
#######################################################
#                                                     #
#                        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  123 (  123),  selected  123 , name T0307TS599_5-D1
# Molecule2: number of CA atoms  123 (  939),  selected  123 , name T0307_D1.pdb
# PARAMETERS: T0307TS599_5-D1.T0307_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      I      10           -
LGA    -       -      M      11           -
LGA    -       -      T      12           -
LGA    -       -      F      13           -
LGA    -       -      S      14           -
LGA    -       -      G      15           -
LGA    -       -      Q      16           -
LGA    I      10      E      17          2.818
LGA    M      11      L      18          2.637
LGA    -       -      T      19           -
LGA    T      12      A      20          1.682
LGA    F      13      I      21           #
LGA    S      14      I      22           -
LGA    G      15      -       -           -
LGA    Q      16      -       -           -
LGA    E      17      K      23           #
LGA    L      18      M      24          3.985
LGA    T      19      A      25           -
LGA    A      20      K      26           #
LGA    I      21      S      27          2.357
LGA    I      22      M      28           #
LGA    K      23      -       -           -
LGA    M      24      V      29          1.296
LGA    A      25      M      30          5.594
LGA    -       -      A      31           -
LGA    -       -      D      32           -
LGA    -       -      G      33           -
LGA    K      26      K      34          5.151
LGA    S      27      I      35          2.686
LGA    M      28      K      36          2.203
LGA    V      29      P      37          2.053
LGA    M      30      A      38          2.659
LGA    A      31      E      39           -
LGA    D      32      I      40           -
LGA    G      33      A      41          3.081
LGA    K      34      V      42          2.563
LGA    I      35      M      43          3.132
LGA    K      36      T      44          4.069
LGA    P      37      R      45           -
LGA    -       -      E      46           -
LGA    -       -      F      47           -
LGA    -       -      M      48           -
LGA    -       -      R      49           -
LGA    -       -      F      50           -
LGA    -       -      G      51           -
LGA    -       -      I      52           -
LGA    -       -      L      53           -
LGA    -       -      Q      54           -
LGA    -       -      D      55           -
LGA    -       -      Q      56           -
LGA    -       -      V      57           -
LGA    -       -      D      58           -
LGA    -       -      L      59           -
LGA    -       -      L      60           -
LGA    A      38      L      61          3.662
LGA    E      39      K      62           -
LGA    -       -      A      63           -
LGA    I      40      S      64           #
LGA    -       -      D      65           -
LGA    -       -      S      66           -
LGA    -       -      I      67           -
LGA    -       -      E      68           -
LGA    -       -      A      69           -
LGA    A      41      S      70           #
LGA    -       -      Q      71           -
LGA    -       -      A      72           -
LGA    V      42      V      73          6.097
LGA    -       -      A      74           -
LGA    M      43      L      75          3.888
LGA    T      44      I      76          3.870
LGA    R      45      A      77          4.166
LGA    E      46      R      78          3.746
LGA    F      47      M      79          2.539
LGA    M      48      -       -           -
LGA    R      49      -       -           -
LGA    F      50      -       -           -
LGA    G      51      -       -           -
LGA    I      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      D      80          0.355
LGA    D      55      E      81          0.796
LGA    Q      56      E      82          0.460
LGA    V      57      R      83          1.464
LGA    D      58      K      84          1.479
LGA    L      59      K      85          1.241
LGA    L      60      Y      86          1.261
LGA    L      61      V      87          1.305
LGA    K      62      A      88          1.397
LGA    A      63      S      89          1.463
LGA    S      64      Y      90          0.985
LGA    D      65      L      91          0.849
LGA    S      66      G      92          0.911
LGA    I      67      V      93          0.752
LGA    E      68      I      94          0.692
LGA    A      69      M      95          0.372
