
#######################################################
#                                                     #
#                        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_3
# Molecule2: number of CA atoms   99 (  800),  selected   99 , name T0285.pdb
# PARAMETERS: T0285TS599_3.T0285.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       1      -       -           -
LGA    Y       2      -       -           -
LGA    L       3      -       -           -
LGA    P       4      -       -           -
LGA    D       5      -       -           -
LGA    D       6      -       -           -
LGA    S       7      -       -           -
LGA    P       8      -       -           -
LGA    A       9      -       -           -
LGA    K      10      -       -           -
LGA    R      11      -       -           -
LGA    L      12      -       -           -
LGA    L      13      -       -           -
LGA    F      14      -       -           -
LGA    Q      15      -       -           -
LGA    M      16      -       -           -
LGA    V      17      -       -           -
LGA    G      18      -       -           -
LGA    N      19      -       -           -
LGA    A      20      -       -           -
LGA    I      21      -       -           -
LGA    N      22      -       -           -
LGA    R      23      -       -           -
LGA    N      24      -       -           -
LGA    T      25      -       -           -
LGA    Q      26      -       -           -
LGA    Q      27      -       -           -
LGA    L      28      S       7           #
LGA    T      29      P       8          2.746
LGA    Q      30      A       9           #
LGA    D      31      K      10           #
LGA    L      32      R      11          3.110
LGA    R      33      L      12           -
LGA    A      34      -       -           -
LGA    M      35      -       -           -
LGA    P      36      -       -           -
LGA    N      37      -       -           -
LGA    W      38      -       -           -
LGA    S      39      -       -           -
LGA    L      40      L      13          3.827
LGA    R      41      F      14          3.822
LGA    -       -      Q      15           -
LGA    -       -      M      16           -
LGA    F      42      V      17          3.964
LGA    V      43      G      18           -
LGA    -       -      N      19           -
LGA    Y      44      A      20           #
LGA    I      45      I      21           -
LGA    -       -      N      22           -
LGA    -       -      R      23           -
LGA    -       -      N      24           -
LGA    V      46      T      25           #
LGA    D      47      -       -           -
LGA    R      48      -       -           -
LGA    N      49      Q      26           #
LGA    N      50      Q      27           #
LGA    Q      51      L      28           #
LGA    D      52      T      29          4.152
LGA    L      53      Q      30          2.915
LGA    L      54      D      31          5.323
LGA    K      55      L      32          2.073
LGA    -       -      R      33           -
LGA    R      56      A      34           #
LGA    P      57      M      35           -
LGA    L      58      P      36           -
LGA    P      59      N      37           -
LGA    P      60      W      38           -
LGA    G      61      S      39           -
LGA    I      62      L      40           -
LGA    -       -      R      41           -
LGA    -       -      F      42           -
LGA    -       -      V      43           -
LGA    M      63      Y      44           #
LGA    V      64      I      45           #
LGA    L      65      V      46          3.499
LGA    A      66      D      47          1.249
LGA    P      67      R      48          2.881
LGA    -       -      N      49           -
LGA    -       -      N      50           -
LGA    R      68      Q      51          4.498
LGA    L      69      D      52          3.727
LGA    T      70      L      53           #
LGA    A      71      L      54          5.341
LGA    K      72      K      55          3.849
LGA    H      73      R      56          1.768
LGA    P      74      P      57          0.669
LGA    Y      75      L      58          3.223
LGA    D      76      -       -           -
LGA    K      77      P      59          4.914
LGA    V      78      P      60          2.305
LGA    Q      79      G      61          3.108
