
#######################################################
#                                                     #
#                        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  103 (  103),  selected  103 , name T0314TS599_1-D1
# Molecule2: number of CA atoms  103 ( 1643),  selected  103 , name T0314_D1.pdb
# PARAMETERS: T0314TS599_1-D1.T0314_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1          4.569
LGA    S       2      S       2          1.937
LGA    I       3      I       3          1.510
LGA    T       4      T       4          1.149
LGA    S       5      S       5          2.344
LGA    T       6      T       6          4.164
LGA    D       7      D       7          4.837
LGA    I       8      I       8          1.433
LGA    C       9      C       9          3.013
LGA    Q      10      Q      10          4.095
LGA    A      11      A      11          1.782
LGA    A      12      A      12          1.432
LGA    D      13      D      13          2.613
LGA    A      14      A      14          1.415
LGA    L      15      L      15          1.667
LGA    K      16      -       -           -
LGA    G      17      -       -           -
LGA    F      18      -       -           -
LGA    V      19      K      16          2.990
LGA    G      20      G      17          1.625
LGA    F      21      F      18          1.811
LGA    N      22      V      19          1.311
LGA    R      23      G      20          1.290
LGA    K      24      F      21          2.650
LGA    -       -      N      22           -
LGA    -       -      R      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    -       -      R      27           -
LGA    T      25      Y      28          2.674
LGA    G      26      I      29          3.374
LGA    R      27      V      30          2.330
LGA    Y      28      R      31          2.656
LGA    I      29      F      32          1.826
LGA    V      30      -       -           -
LGA    R      31      -       -           -
LGA    F      32      -       -           -
LGA    S      33      -       -           -
LGA    E      34      -       -           -
LGA    D      35      -       -           -
LGA    S      36      -       -           -
LGA    F      37      -       -           -
LGA    G      38      -       -           -
LGA    M      39      -       -           -
LGA    D      40      -       -           -
LGA    V      41      -       -           -
LGA    A      42      -       -           -
LGA    D      43      -       -           -
LGA    D      44      -       -           -
LGA    S      45      -       -           -
LGA    I      46      -       -           -
LGA    T      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    S      50      -       -           -
LGA    E      51      S      33          3.272
LGA    F      52      -       -           -
LGA    V      53      -       -           -
LGA    W      54      -       -           -
LGA    S      55      -       -           -
LGA    S      56      -       -           -
LGA    V      57      -       -           -
LGA    R      58      -       -           -
LGA    D      59      -       -           -
LGA    D      60      -       -           -
LGA    V      61      -       -           -
LGA    M      62      -       -           -
LGA    R      63      -       -           -
LGA    L      64      -       -           -
LGA    G      65      -       -           -
LGA    R      66      -       -           -
LGA    E      67      -       -           -
LGA    Q      68      -       -           -
LGA    L      69      -       -           -
LGA    Q      70      -       -           -
LGA    I      71      -       -           -
LGA    L      72      -       -           -
LGA    L      73      E      34           #
LGA    E      74      D      35           #
LGA    Q      75      S      36           #
LGA    N      76      F      37          1.909
LGA    I      77      G      38          4.582
LGA    N      78      M      39          2.916
LGA    E      79      D      40          2.993
LGA    R      80      -       -           -
LGA    L      81      V      41          3.812
