
#######################################################
#                                                     #
#                        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   89 (   89),  selected   89 , name T0347TS599_2-D1
# Molecule2: number of CA atoms   89 (  730),  selected   89 , name T0347_D1.pdb
# PARAMETERS: T0347TS599_2-D1.T0347_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      P       7           -
LGA    P       7      R       8          2.719
LGA    R       8      L       9          2.783
LGA    L       9      S      10          2.396
LGA    S      10      R      11           #
LGA    R      11      I      12          4.359
LGA    I      12      A      13           #
LGA    A      13      I      14          4.691
LGA    I      14      D      15          3.888
LGA    D      15      K      16           -
LGA    -       -      L      17           -
LGA    -       -      R      18           -
LGA    K      16      P      19           #
LGA    L      17      T      20           -
LGA    -       -      Q      21           -
LGA    -       -      I      22           -
LGA    -       -      A      23           -
LGA    -       -      V      24           -
LGA    -       -      G      25           -
LGA    -       -      F      26           -
LGA    -       -      R      27           -
LGA    -       -      E      28           -
LGA    R      18      V      29          4.591
LGA    P      19      E      30          4.909
LGA    -       -      L      31           -
LGA    -       -      K      32           -
LGA    T      20      R      33          2.908
LGA    -       -      K      34           -
LGA    -       -      E      35           -
LGA    -       -      W      36           -
LGA    -       -      R      37           -
LGA    Q      21      H      51           #
LGA    I      22      I      52           -
LGA    A      23      V      53           -
LGA    V      24      P      54           -
LGA    G      25      -       -           -
LGA    F      26      -       -           -
LGA    R      27      -       -           -
LGA    E      28      -       -           -
LGA    V      29      -       -           -
LGA    E      30      -       -           -
LGA    L      31      -       -           -
LGA    K      32      -       -           -
LGA    R      33      -       -           -
LGA    K      34      -       -           -
LGA    E      35      -       -           -
LGA    W      36      -       -           -
LGA    R      37      -       -           -
LGA    H      51      -       -           -
LGA    I      52      -       -           -
LGA    V      53      -       -           -
LGA    P      54      -       -           -
LGA    V      55      V      55          2.041
LGA    V      56      V      56          4.332
LGA    -       -      A      57           -
LGA    -       -      G      58           -
LGA    -       -      P      59           -
LGA    -       -      K      60           -
LGA    -       -      D      61           -
LGA    -       -      R      62           -
LGA    -       -      A      63           -
LGA    A      57      Y      64          4.147
LGA    G      58      L      65          3.817
LGA    P      59      -       -           -
LGA    K      60      -       -           -
LGA    D      61      -       -           -
LGA    R      62      I      66          3.107
LGA    A      63      D      67          4.300
LGA    Y      64      H      68           -
LGA    -       -      H      69           -
LGA    -       -      H      70           -
LGA    -       -      L      71           -
LGA    -       -      V      72           -
LGA    -       -      L      73           -
LGA    -       -      A      74           -
LGA    -       -      L      75           -
LGA    -       -      S      76           -
LGA    -       -      K      77           -
LGA    -       -      E      78           -
LGA    -       -      G      79           -
LGA    -       -      V      80           -
LGA    -       -      E      81           -
LGA    -       -      H      82           -
LGA    -       -      V      83           -
LGA    -       -      L      84           -
LGA    -       -      T      85           -
LGA    -       -      S      86           -
LGA    L      65      E      87          4.408
LGA    I      66      V      88          4.531
LGA    D      67      A      89          3.723
LGA    H      68      K      90          4.959
LGA    H      69      -       -           -
LGA    H      70      -       -           -
LGA    L      71      -       -           -
LGA    V      72      -       -           -
LGA    L      73      -       -           -
LGA    A      74      -       -           -
LGA    L      75      -       -           -
LGA    S      76      -       -           -
LGA    K      77      -       -           -
LGA    E      78      -       -           -
LGA    G      79      -       -           -
LGA    V      80      -       -           -
