
#######################################################
#                                                     #
#                        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  125 (  125),  selected  125 , name T0285TS599_1
# Molecule2: number of CA atoms   99 (  800),  selected   99 , name T0285.pdb
# PARAMETERS: T0285TS599_1.T0285.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       1      S       7           -
LGA    Y       2      P       8           -
LGA    L       3      A       9           -
LGA    P       4      K      10           -
LGA    D       5      R      11           -
LGA    D       6      L      12           -
LGA    S       7      L      13           -
LGA    P       8      F      14           -
LGA    A       9      Q      15           -
LGA    K      10      M      16           -
LGA    R      11      V      17           -
LGA    L      12      G      18           -
LGA    L      13      N      19           -
LGA    F      14      A      20           -
LGA    -       -      I      21           -
LGA    -       -      N      22           -
LGA    Q      15      R      23           #
LGA    M      16      N      24          1.804
LGA    V      17      T      25          1.994
LGA    G      18      Q      26          2.113
LGA    N      19      Q      27          1.430
LGA    A      20      L      28          0.745
LGA    I      21      T      29          1.603
LGA    N      22      Q      30          0.978
LGA    R      23      D      31          0.701
LGA    N      24      L      32          1.563
LGA    T      25      R      33          1.750
LGA    Q      26      A      34          1.258
LGA    Q      27      M      35          2.725
LGA    L      28      P      36          2.949
LGA    T      29      -       -           -
LGA    Q      30      -       -           -
LGA    D      31      -       -           -
LGA    L      32      N      37           #
LGA    R      33      -       -           -
LGA    A      34      -       -           -
LGA    M      35      -       -           -
LGA    P      36      -       -           -
LGA    N      37      -       -           -
LGA    W      38      W      38          3.695
LGA    S      39      S      39          5.072
LGA    L      40      L      40          3.027
LGA    R      41      R      41          1.138
LGA    -       -      F      42           -
LGA    F      42      V      43          3.425
LGA    V      43      Y      44          1.676
LGA    Y      44      I      45          2.398
LGA    I      45      V      46          2.069
LGA    V      46      D      47          2.885
LGA    D      47      R      48          4.247
LGA    R      48      -       -           -
LGA    N      49      -       -           -
LGA    N      50      -       -           -
LGA    Q      51      N      49          1.987
LGA    D      52      N      50           -
LGA    L      53      -       -           -
LGA    L      54      -       -           -
LGA    K      55      Q      51          4.642
LGA    R      56      D      52           -
LGA    P      57      L      53          4.998
LGA    L      58      L      54          3.567
LGA    P      59      K      55          0.796
LGA    P      60      R      56          2.699
LGA    G      61      P      57          3.904
LGA    I      62      -       -           -
LGA    M      63      L      58          4.767
LGA    V      64      P      59           -
LGA    -       -      P      60           -
LGA    -       -      G      61           -
LGA    -       -      I      62           -
LGA    -       -      M      63           -
LGA    -       -      V      64           -
LGA    -       -      L      65           -
LGA    L      65      A      66          4.170
LGA    A      66      P      67          4.324
LGA    P      67      -       -           -
LGA    R      68      R      68           #
LGA    L      69      L      69          4.092
LGA    T      70      T      70          1.513
LGA    -       -      A      71           -
LGA    -       -      K      72           -
LGA    A      71      H      73          4.226
LGA    K      72      P      74          3.310
LGA    H      73      Y      75           #
LGA    P      74      -       -           -
LGA    Y      75      -       -           -
LGA    D      76      D      76          1.822
LGA    K      77      -       -           -
LGA    V      78      K      77          4.473
LGA    Q      79      V      78          2.816
LGA    D      80      Q      79          4.135