LGA    N      82      A      42          3.826
LGA    I      83      D      43           #
LGA    G      84      D      44          3.657
LGA    E      85      S      45          3.163
LGA    P      86      I      46          4.355
LGA    L      87      T      47          2.597
LGA    L      88      P      48          3.383
LGA    V      89      -       -           -
LGA    Y      90      -       -           -
LGA    L      91      T      49          2.699
LGA    R      92      S      50          3.963
LGA    R      93      E      51          4.008
LGA    Q      94      F      52          2.876
LGA    D      95      V      53          2.116
LGA    -       -      W      54           -
LGA    -       -      S      55           -
LGA    -       -      S      56           -
LGA    -       -      V      57           -
LGA    -       -      R      58           -
LGA    -       -      D      59           -
LGA    -       -      D      60           -
LGA    -       -      V      61           -
LGA    -       -      M      62           -
LGA    -       -      R      63           -
LGA    L      96      L      64          3.962
LGA    P      97      G      65          2.592
LGA    E      98      R      66          2.274
LGA    -       -      E      67           -
LGA    -       -      Q      68           -
LGA    -       -      L      69           -
LGA    -       -      Q      70           -
LGA    -       -      I      71           -
LGA    -       -      L      72           -
LGA    -       -      L      73           -
LGA    -       -      E      74           -
LGA    -       -      Q      75           -
LGA    -       -      N      76           -
LGA    -       -      I      77           -
LGA    -       -      N      78           -
LGA    -       -      E      79           -
LGA    -       -      R      80           -
LGA    -       -      L      81           -
LGA    -       -      N      82           -
LGA    -       -      I      83           -
LGA    -       -      G      84           -
LGA    -       -      E      85           -
LGA    I      99      P      86           #
LGA    T     100      L      87           #
LGA    A     101      -       -           -
LGA    Q     102      L      88          4.629
LGA    R     103      V      89          4.595
LGA    -       -      Y      90           -
LGA    -       -      L      91           -
LGA    -       -      R      92           -
LGA    -       -      R      93           -
LGA    -       -      Q      94           -
LGA    -       -      D      95           -
LGA    -       -      L      96           -
LGA    -       -      P      97           -
LGA    -       -      E      98           -
LGA    -       -      I      99           -
LGA    -       -      T     100           -
LGA    -       -      A     101           -
LGA    -       -      Q     102           -
LGA    -       -      R     103           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  103  103    5.0     48    3.04    37.50     27.708     1.529

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.141451 * X  +  -0.458590 * Y  +  -0.877318 * Z  +  24.727564
  Y_new =   0.656111 * X  +   0.707055 * Y  +  -0.263804 * Z  +   9.688588
  Z_new =   0.741290 * X  +  -0.538302 * Y  +   0.400899 * Z  + -13.897629 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.930665    2.210927  [ DEG:   -53.3232    126.6768 ]
  Theta =  -0.834990   -2.306603  [ DEG:   -47.8414   -132.1586 ]
  Phi   =   1.358456   -1.783137  [ DEG:    77.8338   -102.1662 ]
 
# 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: T0314TS599_1-D1                               
REMARK     2: T0314_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS599_1-D1.T0314_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  103  103   5.0   48   3.04   37.50  27.708
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS599_1-D1
PFRMAT TS                                                                       
TARGET T0314                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -1.224   0.540  -3.729  1.00  0.00              
ATOM      2  CA  SER     2      -1.232   4.017  -2.773  1.00  0.00              