LGA    E      81      -       -           -
LGA    H      82      -       -           -
LGA    V      83      -       -           -
LGA    L      84      -       -           -
LGA    T      85      -       -           -
LGA    S      86      -       -           -
LGA    E      87      F      91          3.512
LGA    V      88      S      92           #
LGA    -       -      H      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      K      96           -
LGA    -       -      D      97           -
LGA    -       -      E      98           -
LGA    A      89      F      99          3.342
LGA    -       -      W     100           -
LGA    K      90      S     101           #
LGA    F      91      V     102          5.395
LGA    S      92      M     103          3.038
LGA    H      93      D     104          2.666
LGA    L      94      H     105          2.199
LGA    -       -      R     106           -
LGA    G      95      N     107          1.037
LGA    K      96      L     108          3.961
LGA    D      97      -       -           -
LGA    E      98      -       -           -
LGA    F      99      -       -           -
LGA    W     100      -       -           -
LGA    S     101      -       -           -
LGA    V     102      -       -           -
LGA    M     103      -       -           -
LGA    D     104      -       -           -
LGA    H     105      -       -           -
LGA    R     106      -       -           -
LGA    N     107      -       -           -
LGA    L     108      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   89   89    5.0     27    3.76     7.41     16.089     0.699

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.983979 * X  +  -0.142703 * Y  +   0.106866 * Z  +  13.835945
  Y_new =   0.175800 * X  +  -0.676965 * Y  +   0.714711 * Z  +  30.548790
  Z_new =  -0.029646 * X  +   0.722048 * Y  +   0.691207 * Z  + -11.021328 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.807218   -2.334375  [ DEG:    46.2502   -133.7498 ]
  Theta =   0.029651    3.111942  [ DEG:     1.6989    178.3011 ]
  Phi   =   2.964796   -0.176797  [ DEG:   169.8703    -10.1297 ]
 
# 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: T0347TS599_2-D1                               
REMARK     2: T0347_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS599_2-D1.T0347_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   89   89   5.0   27   3.76    7.41  16.089
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS599_2-D1
PFRMAT TS                                                                       
TARGET T0347                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      7  CA  PRO     7      12.889  24.772 -12.104  1.00  0.00              
ATOM      8  CA  ARG     8      11.807  27.583 -10.027  1.00  0.00              
ATOM      9  CA  LEU     9       8.266  28.654 -10.924  1.00  0.00              
ATOM     10  CA  SER    10       7.572  32.066  -9.809  1.00  0.00              
ATOM     11  CA  ARG    11       4.126  33.363  -9.216  1.00  0.00              
ATOM     12  CA  ILE    12       3.711  37.096  -9.266  1.00  0.00              
ATOM     13  CA  ALA    13       0.703  38.982  -8.065  1.00  0.00              
ATOM     14  CA  ILE    14      -0.599  41.610 -10.454  1.00  0.00              
ATOM     15  CA  ASP    15      -0.679  44.518  -7.946  1.00  0.00              
ATOM     16  CA  LYS    16       2.986  44.116  -7.319  1.00  0.00              
ATOM     17  CA  LEU    17       4.206  44.048 -10.845  1.00  0.00              
ATOM     18  CA  ARG    18       6.717  46.750 -11.592  1.00  0.00              
ATOM     19  CA  PRO    19       7.051  48.869 -14.672  1.00  0.00              
ATOM     20  CA  THR    20       9.953  47.084 -16.290  1.00  0.00              
ATOM     21  CA  GLN    21       8.177  43.769 -16.117  1.00  0.00              
ATOM     22  CA  ILE    22       9.345  41.878 -19.157  1.00  0.00              
ATOM     23  CA  ALA    23       7.830  38.531 -20.128  1.00  0.00              
ATOM     24  CA  VAL    24       9.899  35.879 -21.883  1.00  0.00              
ATOM     25  CA  GLY    25       8.315  32.984 -23.646  1.00  0.00              
ATOM     26  CA  PHE    26      10.778  30.168 -23.232  1.00  0.00              
ATOM     27  CA  ARG    27      10.252  27.960 -26.258  1.00  0.00              
ATOM     28  CA  GLU    28      12.296  24.945 -25.263  1.00  0.00              
ATOM     29  CA  VAL    29      11.018  24.738 -21.779  1.00  0.00              
ATOM     30  CA  GLU    30       7.708  24.836 -23.196  1.00  0.00              
ATOM     31  CA  LEU    31       8.330  22.017 -25.457  1.00  0.00              
ATOM     32  CA  LYS    32       9.585  19.829 -22.632  1.00  0.00              
ATOM     33  CA  ARG    33       6.449  20.542 -20.631  1.00  0.00              
ATOM     34  CA  LYS    34       4.297  19.503 -23.570  1.00  0.00              
ATOM     35  CA  GLU    35       6.178  16.184 -23.704  1.00  0.00              
