
#######################################################
#                                                     #
#                        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  146 (  146),  selected  146 , name T0312TS599_4
# Molecule2: number of CA atoms  140 ( 1114),  selected  140 , name T0312.pdb
# PARAMETERS: T0312TS599_4.T0312.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    K       2      K       2           -
LGA    V       3      V       3           -
LGA    F       4      F       4           -
LGA    E       5      E       5           -
LGA    F       6      F       6           -
LGA    E       7      E       7           -
LGA    V       8      V       8           #
LGA    G       9      G       9           #
LGA    K      10      K      10          3.437
LGA    G      11      G      11          2.473
LGA    F      12      F      12          1.204
LGA    L      13      L      13          2.084
LGA    L      14      L      14          2.610
LGA    R      15      R      15          2.626
LGA    L      16      L      16          2.315
LGA    D      17      D      17          1.887
LGA    -       -      Y      18           -
LGA    Y      18      G      19          1.401
LGA    G      19      K      20          2.289
LGA    K      20      D      21          4.802
LGA    -       -      L      22           -
LGA    -       -      V      23           -
LGA    D      21      R      24          3.493
LGA    L      22      Q      25          1.605
LGA    V      23      I      26          1.091
LGA    R      24      E      27          0.861
LGA    Q      25      E      28          2.422
LGA    I      26      F      29          2.974
LGA    E      27      L      30          2.775
LGA    E      28      E      31          3.103
LGA    -       -      E      32           -
LGA    F      29      K      33          2.767
LGA    L      30      G      34           #
LGA    E      31      I      35          1.207
LGA    E      32      H      36           #
LGA    K      33      -       -           -
LGA    G      34      -       -           -
LGA    I      35      A      37           #
LGA    H      36      A      38          4.230
LGA    A      37      H      39          3.953
LGA    A      38      I      40          4.420
LGA    H      39      S      41          4.694
LGA    I      40      A      42          5.338
LGA    S      41      I      43           #
LGA    A      42      G      44           #
LGA    I      43      -       -           -
LGA    G      44      -       -           -
LGA    A      45      -       -           -
LGA    V      46      -       -           -
LGA    R      47      -       -           -
LGA    S      48      -       -           -
LGA    A      49      A      45          4.531
LGA    V      50      V      46          2.691
LGA    I      51      R      47           -
LGA    G      52      S      48           -
LGA    Y      53      A      49           -
LGA    Y      54      V      50           -
LGA    D      55      I      51           -
LGA    Q      56      G      52           -
LGA    E      57      Y      53           -
LGA    K      58      Y      54           -
LGA    K      59      D      55           -
LGA    E      60      Q      56           -
LGA    Y      61      E      57           -
LGA    V      62      K      58           -
LGA    K      63      K      59           -
LGA    K      64      E      60           -
LGA    E      65      Y      61           -
LGA    L      66      V      62           -
LGA    M      67      K      63           -
LGA    E      68      K      64           -
LGA    P      69      E      65           -
LGA    -       -      L      66           -
LGA    -       -      M      67           -
LGA    -       -      E      68           -
LGA    L      70      P      69          5.273
LGA    E      71      L      70          1.471
LGA    I      72      E      71          1.076
LGA    L      73      I      72          2.886
LGA    -       -      L      73           -
LGA    S      74      S      74          3.631
LGA    L      75      L      75          2.811
LGA    S      76      S      76          1.828
LGA    G      77      G      77          1.324
LGA    N      78      N      78          4.329