ATOM      3  CA  ILE     3       1.647   6.159  -3.148  1.00  0.00              
ATOM      4  CA  THR     4       1.450   9.670  -2.464  1.00  0.00              
ATOM      5  CA  SER     5       2.958  12.569  -4.341  1.00  0.00              
ATOM      6  CA  THR     6       5.522  13.014  -1.539  1.00  0.00              
ATOM      7  CA  ASP     7       6.823   9.456  -1.955  1.00  0.00              
ATOM      8  CA  ILE     8       7.223  10.017  -5.729  1.00  0.00              
ATOM      9  CA  CYS     9       9.112  13.345  -5.310  1.00  0.00              
ATOM     10  CA  GLN    10      11.492  11.699  -2.805  1.00  0.00              
ATOM     11  CA  ALA    11      12.044   8.726  -5.176  1.00  0.00              
ATOM     12  CA  ALA    12      12.746  10.969  -8.113  1.00  0.00              
ATOM     13  CA  ASP    13      15.359  12.944  -6.258  1.00  0.00              
ATOM     14  CA  ALA    14      17.105   9.792  -5.089  1.00  0.00              
ATOM     15  CA  LEU    15      17.192   8.218  -8.577  1.00  0.00              
ATOM     16  CA  LYS    16      18.524  11.470 -10.017  1.00  0.00              
ATOM     17  CA  GLY    17      21.276  11.709  -7.376  1.00  0.00              
ATOM     18  CA  PHE    18      22.399   8.259  -8.219  1.00  0.00              
ATOM     19  CA  VAL    19      22.223   8.159 -11.977  1.00  0.00              
ATOM     20  CA  GLY    20      22.227   4.852 -13.810  1.00  0.00              
ATOM     21  CA  PHE    21      23.087   4.827 -17.479  1.00  0.00              
ATOM     22  CA  ASN    22      22.006   2.074 -19.577  1.00  0.00              
ATOM     23  CA  ARG    23      23.511   1.330 -22.918  1.00  0.00              
ATOM     24  CA  LYS    24      21.161  -1.572 -23.832  1.00  0.00              
ATOM     25  CA  THR    25      21.844  -3.427 -20.560  1.00  0.00              
ATOM     26  CA  GLY    26      25.584  -2.678 -20.057  1.00  0.00              
ATOM     27  CA  ARG    27      25.304  -0.680 -16.865  1.00  0.00              
ATOM     28  CA  TYR    28      27.007   2.676 -16.387  1.00  0.00              
ATOM     29  CA  ILE    29      26.940   4.217 -12.980  1.00  0.00              
ATOM     30  CA  VAL    30      26.851   7.908 -12.456  1.00  0.00              
ATOM     31  CA  ARG    31      27.070   9.239  -8.901  1.00  0.00              
ATOM     32  CA  PHE    32      26.088  12.754  -8.107  1.00  0.00              
ATOM     33  CA  SER    33      27.611  14.335  -5.138  1.00  0.00              
ATOM     34  CA  GLU    34      25.879  17.222  -3.486  1.00  0.00              
ATOM     35  CA  ASP    35      28.844  19.609  -3.524  1.00  0.00              
ATOM     36  CA  SER    36      31.583  17.115  -2.662  1.00  0.00              
ATOM     37  CA  PHE    37      34.585  19.050  -3.977  1.00  0.00              
ATOM     38  CA  GLY    38      37.572  17.280  -5.388  1.00  0.00              
ATOM     39  CA  MET    39      39.685  18.848  -8.150  1.00  0.00              
ATOM     40  CA  ASP    40      40.810  16.480 -10.819  1.00  0.00              
ATOM     41  CA  VAL    41      43.896  17.258 -12.780  1.00  0.00              
ATOM     42  CA  ALA    42      43.782  15.998 -16.309  1.00  0.00              
ATOM     43  CA  ASP    43      46.554  13.879 -17.844  1.00  0.00              
ATOM     44  CA  ASP    44      44.400  10.739 -17.444  1.00  0.00              
ATOM     45  CA  SER    45      43.987  10.982 -13.734  1.00  0.00              
ATOM     46  CA  ILE    46      40.241  10.985 -13.323  1.00  0.00              
ATOM     47  CA  THR    47      39.115   7.768 -15.049  1.00  0.00              
ATOM     48  CA  PRO    48      36.521   5.517 -13.501  1.00  0.00              
ATOM     49  CA  THR    49      34.010   4.830 -16.287  1.00  0.00              
ATOM     50  CA  SER    50      32.145   2.157 -14.286  1.00  0.00              
ATOM     51  CA  GLU    51      31.777   4.666 -11.529  1.00  0.00              
ATOM     52  CA  PHE    52      31.659   8.244 -12.687  1.00  0.00              
ATOM     53  CA  VAL    53      31.440  10.967 -10.096  1.00  0.00              