ATOM     36  CA  TRP    36       5.744  15.494 -20.073  1.00  0.00              
ATOM     37  CA  ARG    37       2.036  16.149 -20.145  1.00  0.00              
ATOM     51  CA  HIS    51      10.781  20.406 -11.355  1.00  0.00              
ATOM     52  CA  ILE    52       8.496  21.684  -8.661  1.00  0.00              
ATOM     53  CA  VAL    53       9.813  24.909  -7.077  1.00  0.00              
ATOM     54  CA  PRO    54       7.156  27.395  -6.295  1.00  0.00              
ATOM     55  CA  VAL    55       8.063  30.915  -5.547  1.00  0.00              
ATOM     56  CA  VAL    56       5.357  33.241  -4.407  1.00  0.00              
ATOM     57  CA  ALA    57       5.793  36.970  -4.541  1.00  0.00              
ATOM     58  CA  GLY    58       3.324  39.114  -2.671  1.00  0.00              
ATOM     59  CA  PRO    59       2.366  42.677  -3.419  1.00  0.00              
ATOM     60  CA  LYS    60       4.967  44.028  -0.970  1.00  0.00              
ATOM     61  CA  ASP    61       7.911  42.289  -2.543  1.00  0.00              
ATOM     62  CA  ARG    62       8.328  39.533   0.032  1.00  0.00              
ATOM     63  CA  ALA    63       9.445  36.199  -1.426  1.00  0.00              
ATOM     64  CA  TYR    64       8.025  33.008  -0.284  1.00  0.00              
ATOM     65  CA  LEU    65       9.683  29.671  -1.098  1.00  0.00              
ATOM     66  CA  ILE    66       7.655  26.551  -1.188  1.00  0.00              
ATOM     67  CA  ASP    67       9.237  23.385  -0.104  1.00  0.00              
ATOM     68  CA  HIS    68       6.867  20.640  -0.777  1.00  0.00              
ATOM     69  CA  HIS    69       7.689  18.258   2.034  1.00  0.00              
ATOM     70  CA  HIS    70       8.309  15.304  -0.260  1.00  0.00              
ATOM     71  CA  LEU    71      10.953  17.342  -2.101  1.00  0.00              
ATOM     72  CA  VAL    72      13.051  18.188   0.898  1.00  0.00              
ATOM     73  CA  LEU    73      13.073  14.598   1.978  1.00  0.00              
ATOM     74  CA  ALA    74      14.039  13.317  -1.451  1.00  0.00              
ATOM     75  CA  LEU    75      16.934  15.723  -1.778  1.00  0.00              
ATOM     76  CA  SER    76      18.266  14.655   1.581  1.00  0.00              
ATOM     77  CA  LYS    77      18.075  10.966   0.633  1.00  0.00              
ATOM     78  CA  GLU    78      20.075  11.696  -2.510  1.00  0.00              
ATOM     79  CA  GLY    79      22.951  13.134  -0.561  1.00  0.00              
ATOM     80  CA  VAL    80      22.082  16.827  -0.609  1.00  0.00              
ATOM     81  CA  GLU    81      23.324  18.133   2.680  1.00  0.00              
ATOM     82  CA  HIS    82      21.806  21.560   3.154  1.00  0.00              
ATOM     83  CA  VAL    83      18.550  22.521   1.596  1.00  0.00              
ATOM     84  CA  LEU    84      16.415  25.384   2.764  1.00  0.00              
ATOM     85  CA  THR    85      12.726  25.156   2.087  1.00  0.00              
ATOM     86  CA  SER    86      10.513  28.150   2.851  1.00  0.00              
ATOM     87  CA  GLU    87       6.866  27.737   3.030  1.00  0.00              
ATOM     88  CA  VAL    88       4.754  30.661   2.009  1.00  0.00              
ATOM     89  CA  ALA    89       1.899  30.964   4.550  1.00  0.00              
ATOM     90  CA  LYS    90       4.768  30.786   7.056  1.00  0.00              
ATOM     91  CA  PHE    91       7.084  33.414   5.516  1.00  0.00              
ATOM     92  CA  SER    92       4.363  36.050   5.208  1.00  0.00              
ATOM     93  CA  HIS    93       3.690  35.860   8.853  1.00  0.00              
ATOM     94  CA  LEU    94       7.256  35.843   9.994  1.00  0.00              
ATOM     95  CA  GLY    95       9.549  38.327   8.326  1.00  0.00              
ATOM     96  CA  LYS    96      12.472  37.100   6.301  1.00  0.00              
ATOM     97  CA  ASP    97      15.179  37.458   8.951  1.00  0.00              
ATOM     98  CA  GLU    98      13.201  35.441  11.414  1.00  0.00              
ATOM     99  CA  PHE    99      12.608  32.683   8.890  1.00  0.00              
ATOM    100  CA  TRP   100      16.259  32.472   8.079  1.00  0.00              
ATOM    101  CA  SER   101      17.158  32.219  11.677  1.00  0.00              
ATOM    102  CA  VAL   102      14.742  29.358  12.160  1.00  0.00              
ATOM    103  CA  MET   103      16.097  27.527   9.149  1.00  0.00              
ATOM    104  CA  ASP   104      19.568  27.906  10.204  1.00  0.00              
ATOM    105  CA  HIS   105      18.640  26.526  13.630  1.00  0.00              
ATOM    106  CA  ARG   106      17.460  23.446  11.818  1.00  0.00              
ATOM    107  CA  ASN   107      20.823  22.867  10.209  1.00  0.00              
ATOM    108  CA  LEU   108      20.065  23.452   6.697  1.00  0.00              
TER                                                                             
END