LGA    V      79      V      79           #
LGA    S      80      -       -           -
LGA    M      81      -       -           -
LGA    K      82      -       -           -
LGA    D      83      -       -           -
LGA    S      84      -       -           -
LGA    K      85      -       -           -
LGA    P      86      -       -           -
LGA    F      87      S      80           #
LGA    -       -      M      81           -
LGA    -       -      K      82           -
LGA    -       -      D      83           -
LGA    -       -      S      84           -
LGA    -       -      K      85           -
LGA    -       -      P      86           -
LGA    -       -      F      87           -
LGA    -       -      C      88           -
LGA    C      88      H      89           #
LGA    H      89      I      90          4.222
LGA    I      90      H      91          2.373
LGA    H      91      V      92          2.237
LGA    V      92      L      93          0.726
LGA    L      93      L      94          1.696
LGA    L      94      G      95          2.428
LGA    G      95      K      96          1.200
LGA    K      96      -       -           -
LGA    D      97      -       -           -
LGA    G      98      D      97          3.278
LGA    E      99      G      98          3.421
LGA    V     100      E      99           #
LGA    Y     101      V     100          2.388
LGA    G     102      Y     101          5.127
LGA    G     103      -       -           -
LGA    H     104      -       -           -
LGA    L     105      -       -           -
LGA    F     106      -       -           -
LGA    S     107      -       -           -
LGA    A     108      -       -           -
LGA    E     109      -       -           -
LGA    V     110      -       -           -
LGA    F     111      -       -           -
LGA    A     112      -       -           -
LGA    C     113      -       -           -
LGA    E     114      -       -           -
LGA    V     115      -       -           -
LGA    F     116      -       -           -
LGA    V     117      -       -           -
LGA    L     118      G     102          3.690
LGA    P     119      G     103          4.181
LGA    L     120      H     104           -
LGA    S     121      L     105           -
LGA    G     122      F     106           -
LGA    E     123      S     107           -
LGA    A     124      A     108           -
LGA    P     125      E     109           -
LGA    E     126      V     110           -
LGA    R     127      F     111           -
LGA    A     128      A     112           -
LGA    F     129      C     113           -
LGA    D     130      E     114           -
LGA    E     131      V     115           -
LGA    Q     132      F     116           -
LGA    T     133      V     117           -
LGA    G     134      L     118           -
LGA    L     135      P     119           -
LGA    F     136      L     120           -
LGA    -       -      S     121           -
LGA    -       -      G     122           -
LGA    -       -      E     123           -
LGA    -       -      A     124           -
LGA    -       -      P     125           -
LGA    -       -      E     126           -
LGA    -       -      R     127           -
LGA    -       -      A     128           -
LGA    -       -      F     129           -
LGA    -       -      D     130           -
LGA    -       -      E     131           -
LGA    L     137      Q     132           #
LGA    W     138      T     133          4.395
LGA    L     139      -       -           -
LGA    E     140      G     134          2.507
LGA    H     141      L     135           #
LGA    H     142      -       -           -
LGA    H     143      -       -           -
LGA    H     144      -       -           -
LGA    H     145      -       -           -
LGA    H     146      F     136           #
LGA    -       -      L     137           -
LGA    -       -      W     138           -
LGA    -       -      L     139           -
LGA    -       -      E     140           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  146  140    5.0     52    3.10    32.69     22.511     1.624

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.438524 * X  +   0.641590 * Y  +  -0.629332 * Z  +  52.996811