LGA    R      81      D      80          4.317
LGA    N      82      R      81           #
LGA    -       -      N      82           -
LGA    -       -      R      83           -
LGA    R      83      K      84          3.604
LGA    K      84      L      85           #
LGA    L      85      Y      86           #
LGA    Y      86      -       -           -
LGA    G      87      -       -           -
LGA    R      88      -       -           -
LGA    H      89      -       -           -
LGA    I      90      G      87           #
LGA    T      91      R      88           #
LGA    L      92      H      89           #
LGA    N      93      I      90          5.419
LGA    D      94      T      91          4.094
LGA    G      95      L      92          2.264
LGA    -       -      N      93           -
LGA    -       -      D      94           -
LGA    -       -      G      95           -
LGA    -       -      N      96           -
LGA    N      96      S      97          2.237
LGA    S      97      V      98          1.088
LGA    V      98      K      99          2.251
LGA    K      99      V     100          2.539
LGA    V     100      V     101          2.923
LGA    V     101      T     102          4.236
LGA    T     102      I     103          4.517
LGA    I     103      S     104           #
LGA    S     104      A     105           #
LGA    A     105      -       -           -
LGA    G     106      -       -           -
LGA    R     107      -       -           -
LGA    D     108      -       -           -
LGA    E     109      -       -           -
LGA    G     110      -       -           -
LGA    P     111      -       -           -
LGA    D     112      -       -           -
LGA    R     113      -       -           -
LGA    D     114      -       -           -
LGA    I     115      -       -           -
LGA    I     116      -       -           -
LGA    W     117      -       -           -
LGA    E     118      -       -           -
LGA    M     119      -       -           -
LGA    F     120      -       -           -
LGA    L     121      -       -           -
LGA    E     122      -       -           -
LGA    N     123      -       -           -
LGA    L     124      -       -           -
LGA    E     125      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  125   99    5.0     53    3.17    16.98     32.035     1.623

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.227640 * X  +   0.686945 * Y  +  -0.690135 * Z  +  19.531029
  Y_new =  -0.019325 * X  +   0.705416 * Y  +   0.708530 * Z  +   3.216185
  Z_new =   0.973554 * X  +   0.174627 * Y  +  -0.147305 * Z  +  81.627113 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.271531   -0.870062  [ DEG:   130.1491    -49.8509 ]
  Theta =  -1.340302   -1.801291  [ DEG:   -76.7937   -103.2063 ]
  Phi   =  -3.056902    0.084690  [ DEG:  -175.1476      4.8524 ]
 
# 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: T0285TS599_1                                  
REMARK     2: T0285.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0285TS599_1.T0285.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  125   99   5.0   53   3.17   16.98  32.035
REMARK  ---------------------------------------------------------- 
MOLECULE T0285TS599_1
PFRMAT TS                                                                       
TARGET T0285                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  ALA     1      14.388 -15.010  73.616  1.00  0.00              
ATOM      2  CA  TYR     2      13.968 -12.406  70.350  1.00  0.00              
ATOM      3  CA  LEU     3      14.327 -15.577  67.584  1.00  0.00              
ATOM      4  CA  PRO     4      13.467 -16.018  63.468  1.00  0.00              
ATOM      5  CA  ASP     5      16.429 -14.272  61.843  1.00  0.00              
ATOM      6  CA  ASP     6      14.661 -12.116  59.225  1.00  0.00              
ATOM      7  CA  SER     7      12.175 -10.419  61.548  1.00  0.00              
ATOM      8  CA  PRO     8      12.616  -6.618  61.740  1.00  0.00              
ATOM      9  CA  ALA     9      12.255  -6.538  65.530  1.00  0.00              
ATOM     10  CA  LYS    10      15.071  -8.808  66.683  1.00  0.00              
ATOM     11  CA  ARG    11      17.581  -7.026  64.424  1.00  0.00              
ATOM     12  CA  LEU    12      16.621  -3.363  64.817  1.00  0.00              
ATOM     13  CA  LEU    13      15.986  -2.983  68.555  1.00  0.00              
ATOM     14  CA  PHE    14      19.018  -5.013  69.461  1.00  0.00              
