4.359  16.169  1.00 25.00           C
ATOM     10  CA  TYR    10     -15.001   4.864  19.813  1.00 25.00           C
ATOM     11  CA  THR    11     -12.595   7.734  19.332  1.00 25.00           C
ATOM     12  CA  ILE    12      -9.807  10.396  19.137  1.00 25.00           C
ATOM     13  CA  GLY    13      -9.932  12.950  16.277  1.00 25.00           C
ATOM     14  CA  THR    14      -7.471  14.919  14.249  1.00 25.00           C
ATOM     15  CA  GLY    15      -6.585  16.721  10.968  1.00 25.00           C
ATOM     16  CA  SER    16      -5.071  16.964   7.489  1.00 25.00           C
ATOM     17  CA  TYR    17      -4.651  13.194   7.184  1.00 25.00           C
ATOM     18  CA  GLY    18      -7.838  11.273   7.621  1.00 25.00           C
ATOM     19  CA  ARG    19      -9.541  11.131  11.000  1.00 25.00           C
ATOM     20  CA  CYS    20      -7.531   8.487  12.909  1.00 25.00           C
ATOM     21  CA  GLN    21      -9.596   6.315  15.280  1.00 25.00           C
ATOM     22  CA  LYS    22     -10.644   3.405  17.591  1.00 25.00           C
ATOM     23  CA  ILE    23     -11.177  -0.356  17.269  1.00 25.00           C
ATOM     24  CA  ARG    24     -12.028  -3.718  18.837  1.00 25.00           C
ATOM     25  CA  ARG    25     -10.530  -6.422  16.658  1.00 25.00           C
ATOM     26  CA  LYS    26     -12.130  -9.723  17.719  1.00 25.00           C
ATOM     27  CA  SER    27      -9.901 -12.513  16.450  1.00 25.00           C
ATOM     28  CA  ASP    28      -7.507 -11.555  19.269  1.00 25.00           C
ATOM     29  CA  GLY    29      -9.119  -9.014  21.673  1.00 25.00           C
ATOM     30  CA  LYS    30      -8.764  -5.387  22.880  1.00 25.00           C
ATOM     31  CA  ILE    31      -6.758  -2.484  21.431  1.00 25.00           C
ATOM     32  CA  LEU    32      -5.029  -0.618  18.552  1.00 25.00           C
ATOM     33  CA  VAL    33      -5.712   1.351  15.370  1.00 25.00           C
ATOM     34  CA  TRP    34      -7.324   2.322  12.055  1.00 25.00           C
ATOM     35  CA  LYS    35      -6.599   4.414   8.998  1.00 25.00           C
ATOM     36  CA  GLU    36      -8.540   6.278   6.367  1.00 25.00           C
ATOM     37  CA  LEU    37      -5.479   7.353   4.407  1.00 25.00           C
ATOM     38  CA  ASP    38      -7.572   8.692   1.571  1.00 25.00           C
ATOM     39  CA  TYR    39      -7.882   9.079  -2.241  1.00 25.00           C
ATOM     40  CA  GLY    40     -10.688   8.819  -4.847  1.00 25.00           C
ATOM     41  CA  SER    41      -8.414   7.477  -7.585  1.00 25.00           C
ATOM     42  CA  MET    42      -5.251   5.336  -7.899  1.00 25.00           C
ATOM     43  CA  THR    43      -2.949   8.043  -9.274  1.00 25.00           C
ATOM     44  CA  GLU    44       0.180   5.985  -8.796  1.00 25.00           C
ATOM     45  CA  ALA    45       2.105   9.139  -7.701  1.00 25.00           C
ATOM     46  CA  GLU    46       0.547  10.479  -4.471  1.00 25.00           C
ATOM     47  CA  LYS    47      -0.900   7.016  -3.704  1.00 25.00           C
ATOM     48  CA  GLN    48       2.531   5.423  -4.303  1.00 25.00           C
ATOM     49  CA  MET    49       4.156   7.983  -1.963  1.00 25.00           C
ATOM     50  CA  LEU    50       1.529   7.231   0.722  1.00 25.00           C
ATOM     51  CA  VAL    51       2.186   3.476   0.348  1.00 25.00           C
ATOM     52  CA  SER    52       5.953   4.076   0.692  1.00 25.00           C
ATOM     53  CA  GLU    53       5.358   6.166   3.845  1.00 25.00           C
ATOM     54  CA  VAL    54       3.167   3.385   5.305  1.00 25.00           C
ATOM     55  CA  ASN    55       5.892   0.804   4.544  1.00 25.00           C
ATOM     56  CA  LEU    56       8.506   3.026   6.247  1.00 25.00           C
ATOM     57  CA  LEU    57       6.242   3.378   9.316  1.00 25.00           C
ATOM     58  CA  ARG    58       5.784  -0.421   9.446  1.00 25.00           C
ATOM     59  CA  GLU    59       9.577  -0.911   9.230  1.00 25.00           C
ATOM     60  CA  LEU    60      10.619   0.542  12.580  1.00 25.00           C
ATOM     61  CA  LYS    61       9.119  -1.319  15.545  1.00 25.00           C
ATOM     62  CA  HIS    62      11.515   0.509  17.948  1.00 25.00           C
ATOM     63  CA  PRO    63       9.980   2.166  21.018  1.00 25.00           C
ATOM     64  CA  ASN    64       9.489   5.556  19.406  1.00 25.00           C
ATOM     65  CA  ILE    65       8.137   6.472  15.985  1.00 25.00           C
ATOM     66  CA  VAL    66       5.342   4.267  17.287  1.00 25.00           C
ATOM     67  CA  ARG    67       4.332   0.654  16.808  1.00 25.00           C
ATOM     68  CA  TYR    68       2.255  -0.065  13.691  1.00 25.00           C
ATOM     69  CA  TYR    69       0.760  -3.391  14.672  1.00 25.00           C
ATOM     70  CA  ASP    70      -0.817  -4.711  11.414  1.00 25.00           C
ATOM     71  CA  ARG    71      -3.426  -3.508   8.941  1.00 25.00           C
ATOM     72  CA  ILE    72      -5.092  -3.930   5.505  1.00 25.00           C
ATOM     73  CA  ILE    73      -4.536  -4.328   1.722  1.00 25.00           C
ATOM     74  CA  ASP    74      -7.747  -4.142  -0.248  1.00 25.00           C
ATOM     75  CA  ARG    75      -9.797  -3.837  -3.470  1.00 25.00           C
ATOM     76  CA  THR    76     -11.732  -1.140  -1.682  1.00 25.00           C
ATOM     77  CA  ASN    77     -12.196   2.355  -3.065  1.00 25.00           C
ATOM     78  CA  THR    78      -8.450   3.106  -3.017  1.00 25.00           C
ATOM     79  CA  THR    79      -5.469   2.479  -0.686  1.00 25.00           C
ATOM     80  CA  LEU    80      -5.859   1.366   2.957  1.00 25.00           C
ATOM     81  CA  TYR    81      -3.871   1.235   6.202  1.00 25.00           C
ATOM     82  CA  ILE    82      -1.470   3.613   7.985  1.00 25.00           C
ATOM     83  CA  VAL    83      -2.104   2.216  11.528  1.00 25.00           C
ATOM     84  CA  MET    84      -1.221   4.761  14.235  1.00 25.00           C
ATOM     85  CA  GLU    85      -0.614   2.473  17.236  1.00 25.00           C
ATOM     86  CA  TYR    86      -3.551   4.393  18.703  1.00 25.00           C
TER
END