  Y_new =  -0.342152 * X  +  -0.528336 * Y  +  -0.777041 * Z  +   5.340612
  Z_new =  -0.831041 * X  +   0.556078 * Y  +  -0.012167 * Z  +  17.756338 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.592672   -1.548920  [ DEG:    91.2534    -88.7466 ]
  Theta =   0.980976    2.160616  [ DEG:    56.2058    123.7942 ]
  Phi   =  -0.662573    2.479020  [ DEG:   -37.9626    142.0374 ]
 
# 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: T0312TS599_4                                  
REMARK     2: T0312.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0312TS599_4.T0312.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  146  140   5.0   52   3.10   32.69  22.511
REMARK  ---------------------------------------------------------- 
MOLECULE T0312TS599_4
PFRMAT TS                                                                       
TARGET T0312                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      49.225  21.784  11.999  1.00  0.00              
ATOM      2  CA  LYS     2      50.113  22.322  15.931  1.00  0.00              
ATOM      3  CA  VAL     3      49.143  22.187  20.015  1.00  0.00              
ATOM      4  CA  PHE     4      52.764  21.369  21.240  1.00  0.00              
ATOM      5  CA  GLU     5      52.292  21.185  24.950  1.00  0.00              
ATOM      6  CA  PHE     6      55.584  20.693  26.673  1.00  0.00              
ATOM      7  CA  GLU     7      55.623  18.344  29.689  1.00  0.00              
ATOM      8  CA  VAL     8      58.894  19.147  31.354  1.00  0.00              
ATOM      9  CA  GLY     9      61.584  17.017  29.667  1.00  0.00              
ATOM     10  CA  LYS    10      62.474  19.361  26.866  1.00  0.00              
ATOM     11  CA  GLY    11      60.187  19.114  23.889  1.00  0.00              
ATOM     12  CA  PHE    12      61.521  18.832  20.348  1.00  0.00              
ATOM     13  CA  LEU    13      59.108  18.897  17.480  1.00  0.00              
ATOM     14  CA  LEU    14      59.990  17.186  14.244  1.00  0.00              
ATOM     15  CA  ARG    15      57.858  17.641  11.156  1.00  0.00              
ATOM     16  CA  LEU    16      58.102  15.147   8.354  1.00  0.00              
ATOM     17  CA  ASP    17      56.338  15.540   5.031  1.00  0.00              
ATOM     18  CA  TYR    18      55.337  12.369   3.235  1.00  0.00              
ATOM     19  CA  GLY    19      58.198  10.026   2.184  1.00  0.00              
ATOM     20  CA  LYS    20      60.639  11.465   4.645  1.00  0.00              
ATOM     21  CA  ASP    21      62.857  10.511   7.588  1.00  0.00              
ATOM     22  CA  LEU    22      61.863  13.120  10.144  1.00  0.00              
ATOM     23  CA  VAL    23      61.342  10.691  13.038  1.00  0.00              
ATOM     24  CA  ARG    24      64.904   9.445  12.810  1.00  0.00              
ATOM     25  CA  GLN    25      66.208  13.048  12.888  1.00  0.00              
ATOM     26  CA  ILE    26      64.026  14.010  15.835  1.00  0.00              
ATOM     27  CA  GLU    27      65.182  10.940  17.804  1.00  0.00              
ATOM     28  CA  GLU    28      68.734  11.830  17.078  1.00  0.00              
ATOM     29  CA  PHE    29      68.211  15.433  18.173  1.00  0.00              
ATOM     30  CA  LEU    30      66.554  14.542  21.422  1.00  0.00              
ATOM     31  CA  GLU    31      69.265  12.121  22.261  1.00  0.00              
ATOM     32  CA  GLU    32      72.093  14.552  21.413  1.00  0.00              
ATOM     33  CA  LYS    33      70.769  17.305  23.567  1.00  0.00              
ATOM     34  CA  GLY    34      69.904  14.984  26.488  1.00  0.00              
ATOM     35  CA  ILE    35      66.211  15.965  26.388  1.00  0.00              
ATOM     36  CA  HIS    36      63.381  13.820  27.260  1.00  0.00              
ATOM     37  CA  ALA    37      60.650  14.236  24.722  1.00  0.00              
ATOM     38  CA  ALA    38      60.521  14.199  20.933  1.00  0.00              
ATOM     39  CA  HIS    39      57.285  14.982  19.035  1.00  0.00              
ATOM     40  CA  ILE    40      57.030  13.736  15.506  1.00  0.00              
ATOM     41  CA  SER    41      54.480  15.074  13.112  1.00  0.00              
ATOM     42  CA  ALA    42      54.152  13.334   9.799  1.00  0.00              