ATOM     15  CA  GLN    15      21.219  -2.971  67.134  1.00  0.00              
ATOM     16  CA  MET    16      19.987   0.384  68.434  1.00  0.00              
ATOM     17  CA  VAL    17      20.458  -0.597  72.091  1.00  0.00              
ATOM     18  CA  GLY    18      23.879  -2.093  71.437  1.00  0.00              
ATOM     19  CA  ASN    19      25.011   1.097  69.692  1.00  0.00              
ATOM     20  CA  ALA    20      23.682   3.244  72.517  1.00  0.00              
ATOM     21  CA  ILE    21      25.299   1.325  75.419  1.00  0.00              
ATOM     22  CA  ASN    22      28.759   1.400  73.786  1.00  0.00              
ATOM     23  CA  ARG    23      28.408   5.162  73.091  1.00  0.00              
ATOM     24  CA  ASN    24      27.237   6.049  76.571  1.00  0.00              
ATOM     25  CA  THR    25      30.236   4.197  78.024  1.00  0.00              
ATOM     26  CA  GLN    26      32.461   6.491  75.980  1.00  0.00              
ATOM     27  CA  GLN    27      30.779   9.733  77.088  1.00  0.00              
ATOM     28  CA  LEU    28      30.985   8.763  80.734  1.00  0.00              
ATOM     29  CA  THR    29      34.609   7.884  80.371  1.00  0.00              
ATOM     30  CA  GLN    30      35.377  11.195  78.713  1.00  0.00              
ATOM     31  CA  ASP    31      33.566  13.206  81.303  1.00  0.00              
ATOM     32  CA  LEU    32      35.268  11.463  84.249  1.00  0.00              
ATOM     33  CA  ARG    33      38.675  11.998  82.713  1.00  0.00              
ATOM     34  CA  ALA    34      37.901  15.727  82.224  1.00  0.00              
ATOM     35  CA  MET    35      36.528  16.486  85.667  1.00  0.00              
ATOM     36  CA  PRO    36      39.203  14.867  87.865  1.00  0.00              
ATOM     37  CA  ASN    37      36.889  13.377  90.499  1.00  0.00              
ATOM     38  CA  TRP    38      33.902  12.666  88.339  1.00  0.00              
ATOM     39  CA  SER    39      31.791   9.669  89.155  1.00  0.00              
ATOM     40  CA  LEU    40      29.399   8.534  86.524  1.00  0.00              
ATOM     41  CA  ARG    41      26.566   6.378  87.283  1.00  0.00              
ATOM     42  CA  PHE    42      24.850   4.667  84.344  1.00  0.00              
ATOM     43  CA  VAL    43      21.455   3.291  84.616  1.00  0.00              
ATOM     44  CA  TYR    44      19.834   1.316  81.786  1.00  0.00              
ATOM     45  CA  ILE    45      16.098   1.064  81.647  1.00  0.00              
ATOM     46  CA  VAL    46      14.463  -1.836  79.934  1.00  0.00              
ATOM     47  CA  ASP    47      10.709  -2.017  79.517  1.00  0.00              
ATOM     48  CA  ARG    48       8.857  -5.260  79.884  1.00  0.00              
ATOM     49  CA  ASN    49       8.258  -6.071  76.251  1.00  0.00              
ATOM     50  CA  ASN    50      12.078  -5.951  75.538  1.00  0.00              
ATOM     51  CA  GLN    51      13.393  -7.810  78.515  1.00  0.00              
ATOM     52  CA  ASP    52      15.525 -10.441  76.749  1.00  0.00              
ATOM     53  CA  LEU    53      17.390  -8.060  74.514  1.00  0.00              
ATOM     54  CA  LEU    54      18.278  -5.787  77.395  1.00  0.00              
ATOM     55  CA  LYS    55      19.516  -8.625  79.507  1.00  0.00              
ATOM     56  CA  ARG    56      22.028  -9.691  76.825  1.00  0.00              
ATOM     57  CA  PRO    57      24.047  -6.423  76.548  1.00  0.00              
ATOM     58  CA  LEU    58      23.781  -4.873  79.854  1.00  0.00              
ATOM     59  CA  PRO    59      25.065  -4.703  83.259  1.00  0.00              
ATOM     60  CA  PRO    60      25.694  -0.979  83.856  1.00  0.00              
ATOM     61  CA  GLY    61      23.089  -0.453  86.404  1.00  0.00              
ATOM     62  CA  ILE    62      20.139  -2.305  84.794  1.00  0.00              
ATOM     63  CA  MET    63      16.643  -1.483  85.755  1.00  0.00              
ATOM     64  CA  VAL    64      13.711  -3.472  84.485  1.00  0.00              
ATOM     65  CA  LEU    65      10.393  -1.720  84.390  1.00  0.00              
ATOM     66  CA  ALA    66       7.148  -3.526  83.508  1.00  0.00              
ATOM     67  CA  PRO    67       4.025  -3.173  85.633  1.00  0.00              
ATOM     68  CA  ARG    68       2.571   0.028  84.180  1.00  0.00              
ATOM     69  CA  LEU    69       5.785   1.611  82.905  1.00  0.00              
ATOM     70  CA  THR    70       5.094   3.514  79.656  1.00  0.00              