LGA    S      70      A      96          0.572
LGA    Q      71      S      97          3.705
LGA    A      72      -       -           -
LGA    V      73      -       -           -
LGA    A      74      D      98           #
LGA    L      75      G      99           -
LGA    I      76      D     100           -
LGA    A      77      I     101           -
LGA    R      78      D     102           -
LGA    M      79      D     103           -
LGA    D      80      N     104           -
LGA    E      81      E     105           -
LGA    E      82      L     106           -
LGA    R      83      A     107           -
LGA    K      84      L     108           -
LGA    K      85      W     109           -
LGA    Y      86      T     110           -
LGA    V      87      L     111           -
LGA    A      88      I     112           -
LGA    S      89      S     113           -
LGA    Y      90      T     114           -
LGA    L      91      L     115           -
LGA    G      92      C     116           -
LGA    V      93      G     117           -
LGA    I      94      L     118           -
LGA    M      95      P     119           -
LGA    A      96      T     120           -
LGA    S      97      M     121           -
LGA    D      98      T     122           -
LGA    G      99      V     123           -
LGA    D     100      M     124           -
LGA    I     101      E     125           -
LGA    D     102      A     126           -
LGA    D     103      I     127           -
LGA    N     104      N     128           -
LGA    E     105      N     129           -
LGA    L     106      M     130           -
LGA    A     107      K     131           -
LGA    L     108      N     132           -
LGA    W     109      -       -           -
LGA    T     110      -       -           -
LGA    L     111      -       -           -
LGA    I     112      -       -           -
LGA    S     113      -       -           -
LGA    T     114      -       -           -
LGA    L     115      -       -           -
LGA    C     116      -       -           -
LGA    G     117      -       -           -
LGA    L     118      -       -           -
LGA    P     119      -       -           -
LGA    T     120      -       -           -
LGA    M     121      -       -           -
LGA    T     122      -       -           -
LGA    V     123      -       -           -
LGA    M     124      -       -           -
LGA    E     125      -       -           -
LGA    A     126      -       -           -
LGA    I     127      -       -           -
LGA    N     128      -       -           -
LGA    N     129      -       -           -
LGA    M     130      -       -           -
LGA    K     131      -       -           -
LGA    N     132      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  123  123    5.0     41    2.77     4.88     23.233     1.428

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.332436 * X  +   0.940579 * Y  +   0.069260 * Z  +  22.777107
  Y_new =   0.936790 * X  +  -0.337810 * Y  +   0.091156 * Z  +  18.137899
  Z_new =   0.109137 * X  +   0.034578 * Y  +  -0.993425 * Z  +  15.739641 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.106800   -0.034793  [ DEG:   178.0065     -1.9935 ]
  Theta =  -0.109354   -3.032238  [ DEG:    -6.2655   -173.7345 ]
  Phi   =   1.229792   -1.911801  [ DEG:    70.4619   -109.5381 ]
 
# 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: T0307TS599_5-D1                               
REMARK     2: T0307_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS599_5-D1.T0307_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  123  123   5.0   41   2.77    4.88  23.233
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS599_5-D1
PFRMAT TS                                                                       
TARGET T0307                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM     10  CA  ILE    10      19.127  12.258  37.247  1.00  0.00              
ATOM     11  CA  MET    11      21.892  11.815  34.790  1.00  0.00              
ATOM     12  CA  THR    12      24.082   8.728  35.556  1.00  0.00              
ATOM     13  CA  PHE    13      27.423   8.503  33.747  1.00  0.00              
ATOM     14  CA  SER    14      29.131   5.145  34.432  1.00  0.00              
ATOM     15  CA  GLY    15      32.248   4.974  32.320  1.00  0.00              
ATOM     16  CA  GLN    16      30.988   2.481  29.756  1.00  0.00              
ATOM     17  CA  GLU    17      27.497   3.886  29.386  1.00  0.00              
ATOM     18  CA  LEU    18      28.177   7.565  28.830  1.00  0.00              
