
#######################################################
#                                                     #
#                        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   91 (   91),  selected   91 , name T0299TS599_3-D1
# Molecule2: number of CA atoms   91 (  726),  selected   91 , name T0299_D1.pdb
# PARAMETERS: T0299TS599_3-D1.T0299_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    R       3      R       3           -
LGA    Y       4      Y       4           -
LGA    A       5      A       5           -
LGA    L       6      L       6           -
LGA    L       7      L       7           -
LGA    V       8      -       -           -
LGA    R       9      -       -           -
LGA    G      10      -       -           -
LGA    I      11      -       -           -
LGA    N      12      -       -           -
LGA    V      13      -       -           -
LGA    G      14      -       -           -
LGA    G      15      -       -           -
LGA    K      16      -       -           -
LGA    N      17      -       -           -
LGA    K      18      -       -           -
LGA    V      19      V       8           #
LGA    V      20      R       9          2.576
LGA    M      21      G      10          5.542
LGA    A      22      I      11          3.303
LGA    -       -      N      12           -
LGA    -       -      V      13           -
LGA    -       -      G      14           -
LGA    -       -      G      15           -
LGA    -       -      K      16           -
LGA    E      23      N      17          4.492
LGA    L      24      K      18           #
LGA    R      25      -       -           -
LGA    Q      26      V      19          1.662
LGA    E      27      V      20          4.988
LGA    L      28      M      21          5.025
LGA    T      29      A      22          2.879
LGA    N      30      E      23          2.747
LGA    L      31      -       -           -
LGA    G      32      L      24           #
LGA    L      33      R      25          2.123
LGA    E      34      Q      26          4.495
LGA    -       -      E      27           -
LGA    -       -      L      28           -
LGA    -       -      T      29           -
LGA    -       -      N      30           -
LGA    -       -      L      31           -
LGA    -       -      G      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    K      35      K      35          5.034
LGA    V      36      V      36          2.821
LGA    E      37      E      37          4.200
LGA    S      38      -       -           -
LGA    Y      39      -       -           -
LGA    I      40      S      38          1.837
LGA    N      41      Y      39          1.605
LGA    S      42      I      40           #
LGA    G      43      N      41           -
LGA    -       -      S      42           -
LGA    -       -      G      43           -
LGA    N      44      N      44           #
LGA    I      45      I      45           #
LGA    F      46      F      46          3.636
LGA    F      47      F      47          3.326
LGA    T      48      T      48          1.613
LGA    S      49      S      49          2.695
LGA    I      50      I      50          1.322
LGA    D      51      D      51          1.015
LGA    S      52      S      52          0.480
LGA    K      53      K      53          0.559
LGA    A      54      A      54          0.236
LGA    Q      55      Q      55          0.310
LGA    L      56      L      56          0.542
LGA    V      57      V      57          1.114
LGA    E      58      E      58          1.141
LGA    K      59      K      59          0.658
LGA    L      60      L      60          1.181
LGA    E      61      E      61          1.628
LGA    T      62      T      62          1.419
LGA    F      63      F      63          1.232
LGA    F      64      F      64          1.697
LGA    A      65      A      65          2.020
LGA    V      66      V      66          1.350
LGA    H      67      H      67          1.204
LGA    Y      68      Y      68          1.590
LGA    P      69      P      69          2.154
LGA    F      70      F      70          1.655
LGA    I      71      I      71          4.713
LGA    Q      72      Q      72          1.022
LGA    S      73      S      73          3.167
LGA    F      74      F      74           #
LGA    -       -      S      75           -
LGA    S      75      L      76           #
LGA    L      76      L      77           -
LGA    L      77      S      78           -
LGA    S      78      A     168           -
LGA    A     168      K     169           -