ATOM     71  CA  ALA    71       7.397   6.378  78.810  1.00  0.00              
ATOM     72  CA  LYS    72       5.328   9.238  80.192  1.00  0.00              
ATOM     73  CA  HIS    73       4.010   7.684  83.441  1.00  0.00              
ATOM     74  CA  PRO    74       6.763   5.627  84.941  1.00  0.00              
ATOM     75  CA  TYR    75       9.609   8.080  84.175  1.00  0.00              
ATOM     76  CA  ASP    76       7.518  10.869  85.709  1.00  0.00              
ATOM     77  CA  LYS    77       7.237   9.072  89.075  1.00  0.00              
ATOM     78  CA  VAL    78      10.978   8.492  89.352  1.00  0.00              
ATOM     79  CA  GLN    79      11.719  12.143  88.570  1.00  0.00              
ATOM     80  CA  ASP    80       9.183  13.513  91.103  1.00  0.00              
ATOM     81  CA  ARG    81      10.267  11.485  94.093  1.00  0.00              
ATOM     82  CA  ASN    82      13.924  12.429  94.337  1.00  0.00              
ATOM     83  CA  ARG    83      13.402  15.896  92.849  1.00  0.00              
ATOM     84  CA  LYS    84      16.067  15.823  90.154  1.00  0.00              
ATOM     85  CA  LEU    85      15.129  16.972  86.701  1.00  0.00              
ATOM     86  CA  TYR    86      18.060  19.144  85.753  1.00  0.00              
ATOM     87  CA  GLY    87      20.865  16.968  87.167  1.00  0.00              
ATOM     88  CA  ARG    88      19.981  13.667  85.626  1.00  0.00              
ATOM     89  CA  HIS    89      20.698  13.213  82.032  1.00  0.00              
ATOM     90  CA  ILE    90      18.325  11.101  80.045  1.00  0.00              
ATOM     91  CA  THR    91      19.353   9.504  76.837  1.00  0.00              
ATOM     92  CA  LEU    92      16.720   8.153  74.498  1.00  0.00              
ATOM     93  CA  ASN    93      17.654   5.663  71.942  1.00  0.00              
ATOM     94  CA  ASP    94      15.584   5.521  68.723  1.00  0.00              
ATOM     95  CA  GLY    95      14.000   2.050  69.122  1.00  0.00              
ATOM     96  CA  ASN    96      13.120   2.229  72.760  1.00  0.00              
ATOM     97  CA  SER    97      15.807   1.843  75.342  1.00  0.00              
ATOM     98  CA  VAL    98      16.227   4.509  77.942  1.00  0.00              
ATOM     99  CA  LYS    99      19.487   5.355  79.357  1.00  0.00              
ATOM    100  CA  VAL   100      19.936   7.318  82.433  1.00  0.00              
ATOM    101  CA  VAL   101      23.044   9.083  83.217  1.00  0.00              
ATOM    102  CA  THR   102      23.817  10.208  86.669  1.00  0.00              
ATOM    103  CA  ILE   103      26.820  12.354  87.382  1.00  0.00              
ATOM    104  CA  SER   104      28.227  12.386  90.832  1.00  0.00              
ATOM    105  CA  ALA   105      31.082  14.632  91.850  1.00  0.00              
ATOM    106  CA  GLY   106      33.297  13.045  94.441  1.00  0.00              
ATOM    107  CA  ARG   107      33.387   9.332  93.945  1.00  0.00              
ATOM    108  CA  ASP   108      31.241   8.169  96.898  1.00  0.00              
ATOM    109  CA  GLU   109      30.688   4.506  96.302  1.00  0.00              
ATOM    110  CA  GLY   110      27.403   3.710  97.695  1.00  0.00              
ATOM    111  CA  PRO   111      24.300   3.737  99.631  1.00  0.00              
ATOM    112  CA  ASP   112      22.780   7.115  98.835  1.00  0.00              
ATOM    113  CA  ARG   113      24.189   7.493  95.351  1.00  0.00              
ATOM    114  CA  ASP   114      21.223   8.765  93.396  1.00  0.00              
ATOM    115  CA  ILE   115      21.451   6.293  90.423  1.00  0.00              
ATOM    116  CA  ILE   116      21.317   3.305  92.857  1.00  0.00              
ATOM    117  CA  TRP   117      18.199   4.539  94.692  1.00  0.00              
ATOM    118  CA  GLU   118      16.375   5.171  91.383  1.00  0.00              
ATOM    119  CA  MET   119      17.178   1.763  89.905  1.00  0.00              
ATOM    120  CA  PHE   120      15.928  -0.013  93.046  1.00  0.00              
ATOM    121  CA  LEU   121      12.651   1.948  93.159  1.00  0.00              
ATOM    122  CA  GLU   122      11.849   1.270  89.487  1.00  0.00              
ATOM    123  CA  ASN   123      12.509  -2.530  89.800  1.00  0.00              
ATOM    124  CA  LEU   124       9.409  -1.071  90.889  1.00  0.00              
ATOM    125  CA  GLU   125      12.108  -3.422  90.231  1.00  0.00              
TER                                                                             
END