ATOM     19  CA  THR    19      30.907   6.722  26.337  1.00  0.00              
ATOM     20  CA  ALA    20      28.473   4.500  24.408  1.00  0.00              
ATOM     21  CA  ILE    21      25.893   7.279  24.315  1.00  0.00              
ATOM     22  CA  ILE    22      28.450   9.768  23.042  1.00  0.00              
ATOM     23  CA  LYS    23      29.509   7.339  20.303  1.00  0.00              
ATOM     24  CA  MET    24      25.842   6.973  19.311  1.00  0.00              
ATOM     25  CA  ALA    25      25.304  10.741  19.153  1.00  0.00              
ATOM     26  CA  LYS    26      28.385  11.207  17.005  1.00  0.00              
ATOM     27  CA  SER    27      27.500   8.478  14.438  1.00  0.00              
ATOM     28  CA  MET    28      24.005  10.068  14.081  1.00  0.00              
ATOM     29  CA  VAL    29      25.062  13.719  13.602  1.00  0.00              
ATOM     30  CA  MET    30      23.039  16.507  15.119  1.00  0.00              
ATOM     31  CA  ALA    31      22.848  19.873  13.216  1.00  0.00              
ATOM     32  CA  ASP    32      19.751  21.461  14.792  1.00  0.00              
ATOM     33  CA  GLY    33      21.156  20.853  18.318  1.00  0.00              
ATOM     34  CA  LYS    34      19.109  17.831  19.192  1.00  0.00              
ATOM     35  CA  ILE    35      21.873  15.486  20.454  1.00  0.00              
ATOM     36  CA  LYS    36      24.410  16.767  22.901  1.00  0.00              
ATOM     37  CA  PRO    37      27.710  15.192  23.713  1.00  0.00              
ATOM     38  CA  ALA    38      26.863  15.113  27.489  1.00  0.00              
ATOM     39  CA  GLU    39      23.724  13.079  27.290  1.00  0.00              
ATOM     40  CA  ILE    40      23.452  11.404  30.635  1.00  0.00              
ATOM     41  CA  ALA    41      22.709   7.771  31.701  1.00  0.00              
ATOM     42  CA  VAL    42      20.285   7.138  34.628  1.00  0.00              
ATOM     43  CA  MET    43      20.691   4.307  37.004  1.00  0.00              
ATOM     44  CA  THR    44      17.739   2.848  38.793  1.00  0.00              
ATOM     45  CA  ARG    45      19.279   2.395  42.275  1.00  0.00              
ATOM     46  CA  GLU    46      20.629   5.939  42.296  1.00  0.00              
ATOM     47  CA  PHE    47      17.305   7.309  41.087  1.00  0.00              
ATOM     48  CA  MET    48      15.289   5.345  43.659  1.00  0.00              
ATOM     49  CA  ARG    49      17.704   6.673  46.288  1.00  0.00              
ATOM     50  CA  PHE    50      17.012  10.277  45.376  1.00  0.00              
ATOM     51  CA  GLY    51      13.268   9.600  45.578  1.00  0.00              
ATOM     52  CA  ILE    52      12.052  10.422  42.089  1.00  0.00              
ATOM     53  CA  LEU    53       9.685   7.471  41.850  1.00  0.00              
ATOM     54  CA  GLN    54      11.911   4.498  41.292  1.00  0.00              
ATOM     55  CA  ASP    55       9.635   2.970  38.621  1.00  0.00              
ATOM     56  CA  GLN    56       9.102   6.512  37.215  1.00  0.00              
ATOM     57  CA  VAL    57      12.873   6.974  36.758  1.00  0.00              
ATOM     58  CA  ASP    58      14.072   3.729  35.163  1.00  0.00              
ATOM     59  CA  LEU    59      11.168   4.138  32.731  1.00  0.00              
ATOM     60  CA  LEU    60      11.991   7.742  31.837  1.00  0.00              
ATOM     61  CA  LEU    61      15.647   6.869  31.201  1.00  0.00              
ATOM     62  CA  LYS    62      14.944   3.895  28.924  1.00  0.00              
ATOM     63  CA  ALA    63      12.391   5.940  26.950  1.00  0.00              
ATOM     64  CA  SER    64      14.730   8.896  26.460  1.00  0.00              
ATOM     65  CA  ASP    65      17.355   6.830  24.628  1.00  0.00              
ATOM     66  CA  SER    66      14.762   5.331  22.230  1.00  0.00              
ATOM     67  CA  ILE    67      13.165   8.640  21.250  1.00  0.00              
ATOM     68  CA  GLU    68      16.651  10.146  20.733  1.00  0.00              
ATOM     69  CA  ALA    69      17.732   7.626  18.141  1.00  0.00              
ATOM     70  CA  SER    70      14.673   7.943  15.938  1.00  0.00              
ATOM     71  CA  GLN    71      14.725  11.778  15.956  1.00  0.00              
ATOM     72  CA  ALA    72      18.367  11.992  15.076  1.00  0.00              
ATOM     73  CA  VAL    73      18.640   9.945  11.921  1.00  0.00              
ATOM     74  CA  ALA    74      15.593  11.901  10.572  1.00  0.00              
ATOM     75  CA  LEU    75      17.059  15.284  11.474  1.00  0.00              
ATOM     76  CA  ILE    76      20.469  14.632   9.829  1.00  0.00              