LGA    D      80      I      62          1.246
LGA    R      81      M      63          1.740
LGA    N      82      V      64          3.451
LGA    R      83      L      65          3.246
LGA    K      84      A      66           #
LGA    L      85      P      67          4.654
LGA    Y      86      R      68          2.151
LGA    G      87      L      69          4.870
LGA    R      88      T      70          2.888
LGA    H      89      A      71          2.907
LGA    -       -      K      72           -
LGA    -       -      H      73           -
LGA    -       -      P      74           -
LGA    -       -      Y      75           -
LGA    -       -      D      76           -
LGA    -       -      K      77           -
LGA    -       -      V      78           -
LGA    -       -      Q      79           -
LGA    -       -      D      80           -
LGA    -       -      R      81           -
LGA    -       -      N      82           -
LGA    -       -      R      83           -
LGA    -       -      K      84           -
LGA    -       -      L      85           -
LGA    -       -      Y      86           -
LGA    -       -      G      87           -
LGA    -       -      R      88           -
LGA    I      90      H      89          1.649
LGA    T      91      I      90          2.113
LGA    L      92      T      91          2.707
LGA    N      93      L      92          1.805
LGA    D      94      N      93          3.852
LGA    G      95      -       -           -
LGA    N      96      D      94          4.329
LGA    S      97      G      95          4.224
LGA    V      98      N      96          2.883
LGA    K      99      S      97          1.067
LGA    V     100      V      98          4.385
LGA    V     101      K      99           -
LGA    T     102      V     100           -
LGA    I     103      V     101           -
LGA    S     104      T     102           -
LGA    A     105      I     103           -
LGA    G     106      S     104           -
LGA    R     107      A     105           -
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     41    3.37     9.76     23.948     1.183

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.859486 * X  +   0.273726 * Y  +   0.431693 * Z  +  15.650537
  Y_new =  -0.079914 * X  +  -0.906106 * Y  +   0.415434 * Z  +   2.977469
  Z_new =   0.504875 * X  +   0.322562 * Y  +   0.800659 * Z  +  82.780739 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.382978   -2.758615  [ DEG:    21.9430   -158.0570 ]
  Theta =  -0.529237   -2.612356  [ DEG:   -30.3230   -149.6770 ]
  Phi   =  -3.048881    0.092712  [ DEG:  -174.6880      5.3120 ]
 
# 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_3                                  
REMARK     2: T0285.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0285TS599_3.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   41   3.37    9.76  23.948
REMARK  ---------------------------------------------------------- 
MOLECULE T0285TS599_3
PFRMAT TS                                                                       
TARGET T0285                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  ALA     1      15.251   2.913  96.902  1.00  0.00              
ATOM      2  CA  TYR     2      14.782   0.860  99.928  1.00  0.00              
ATOM      3  CA  LEU     3      17.058  -2.163 101.776  1.00  0.00              
ATOM      4  CA  PRO     4      17.232  -3.379 105.155  1.00  0.00              
ATOM      5  CA  ASP     5      18.098  -0.996 107.933  1.00  0.00              
ATOM      6  CA  ASP     6      20.279  -3.163 110.102  1.00  0.00              
ATOM      7  CA  SER     7      22.388  -5.080 107.651  1.00  0.00              
ATOM      8  CA  PRO     8      25.472  -3.497 106.099  1.00  0.00              
ATOM      9  CA  ALA     9      24.635  -4.481 102.518  1.00  0.00              
ATOM     10  CA  LYS    10      21.110  -3.105 101.981  1.00  0.00              
ATOM     11  CA  ARG    11      22.149   0.225 103.640  1.00  0.00              
ATOM     12  CA  LEU    12      25.434   0.671 101.727  1.00  0.00              
ATOM     13  CA  LEU    13      23.614  -0.130  98.442  1.00  0.00              
ATOM     14  CA  PHE    14      20.823   2.386  99.262  1.00  0.00              
ATOM     15  CA  GLN    15      23.340   5.080 100.086  1.00  0.00              
ATOM     16  CA  MET    16      25.225   4.482  96.808  1.00  0.00              