ATOM     43  CA  ILE    43      51.943  14.866   7.146  1.00  0.00              
ATOM     44  CA  GLY    44      51.098  12.873   4.052  1.00  0.00              
ATOM     45  CA  ALA    45      48.894  14.207   1.443  1.00  0.00              
ATOM     46  CA  VAL    46      47.178  11.268  -0.176  1.00  0.00              
ATOM     47  CA  ARG    47      43.514  12.143   0.568  1.00  0.00              
ATOM     48  CA  SER    48      44.573  13.450   3.971  1.00  0.00              
ATOM     49  CA  ALA    49      46.906  11.299   6.128  1.00  0.00              
ATOM     50  CA  VAL    50      48.170  12.763   9.343  1.00  0.00              
ATOM     51  CA  ILE    51      50.561  10.802  11.449  1.00  0.00              
ATOM     52  CA  GLY    52      51.254  11.927  14.942  1.00  0.00              
ATOM     53  CA  TYR    53      54.141  10.360  16.954  1.00  0.00              
ATOM     54  CA  TYR    54      54.365  11.067  20.608  1.00  0.00              
ATOM     55  CA  ASP    55      57.202   9.887  22.838  1.00  0.00              
ATOM     56  CA  GLN    56      56.194   9.130  26.367  1.00  0.00              
ATOM     57  CA  GLU    57      55.525  11.992  28.704  1.00  0.00              
ATOM     58  CA  LYS    58      51.721  12.417  28.892  1.00  0.00              
ATOM     59  CA  LYS    59      51.344  16.146  28.230  1.00  0.00              
ATOM     60  CA  GLU    60      49.058  16.089  25.244  1.00  0.00              
ATOM     61  CA  TYR    61      50.478  18.059  22.250  1.00  0.00              
ATOM     62  CA  VAL    62      47.701  17.313  19.825  1.00  0.00              
ATOM     63  CA  LYS    63      46.686  19.842  17.243  1.00  0.00              
ATOM     64  CA  LYS    64      46.356  18.537  13.761  1.00  0.00              
ATOM     65  CA  GLU    65      45.682  20.149  10.459  1.00  0.00              
ATOM     66  CA  LEU    66      44.108  17.838   7.820  1.00  0.00              
ATOM     67  CA  MET    67      43.397  19.074   4.337  1.00  0.00              
ATOM     68  CA  GLU    68      41.640  16.233   2.634  1.00  0.00              
ATOM     69  CA  PRO    69      39.298  13.563   4.099  1.00  0.00              
ATOM     70  CA  LEU    70      41.068  12.852   7.335  1.00  0.00              
ATOM     71  CA  GLU    71      42.728   9.900   8.740  1.00  0.00              
ATOM     72  CA  ILE    72      44.631  10.431  11.878  1.00  0.00              
ATOM     73  CA  LEU    73      47.077   8.038  12.982  1.00  0.00              
ATOM     74  CA  SER    74      48.449   8.462  16.377  1.00  0.00              
ATOM     75  CA  LEU    75      51.524   6.554  17.433  1.00  0.00              
ATOM     76  CA  SER    76      52.522   6.548  21.015  1.00  0.00              
ATOM     77  CA  GLY    77      55.920   5.239  21.898  1.00  0.00              
ATOM     78  CA  ASN    78      56.795   4.567  25.468  1.00  0.00              
ATOM     79  CA  VAL    79      60.210   3.699  26.433  1.00  0.00              
ATOM     80  CA  SER    80      60.812   2.373  29.899  1.00  0.00              
ATOM     81  CA  MET    81      64.199   1.124  31.076  1.00  0.00              
ATOM     82  CA  LYS    82      64.016  -1.771  33.486  1.00  0.00              
ATOM     83  CA  ASP    83      67.248  -3.636  32.962  1.00  0.00              
ATOM     84  CA  SER    84      66.259  -5.463  29.818  1.00  0.00              
ATOM     85  CA  LYS    85      64.954  -2.682  27.661  1.00  0.00              
ATOM     86  CA  PRO    86      61.315  -1.889  28.062  1.00  0.00              
ATOM     87  CA  PHE    87      59.651  -0.734  24.988  1.00  0.00              
ATOM     88  CA  CYS    88      55.965  -0.038  24.808  1.00  0.00              
ATOM     89  CA  HIS    89      54.368   0.845  21.472  1.00  0.00              
ATOM     90  CA  ILE    90      50.881   2.208  21.355  1.00  0.00              
ATOM     91  CA  HIS    91      49.010   2.525  18.115  1.00  0.00              
ATOM     92  CA  VAL    92      45.942   4.793  18.065  1.00  0.00              
ATOM     93  CA  LEU    93      43.692   5.050  15.003  1.00  0.00              
ATOM     94  CA  LEU    94      41.539   8.077  14.550  1.00  0.00              