ATOM     77  CA  ALA    77      18.780  13.612   6.651  1.00  0.00              
ATOM     78  CA  ARG    78      16.593  16.749   6.579  1.00  0.00              
ATOM     79  CA  MET    79      19.456  19.184   7.228  1.00  0.00              
ATOM     80  CA  ASP    80      21.521  17.583   4.457  1.00  0.00              
ATOM     81  CA  GLU    81      18.655  17.725   1.904  1.00  0.00              
ATOM     82  CA  GLU    82      18.026  21.411   2.703  1.00  0.00              
ATOM     83  CA  ARG    83      21.746  22.142   2.255  1.00  0.00              
ATOM     84  CA  LYS    84      21.785  20.296  -1.085  1.00  0.00              
ATOM     85  CA  LYS    85      18.812  22.339  -2.321  1.00  0.00              
ATOM     86  CA  TYR    86      20.409  25.667  -1.319  1.00  0.00              
ATOM     87  CA  VAL    87      23.608  24.595  -3.109  1.00  0.00              
ATOM     88  CA  ALA    88      21.944  23.561  -6.354  1.00  0.00              
ATOM     89  CA  SER    89      20.070  26.925  -6.493  1.00  0.00              
ATOM     90  CA  TYR    90      23.213  28.899  -5.758  1.00  0.00              
ATOM     91  CA  LEU    91      25.275  27.122  -8.431  1.00  0.00              
ATOM     92  CA  GLY    92      22.603  27.786 -11.044  1.00  0.00              
ATOM     93  CA  VAL    93      22.829  31.529 -10.185  1.00  0.00              
ATOM     94  CA  ILE    94      26.506  32.015  -9.775  1.00  0.00              
ATOM     95  CA  MET    95      27.529  34.665  -7.194  1.00  0.00              
ATOM     96  CA  ALA    96      31.019  36.029  -6.998  1.00  0.00              
ATOM     97  CA  SER    97      31.660  39.361  -5.238  1.00  0.00              
ATOM     98  CA  ASP    98      32.581  41.685  -8.122  1.00  0.00              
ATOM     99  CA  GLY    99      29.579  40.658 -10.210  1.00  0.00              
ATOM    100  CA  ASP   100      31.458  39.078 -13.137  1.00  0.00              
ATOM    101  CA  ILE   101      29.998  35.628 -13.090  1.00  0.00              
ATOM    102  CA  ASP   102      28.273  34.140 -16.060  1.00  0.00              
ATOM    103  CA  ASP   103      24.719  33.011 -15.444  1.00  0.00              
ATOM    104  CA  ASN   104      25.587  29.292 -14.994  1.00  0.00              
ATOM    105  CA  GLU   105      28.729  29.714 -12.971  1.00  0.00              
ATOM    106  CA  LEU   106      30.593  30.921 -10.066  1.00  0.00              
ATOM    107  CA  ALA   107      29.714  31.045  -6.408  1.00  0.00              
ATOM    108  CA  LEU   108      32.086  32.927  -4.092  1.00  0.00              
ATOM    109  CA  TRP   109      31.447  31.407  -0.651  1.00  0.00              
ATOM    110  CA  THR   110      31.229  27.972  -2.368  1.00  0.00              
ATOM    111  CA  LEU   111      34.708  28.338  -3.759  1.00  0.00              
ATOM    112  CA  ILE   112      36.110  29.475  -0.389  1.00  0.00              
ATOM    113  CA  SER   113      34.320  26.673   1.521  1.00  0.00              
ATOM    114  CA  THR   114      35.768  24.065  -0.782  1.00  0.00              
ATOM    115  CA  LEU   115      39.290  25.397  -0.416  1.00  0.00              
ATOM    116  CA  CYS   116      38.964  25.842   3.379  1.00  0.00              
ATOM    117  CA  GLY   117      37.110  22.661   4.105  1.00  0.00              
ATOM    118  CA  LEU   118      33.867  24.447   5.148  1.00  0.00              
ATOM    119  CA  PRO   119      30.683  22.620   4.377  1.00  0.00              
ATOM    120  CA  THR   120      28.942  23.901   1.211  1.00  0.00              
ATOM    121  CA  MET   121      25.514  24.337   2.730  1.00  0.00              
ATOM    122  CA  THR   122      26.781  26.500   5.644  1.00  0.00              
ATOM    123  CA  VAL   123      28.675  28.735   3.224  1.00  0.00              
ATOM    124  CA  MET   124      25.750  29.074   0.761  1.00  0.00              
ATOM    125  CA  GLU   125      23.398  30.092   3.603  1.00  0.00              
ATOM    126  CA  ALA   126      25.943  32.651   4.732  1.00  0.00              
ATOM    127  CA  ILE   127      26.261  34.074   1.196  1.00  0.00              
ATOM    128  CA  ASN   128      22.471  34.356   0.878  1.00  0.00              
ATOM    129  CA  ASN   129      22.182  36.102   4.178  1.00  0.00              
ATOM    130  CA  MET   130      24.840  38.745   3.293  1.00  0.00              
ATOM    131  CA  LYS   131      22.694  39.359  -0.295  1.00  0.00              
ATOM    132  CA  ASN   132      24.494  40.434   2.607  1.00  0.00              
TER                                                                             
END