ATOM     17  CA  VAL    17      22.032   4.522  94.724  1.00  0.00              
ATOM     18  CA  GLY    18      20.827   7.721  96.449  1.00  0.00              
ATOM     19  CA  ASN    19      24.106   9.294  95.394  1.00  0.00              
ATOM     20  CA  ALA    20      23.831   8.083  91.774  1.00  0.00              
ATOM     21  CA  ILE    21      20.221   9.259  91.143  1.00  0.00              
ATOM     22  CA  ASN    22      20.755  12.786  92.425  1.00  0.00              
ATOM     23  CA  ARG    23      23.988  13.148  90.385  1.00  0.00              
ATOM     24  CA  ASN    24      22.364  11.855  87.183  1.00  0.00              
ATOM     25  CA  THR    25      19.410  14.254  87.587  1.00  0.00              
ATOM     26  CA  GLN    26      21.827  17.163  88.064  1.00  0.00              
ATOM     27  CA  GLN    27      23.891  16.257  84.965  1.00  0.00              
ATOM     28  CA  LEU    28      20.712  16.022  82.936  1.00  0.00              
ATOM     29  CA  THR    29      19.513  19.389  84.182  1.00  0.00              
ATOM     30  CA  GLN    30      22.866  20.995  83.314  1.00  0.00              
ATOM     31  CA  ASP    31      22.964  19.476  79.846  1.00  0.00              
ATOM     32  CA  LEU    32      19.371  20.578  79.022  1.00  0.00              
ATOM     33  CA  ARG    33      20.130  24.093  80.124  1.00  0.00              
ATOM     34  CA  ALA    34      23.160  24.116  77.838  1.00  0.00              
ATOM     35  CA  MET    35      21.230  23.167  74.715  1.00  0.00              
ATOM     36  CA  PRO    36      18.805  26.112  74.680  1.00  0.00              
ATOM     37  CA  ASN    37      15.585  24.247  73.943  1.00  0.00              
ATOM     38  CA  TRP    38      16.953  20.705  74.395  1.00  0.00              
ATOM     39  CA  SER    39      15.405  18.491  76.989  1.00  0.00              
ATOM     40  CA  LEU    40      17.911  15.596  77.290  1.00  0.00              
ATOM     41  CA  ARG    41      16.856  12.635  79.491  1.00  0.00              
ATOM     42  CA  PHE    42      18.136   9.396  78.084  1.00  0.00              
ATOM     43  CA  VAL    43      19.049   6.149  79.681  1.00  0.00              
ATOM     44  CA  TYR    44      20.586   3.390  77.550  1.00  0.00              
ATOM     45  CA  ILE    45      20.498  -0.185  78.729  1.00  0.00              
ATOM     46  CA  VAL    46      23.098  -2.380  77.422  1.00  0.00              
ATOM     47  CA  ASP    47      24.192  -5.849  77.261  1.00  0.00              
ATOM     48  CA  ARG    48      27.819  -6.793  78.092  1.00  0.00              
ATOM     49  CA  ASN    49      29.267  -6.754  74.583  1.00  0.00              
ATOM     50  CA  ASN    50      27.344  -3.742  73.243  1.00  0.00              
ATOM     51  CA  GLN    51      28.049  -1.161  75.971  1.00  0.00              
ATOM     52  CA  ASP    52      29.968   1.023  73.596  1.00  0.00              
ATOM     53  CA  LEU    53      27.284   1.203  70.963  1.00  0.00              
ATOM     54  CA  LEU    54      24.536   2.161  73.470  1.00  0.00              
ATOM     55  CA  LYS    55      26.642   4.847  75.069  1.00  0.00              
ATOM     56  CA  ARG    56      28.049   6.387  71.962  1.00  0.00              
ATOM     57  CA  PRO    57      24.920   6.965  69.939  1.00  0.00              
ATOM     58  CA  LEU    58      22.408   8.169  72.476  1.00  0.00              
ATOM     59  CA  PRO    59      20.456  11.233  71.267  1.00  0.00              
ATOM     60  CA  PRO    60      19.912  13.381  74.299  1.00  0.00              
ATOM     61  CA  GLY    61      16.180  13.044  74.512  1.00  0.00              
ATOM     62  CA  ILE    62      15.746   9.351  73.641  1.00  0.00              
ATOM     63  CA  MET    63      15.675   6.540  76.230  1.00  0.00              
ATOM     64  CA  VAL    64      16.314   3.030  75.176  1.00  0.00              
ATOM     65  CA  LEU    65      15.570   0.268  77.619  1.00  0.00              
ATOM     66  CA  ALA    66      16.712  -3.246  76.878  1.00  0.00              
ATOM     67  CA  PRO    67      15.339  -6.385  78.572  1.00  0.00              
ATOM     68  CA  ARG    68      18.862  -7.851  78.778  1.00  0.00              
ATOM     69  CA  LEU    69      21.199  -5.185  80.075  1.00  0.00              
ATOM     70  CA  THR    70      23.036  -6.915  82.904  1.00  0.00              
ATOM     71  CA  ALA    71      26.787  -6.898  83.218  1.00  0.00              