LGA    K     169      T     170           -
LGA    T     170      F     171           -
LGA    F     171      D     172           -
LGA    D     172      K     173           -
LGA    K     173      I     174           -
LGA    I     174      G     175           -
LGA    G     175      Q     176           -
LGA    Q     176      M     177           -
LGA    M     177      L     178           -
LGA    L     178      K     179           -
LGA    K     179      K     180           -
LGA    K     180      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   91   91    5.0     44    2.70    70.45     34.738     1.572

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.025243 * X  +  -0.031640 * Y  +  -0.999180 * Z  +   0.305579
  Y_new =  -0.962183 * X  +   0.270414 * Y  +  -0.032872 * Z  +  53.633553
  Z_new =   0.271232 * X  +   0.962224 * Y  +  -0.023618 * Z  +  -1.337772 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.595336   -1.546256  [ DEG:    91.4060    -88.5940 ]
  Theta =  -0.274673   -2.866920  [ DEG:   -15.7376   -164.2624 ]
  Phi   =  -1.544567    1.597026  [ DEG:   -88.4972     91.5028 ]
 
# 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: T0299TS599_3-D1                               
REMARK     2: T0299_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0299TS599_3-D1.T0299_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   91   91   5.0   44   2.70   70.45  34.738
REMARK  ---------------------------------------------------------- 
MOLECULE T0299TS599_3-D1
PFRMAT TS                                                                       
TARGET T0299                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      11.738  61.592   8.391  1.00  0.00              
ATOM      2  CA  THR     2       8.828  60.105   5.750  1.00  0.00              
ATOM      3  CA  ARG     3       5.555  60.023   3.668  1.00  0.00              
ATOM      4  CA  TYR     4       8.101  60.065   7.009  1.00  0.00              
ATOM      5  CA  ALA     5       5.425  62.148   8.770  1.00  0.00              
ATOM      6  CA  LEU     6       2.579  59.803   7.854  1.00  0.00              
ATOM      7  CA  LEU     7       4.605  56.768   8.911  1.00  0.00              
ATOM      8  CA  VAL     8       5.641  58.245  12.276  1.00  0.00              
ATOM      9  CA  ARG     9       2.299  59.815  13.193  1.00  0.00              
ATOM     10  CA  GLY    10       0.206  56.874  12.864  1.00  0.00              
ATOM     11  CA  ILE    11       2.111  53.848  13.530  1.00  0.00              
ATOM     12  CA  ASN    12       0.226  50.586  13.874  1.00  0.00              
ATOM     13  CA  VAL    13       2.186  47.450  13.308  1.00  0.00              
ATOM     14  CA  GLY    14       0.139  44.310  13.324  1.00  0.00              
ATOM     15  CA  GLY    15       2.788  41.693  14.326  1.00  0.00              
ATOM     16  CA  LYS    16       5.806  42.361  12.190  1.00  0.00              
ATOM     17  CA  ASN    17       5.614  39.878   9.413  1.00  0.00              
ATOM     18  CA  LYS    18       5.072  41.440   6.044  1.00  0.00              
ATOM     19  CA  VAL    19       3.060  39.526   3.495  1.00  0.00              
ATOM     20  CA  VAL    20       3.450  40.222  -0.193  1.00  0.00              
ATOM     21  CA  MET    21       0.851  41.284  -2.665  1.00  0.00              
ATOM     22  CA  ALA    22       1.448  38.063  -4.629  1.00  0.00              
ATOM     23  CA  GLU    23       0.512  36.030  -1.570  1.00  0.00              
ATOM     24  CA  LEU    24      -2.667  38.100  -1.050  1.00  0.00              
ATOM     25  CA  ARG    25      -3.686  37.675  -4.641  1.00  0.00              
ATOM     26  CA  GLN    26      -3.201  33.959  -4.538  1.00  0.00              
ATOM     27  CA  GLU    27      -5.240  33.737  -1.399  1.00  0.00              
ATOM     28  CA  LEU    28      -8.160  35.776  -2.677  1.00  0.00              
ATOM     29  CA  THR    29      -8.319  33.625  -5.778  1.00  0.00              
ATOM     30  CA  ASN    30      -8.204  30.412  -3.673  1.00  0.00              
ATOM     31  CA  LEU    31     -10.973  31.629  -1.455  1.00  0.00              
ATOM     32  CA  GLY    32     -13.300  32.244  -4.311  1.00  0.00              
ATOM     33  CA  LEU    33     -13.080  36.047  -4.755  1.00  0.00              
ATOM     34  CA  GLU    34     -13.529  36.666  -8.497  1.00  0.00              
ATOM     35  CA  LYS    35     -14.394  40.373  -8.728  1.00  0.00              
ATOM     36  CA  VAL    36     -11.485  41.592  -6.562  1.00  0.00              