ATOM     95  CA  GLY    95      38.876   8.193  11.829  1.00  0.00              
ATOM     96  CA  LYS    96      37.970  11.510  10.121  1.00  0.00              
ATOM     97  CA  ASP    97      34.881  11.909  12.256  1.00  0.00              
ATOM     98  CA  GLY    98      36.812  11.710  15.561  1.00  0.00              
ATOM     99  CA  GLU    99      35.930   8.227  16.568  1.00  0.00              
ATOM    100  CA  VAL   100      38.833   6.668  18.194  1.00  0.00              
ATOM    101  CA  TYR   101      39.593   3.118  17.490  1.00  0.00              
ATOM    102  CA  GLY   102      41.996   1.161  19.747  1.00  0.00              
ATOM    103  CA  GLY   103      42.793  -2.540  19.047  1.00  0.00              
ATOM    104  CA  HIS   104      43.838  -3.911  22.262  1.00  0.00              
ATOM    105  CA  LEU   105      43.466  -7.626  21.770  1.00  0.00              
ATOM    106  CA  PHE   106      45.391  -8.060  18.494  1.00  0.00              
ATOM    107  CA  SER   107      48.344  -5.961  19.556  1.00  0.00              
ATOM    108  CA  ALA   108      49.066  -7.114  23.156  1.00  0.00              
ATOM    109  CA  GLU   109      48.986 -10.677  21.797  1.00  0.00              
ATOM    110  CA  VAL   110      51.436 -10.621  18.810  1.00  0.00              
ATOM    111  CA  PHE   111      54.494  -8.869  20.351  1.00  0.00              
ATOM    112  CA  ALA   112      54.725  -9.705  23.944  1.00  0.00              
ATOM    113  CA  CYS   113      58.024  -8.993  25.605  1.00  0.00              
ATOM    114  CA  GLU   114      57.989  -5.510  24.078  1.00  0.00              
ATOM    115  CA  VAL   115      54.354  -4.604  24.517  1.00  0.00              
ATOM    116  CA  PHE   116      52.596  -3.851  21.402  1.00  0.00              
ATOM    117  CA  VAL   117      49.120  -2.377  21.432  1.00  0.00              
ATOM    118  CA  LEU   118      47.510  -2.048  17.990  1.00  0.00              
ATOM    119  CA  PRO   119      44.847   0.235  16.682  1.00  0.00              
ATOM    120  CA  LEU   120      42.097  -1.754  14.897  1.00  0.00              
ATOM    121  CA  SER   121      39.564  -0.196  12.777  1.00  0.00              
ATOM    122  CA  GLY   122      36.531  -2.419  12.822  1.00  0.00              
ATOM    123  CA  GLU   123      38.253  -5.847  13.067  1.00  0.00              
ATOM    124  CA  ALA   124      37.615  -8.152  16.006  1.00  0.00              
ATOM    125  CA  PRO   125      40.987  -8.767  17.715  1.00  0.00              
ATOM    126  CA  GLU   126      41.184 -12.541  17.525  1.00  0.00              
ATOM    127  CA  ARG   127      40.101 -12.355  13.840  1.00  0.00              
ATOM    128  CA  ALA   128      42.579  -9.739  12.807  1.00  0.00              
ATOM    129  CA  PHE   129      45.682 -11.380  14.322  1.00  0.00              
ATOM    130  CA  ASP   130      45.204 -15.046  13.376  1.00  0.00              
ATOM    131  CA  GLU   131      44.078 -16.483  16.654  1.00  0.00              
ATOM    132  CA  GLN   132      46.020 -19.691  16.303  1.00  0.00              
ATOM    133  CA  THR   133      49.393 -18.059  15.417  1.00  0.00              
ATOM    134  CA  GLY   134      48.809 -15.532  18.116  1.00  0.00              
ATOM    135  CA  LEU   135      51.672 -16.156  20.430  1.00  0.00              
ATOM    136  CA  PHE   136      53.086 -12.998  21.870  1.00  0.00              
ATOM    137  CA  LEU   137      56.833 -13.066  22.590  1.00  0.00              
ATOM    138  CA  TRP   138      58.794  -9.982  21.648  1.00  0.00              
ATOM    139  CA  LEU   139      62.443 -10.534  22.633  1.00  0.00              
ATOM    140  CA  GLU   140      62.517 -14.109  21.342  1.00  0.00              
ATOM    141  CA  HIS   141      60.853 -13.184  18.044  1.00  0.00              
ATOM    142  CA  HIS   142      63.130 -10.312  17.198  1.00  0.00              
ATOM    143  CA  HIS   143      66.270 -12.031  18.326  1.00  0.00              
ATOM    144  CA  HIS   144      65.374 -15.585  16.861  1.00  0.00              
ATOM    145  CA  HIS   145      68.491 -13.146  18.271  1.00  0.00              
ATOM    146  CA  HIS   146      67.748  -9.332  18.684  1.00  0.00              
TER                                                                             
END