ATOM     72  CA  LYS    72      27.153  -3.877  85.415  1.00  0.00              
ATOM     73  CA  HIS    73      23.560  -2.522  85.556  1.00  0.00              
ATOM     74  CA  PRO    74      22.711  -3.307  89.185  1.00  0.00              
ATOM     75  CA  TYR    75      22.727   0.335  90.347  1.00  0.00              
ATOM     76  CA  ASP    76      20.519   1.537  87.563  1.00  0.00              
ATOM     77  CA  LYS    77      17.846  -1.137  88.255  1.00  0.00              
ATOM     78  CA  VAL    78      17.489   0.075  91.842  1.00  0.00              
ATOM     79  CA  GLN    79      17.120   3.698  90.632  1.00  0.00              
ATOM     80  CA  ASP    80      14.437   2.903  88.061  1.00  0.00              
ATOM     81  CA  ARG    81      12.248   0.984  90.523  1.00  0.00              
ATOM     82  CA  ASN    82      12.259   3.795  93.098  1.00  0.00              
ATOM     83  CA  ARG    83      10.921   6.278  90.497  1.00  0.00              
ATOM     84  CA  LYS    84       8.188   4.138  89.066  1.00  0.00              
ATOM     85  CA  LEU    85       6.931   5.074  85.591  1.00  0.00              
ATOM     86  CA  TYR    86       4.610   2.257  84.415  1.00  0.00              
ATOM     87  CA  GLY    87       3.002   3.933  81.389  1.00  0.00              
ATOM     88  CA  ARG    88       6.072   5.703  80.131  1.00  0.00              
ATOM     89  CA  HIS    89       6.973   5.016  76.579  1.00  0.00              
ATOM     90  CA  ILE    90      10.576   5.171  75.477  1.00  0.00              
ATOM     91  CA  THR    91      11.497   4.462  71.862  1.00  0.00              
ATOM     92  CA  LEU    92      15.009   4.539  70.676  1.00  0.00              
ATOM     93  CA  ASN    93      15.670   4.026  67.129  1.00  0.00              
ATOM     94  CA  ASP    94      18.838   5.507  65.575  1.00  0.00              
ATOM     95  CA  GLY    95      20.447   2.284  64.321  1.00  0.00              
ATOM     96  CA  ASN    96      20.236   0.407  67.579  1.00  0.00              
ATOM     97  CA  SER    97      16.829  -0.807  68.532  1.00  0.00              
ATOM     98  CA  VAL    98      15.616  -0.130  72.026  1.00  0.00              
ATOM     99  CA  LYS    99      11.993  -0.343  72.773  1.00  0.00              
ATOM    100  CA  VAL   100      10.818   0.192  76.299  1.00  0.00              
ATOM    101  CA  VAL   101       7.190  -0.078  77.173  1.00  0.00              
ATOM    102  CA  THR   102       5.996   0.809  80.652  1.00  0.00              
ATOM    103  CA  ILE   103       2.906  -0.763  81.845  1.00  0.00              
ATOM    104  CA  SER   104       0.236   0.257  84.144  1.00  0.00              
ATOM    105  CA  ALA   105      -1.500  -2.116  86.486  1.00  0.00              
ATOM    106  CA  GLY   106      -5.217  -1.452  85.720  1.00  0.00              
ATOM    107  CA  ARG   107      -6.729  -4.741  86.718  1.00  0.00              
ATOM    108  CA  ASP   108      -7.824  -6.068  83.324  1.00  0.00              
ATOM    109  CA  GLU   109      -8.036  -9.781  83.806  1.00  0.00              
ATOM    110  CA  GLY   110      -7.247 -11.409  80.527  1.00  0.00              
ATOM    111  CA  PRO   111      -4.774 -11.452  77.723  1.00  0.00              
ATOM    112  CA  ASP   112      -5.123  -8.065  75.954  1.00  0.00              
ATOM    113  CA  ARG   113      -5.505  -6.024  79.123  1.00  0.00              
ATOM    114  CA  ASP   114      -3.199  -3.108  78.611  1.00  0.00              
ATOM    115  CA  ILE   115      -0.386  -3.204  81.268  1.00  0.00              
ATOM    116  CA  ILE   116       0.163  -6.912  80.322  1.00  0.00              
ATOM    117  CA  TRP   117       0.112  -6.923  76.473  1.00  0.00              
ATOM    118  CA  GLU   118       2.439  -3.902  76.440  1.00  0.00              
ATOM    119  CA  MET   119       4.985  -5.466  78.759  1.00  0.00              
ATOM    120  CA  PHE   120       5.088  -8.676  76.717  1.00  0.00              
ATOM    121  CA  LEU   121       5.552  -6.825  73.410  1.00  0.00              
ATOM    122  CA  GLU   122       8.371  -4.690  74.679  1.00  0.00              
ATOM    123  CA  ASN   123      10.172  -8.212  76.111  1.00  0.00              
ATOM    124  CA  LEU   124      10.227  -4.555  75.071  1.00  0.00              
ATOM    125  CA  GLU   125      10.889  -8.422  76.009  1.00  0.00              
TER                                                                             
END