ATOM     54  CA  TRP    54      29.807  14.204 -11.040  1.00  0.00              
ATOM     55  CA  SER    55      30.090  17.132  -8.832  1.00  0.00              
ATOM     56  CA  SER    56      29.207  20.735 -10.016  1.00  0.00              
ATOM     57  CA  VAL    57      30.746  22.628  -7.178  1.00  0.00              
ATOM     58  CA  ARG    58      32.492  25.630  -8.619  1.00  0.00              
ATOM     59  CA  ASP    59      34.560  26.471  -5.515  1.00  0.00              
ATOM     60  CA  ASP    60      35.871  22.862  -5.060  1.00  0.00              
ATOM     61  CA  VAL    61      36.824  22.025  -8.590  1.00  0.00              
ATOM     62  CA  MET    62      36.407  19.062 -10.715  1.00  0.00              
ATOM     63  CA  ARG    63      39.149  19.350 -13.405  1.00  0.00              
ATOM     64  CA  LEU    64      39.226  16.949 -16.295  1.00  0.00              
ATOM     65  CA  GLY    65      41.057  18.089 -19.463  1.00  0.00              
ATOM     66  CA  ARG    66      39.109  17.621 -22.689  1.00  0.00              
ATOM     67  CA  GLU    67      41.330  15.016 -24.240  1.00  0.00              
ATOM     68  CA  GLN    68      41.217  12.941 -21.060  1.00  0.00              
ATOM     69  CA  LEU    69      37.410  13.015 -20.545  1.00  0.00              
ATOM     70  CA  GLN    70      36.840  12.098 -24.206  1.00  0.00              
ATOM     71  CA  ILE    71      39.260   9.151 -23.806  1.00  0.00              
ATOM     72  CA  LEU    72      37.550   7.916 -20.586  1.00  0.00              
ATOM     73  CA  LEU    73      34.139   7.958 -22.292  1.00  0.00              
ATOM     74  CA  GLU    74      34.852   6.524 -25.816  1.00  0.00              
ATOM     75  CA  GLN    75      36.778   3.484 -24.727  1.00  0.00              
ATOM     76  CA  ASN    76      34.245   2.372 -22.188  1.00  0.00              
ATOM     77  CA  ILE    77      30.833   2.683 -23.723  1.00  0.00              
ATOM     78  CA  ASN    78      31.790   1.350 -27.176  1.00  0.00              
ATOM     79  CA  GLU    79      33.488  -1.762 -25.945  1.00  0.00              
ATOM     80  CA  ARG    80      30.816  -3.035 -23.648  1.00  0.00              
ATOM     81  CA  LEU    81      27.792  -2.219 -25.851  1.00  0.00              
ATOM     82  CA  ASN    82      27.740   0.686 -28.205  1.00  0.00              
ATOM     83  CA  ILE    83      24.909   2.966 -26.938  1.00  0.00              
ATOM     84  CA  GLY    84      24.764   5.991 -29.148  1.00  0.00              
ATOM     85  CA  GLU    85      23.664   8.625 -26.700  1.00  0.00              
ATOM     86  CA  PRO    86      25.347  10.044 -23.688  1.00  0.00              
ATOM     87  CA  LEU    87      24.993   7.953 -20.556  1.00  0.00              
ATOM     88  CA  LEU    88      23.775  10.650 -18.073  1.00  0.00              
ATOM     89  CA  VAL    89      21.299  12.121 -20.646  1.00  0.00              
ATOM     90  CA  TYR    90      19.842   8.675 -21.484  1.00  0.00              
ATOM     91  CA  LEU    91      19.452   7.669 -17.790  1.00  0.00              
ATOM     92  CA  ARG    92      17.742  11.002 -16.913  1.00  0.00              
ATOM     93  CA  ARG    93      15.003  11.372 -19.516  1.00  0.00              
ATOM     94  CA  GLN    94      13.931   7.714 -19.257  1.00  0.00              
ATOM     95  CA  ASP    95      13.370   7.589 -15.554  1.00  0.00              
ATOM     96  CA  LEU    96      11.066  10.452 -14.782  1.00  0.00              
ATOM     97  CA  PRO    97       7.822   9.159 -16.386  1.00  0.00              
ATOM     98  CA  GLU    98       8.181   5.869 -14.609  1.00  0.00              
ATOM     99  CA  ILE    99       8.741   7.537 -11.232  1.00  0.00              
ATOM    100  CA  THR   100       5.685   9.797 -11.766  1.00  0.00              
ATOM    101  CA  ALA   101       3.451   6.855 -12.715  1.00  0.00              
ATOM    102  CA  GLN   102       4.456   4.717  -9.719  1.00  0.00              
ATOM    103  CA  ARG   103       3.773   7.430  -7.116  1.00  0.00              
TER                                                                             
END