ATOM     37  CA  GLU    37      -9.151  39.213  -8.417  1.00  0.00              
ATOM     38  CA  SER    38     -10.173  40.772 -11.759  1.00  0.00              
ATOM     39  CA  TYR    39      -9.545  44.233 -10.276  1.00  0.00              
ATOM     40  CA  ILE    40      -6.208  43.220  -8.755  1.00  0.00              
ATOM     41  CA  ASN    41      -4.965  41.714 -12.047  1.00  0.00              
ATOM     42  CA  SER    42      -6.141  44.553 -14.327  1.00  0.00              
ATOM     43  CA  GLY    43      -4.633  47.473 -12.510  1.00  0.00              
ATOM     44  CA  ASN    44      -7.600  49.347 -11.114  1.00  0.00              
ATOM     45  CA  ILE    45      -8.523  49.856  -7.475  1.00  0.00              
ATOM     46  CA  PHE    46     -12.140  49.350  -6.577  1.00  0.00              
ATOM     47  CA  PHE    47     -13.207  49.304  -2.982  1.00  0.00              
ATOM     48  CA  THR    48     -16.645  48.389  -1.774  1.00  0.00              
ATOM     49  CA  SER    49     -16.952  50.614   1.338  1.00  0.00              
ATOM     50  CA  ILE    50     -20.374  49.738   2.768  1.00  0.00              
ATOM     51  CA  ASP    51     -18.980  49.557   6.284  1.00  0.00              
ATOM     52  CA  SER    52     -16.796  52.307   7.524  1.00  0.00              
ATOM     53  CA  LYS    53     -13.146  52.616   6.692  1.00  0.00              
ATOM     54  CA  ALA    54     -11.984  51.075   9.993  1.00  0.00              
ATOM     55  CA  GLN    55     -14.364  48.184   9.766  1.00  0.00              
ATOM     56  CA  LEU    56     -13.423  47.350   6.215  1.00  0.00              
ATOM     57  CA  VAL    57      -9.732  47.349   6.972  1.00  0.00              
ATOM     58  CA  GLU    58     -10.274  45.142   9.933  1.00  0.00              
ATOM     59  CA  LYS    59     -12.308  42.582   7.973  1.00  0.00              
ATOM     60  CA  LEU    60      -9.682  42.505   5.223  1.00  0.00              
ATOM     61  CA  GLU    61      -6.862  41.996   7.683  1.00  0.00              
ATOM     62  CA  THR    62      -8.727  39.205   9.382  1.00  0.00              
ATOM     63  CA  PHE    63      -9.376  37.403   6.116  1.00  0.00              
ATOM     64  CA  PHE    64      -5.833  37.691   4.905  1.00  0.00              
ATOM     65  CA  ALA    65      -4.419  36.353   8.135  1.00  0.00              
ATOM     66  CA  VAL    66      -6.745  33.445   8.291  1.00  0.00              
ATOM     67  CA  HIS    67      -6.403  32.283   4.721  1.00  0.00              
ATOM     68  CA  TYR    68      -2.744  32.724   4.088  1.00  0.00              
ATOM     69  CA  PRO    69      -1.308  32.563   7.630  1.00  0.00              
ATOM     70  CA  PHE    70       0.659  35.731   7.062  1.00  0.00              
ATOM     71  CA  ILE    71       1.145  38.501   9.356  1.00  0.00              
ATOM     72  CA  GLN    72       0.417  41.808   7.720  1.00  0.00              
ATOM     73  CA  SER    73       1.388  45.047   9.348  1.00  0.00              
ATOM     74  CA  PHE    74      -0.947  47.866   8.728  1.00  0.00              
ATOM     75  CA  SER    75      -0.168  51.439   9.606  1.00  0.00              
ATOM     76  CA  LEU    76      -3.004  53.945   9.640  1.00  0.00              
ATOM     77  CA  LEU    77      -2.429  57.646   9.025  1.00  0.00              
ATOM     78  CA  SER    78      -4.879  60.034  10.609  1.00  0.00              
ATOM    168  CA  ALA   168       3.021  69.988 -10.331  1.00  0.00              
ATOM    169  CA  LYS   169       2.764  68.630 -13.880  1.00  0.00              
ATOM    170  CA  THR   170       3.164  72.184 -15.201  1.00  0.00              
ATOM    171  CA  PHE   171       6.215  72.816 -12.991  1.00  0.00              
ATOM    172  CA  ASP   172       7.921  69.625 -14.023  1.00  0.00              
ATOM    173  CA  LYS   173       7.389  70.385 -17.731  1.00  0.00              
ATOM    174  CA  ILE   174       8.789  73.851 -17.336  1.00  0.00              
ATOM    175  CA  GLY   175      11.903  72.532 -15.549  1.00  0.00              
ATOM    176  CA  GLN   176      12.489  69.960 -18.255  1.00  0.00              
ATOM    177  CA  MET   177      12.161  72.601 -21.025  1.00  0.00              
ATOM    178  CA  LEU   178      14.576  74.903 -19.307  1.00  0.00              
ATOM    179  CA  LYS   179      17.188  71.640 -18.895  1.00  0.00              
ATOM    180  CA  LYS   180      15.689  72.900 -22.626  1.00  0.00              
TER                                                                             
END
