
#######################################################
#                                                     #
#                        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  124 (  124),  selected  124 , name T0356TS599_4-D1
# Molecule2: number of CA atoms  124 (  963),  selected  124 , name T0356_D1.pdb
# PARAMETERS: T0356TS599_4-D1.T0356_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N       7      N       7           -
LGA    D       8      D       8           -
LGA    L       9      L       9           -
LGA    -       -      R      10           -
LGA    -       -      D      11           -
LGA    -       -      F      12           -
LGA    R      10      L      13          2.037
LGA    D      11      T      14          2.454
LGA    F      12      L      15           -
LGA    L      13      L      16           #
LGA    T      14      E      17           -
LGA    L      15      Q      18           -
LGA    L      16      Q      19           -
LGA    E      17      G      20           -
LGA    Q      18      E      21           -
LGA    Q      19      L      22           -
LGA    G      20      K      23           -
LGA    E      21      R      24           -
LGA    L      22      I      25           -
LGA    K      23      T      26           -
LGA    R      24      L      27           -
LGA    I      25      P      28           -
LGA    T      26      V      29           -
LGA    L      27      D      30           -
LGA    P      28      P      31           -
LGA    V      29      -       -           -
LGA    D      30      -       -           -
LGA    P      31      -       -           -
LGA    H      32      H      32          4.043
LGA    L      33      L      33          2.422
LGA    E      34      E      34          1.445
LGA    I      35      I      35          1.131
LGA    T      36      T      36          1.190
LGA    E      37      E      37          1.789
LGA    I      38      I      38          1.539
LGA    A      39      A      39          0.633
LGA    D      40      D      40          1.490
LGA    R      41      R      41          2.003
LGA    T      42      T      42          1.530
LGA    L      43      L      43          0.912
LGA    R      44      R      44          0.869
LGA    A      45      A      45          2.590
LGA    G      46      G      46          3.259
LGA    G      47      G      47          4.289
LGA    P      48      P      48           #
LGA    A      49      A      49           #
LGA    L      50      L      50          4.013
LGA    L      51      L      51          2.928
LGA    F      52      F      52          2.612
LGA    E      53      E      53          3.696
LGA    N      54      -       -           -
LGA    P      55      -       -           -
LGA    K      56      -       -           -
LGA    G      57      -       -           -
LGA    Y      58      N      54          3.218
LGA    S      59      P      55          1.275
LGA    M      60      K      56           #
LGA    P      61      G      57           -
LGA    -       -      Y      58           -
LGA    -       -      S      59           -
LGA    -       -      M      60           -
LGA    -       -      P      61           -
LGA    -       -      V      62           -
LGA    V      62      L      63           #
LGA    L      63      C      64          4.430
LGA    C      64      N      65          2.221
LGA    N      65      -       -           -
LGA    L      66      L      66          5.131
LGA    F      67      F      67          2.926
LGA    G      68      G      68          2.839
LGA    T      69      T      69          2.670
LGA    P      70      P      70          3.762
LGA    K      71      K      71          3.450
LGA    R      72      R      72          1.606
LGA    V      73      V      73          1.751
LGA    A      74      A      74          2.113
LGA    M      75      M      75          2.472
LGA    G      76      G      76          1.428
LGA    M      77      M      77          2.405
LGA    G      78      G      78          3.535
LGA    Q      79      -       -           -
LGA    E      80      Q      79          4.146
LGA    D      81      E      80           -
LGA    V      82      D      81           #
LGA    S      83      V      82           -
LGA    -       -      S      83           -
LGA    A      84      A      84          5.634
LGA    L      85      L      85          1.034
LGA    R      86      R      86          3.999
LGA    E      87      E      87           -
LGA    V      88      V      88           -
LGA    G      89      G      89           -
LGA    K      90      K      90           -
LGA    L      91      L      91           -
LGA    L      92      L      92           -
LGA    A      93      A      93           -
LGA    F      94      F      94           -
LGA    -       -      L      95           -
LGA    -       -      K      96           -
LGA    -       -      D     314           -
LGA    -       -      A     315           -
LGA    -       -      I     316           -
LGA    -       -      Y     317           -
LGA    -       -      H     318           -
LGA    -       -      S     319           -
LGA    -       -      T     320           -
LGA    -       -      Y     321           -
LGA    -       -      T     322           -
LGA    -       -      G     323           -
LGA    -       -      R     324           -
LGA    L      95      P     325           #
LGA    K      96      P     326          3.008
LGA    D     314      D     327           -
LGA    A     315      E     328           -
LGA    I     316      P     329           -
LGA    Y     317      A     330           -
LGA    H     318      V     331           -
LGA    S     319      L     332           -
LGA    T     320      G     333           -
LGA    Y     321      V     334           -
LGA    T     322      A     335           -
LGA    G     323      L     336           -
LGA    R     324      N     337           -
LGA    P     325      E     338           -
LGA    P     326      V     339           -
LGA    D     327      F     340           -
LGA    E     328      V     341           -
LGA    P     329      P     342           -
LGA    A     330      I     343           -
LGA    V     331      L     344           -
LGA    L     332      Q     345           -
LGA    G     333      K     346           -
LGA    V     334      Q     347           -
LGA    A     335      -       -           -
LGA    L     336      -       -           -
LGA    N     337      -       -           -
LGA    E     338      -       -           -
LGA    V     339      -       -           -
LGA    F     340      -       -           -
LGA    V     341      -       -           -
LGA    P     342      -       -           -
LGA    I     343      -       -           -
LGA    L     344      -       -           -
LGA    Q     345      -       -           -
LGA    K     346      -       -           -
LGA    Q     347      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  124  124    5.0     44    2.85    81.82     23.109     1.489

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.370802 * X  +   0.758786 * Y  +   0.535490 * Z  +  61.911076
  Y_new =   0.739438 * X  +  -0.107648 * Y  +   0.664563 * Z  +  31.332691
  Z_new =   0.561906 * X  +   0.642383 * Y  +  -0.521159 * Z  +  88.399796 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.252384   -0.889208  [ DEG:   129.0521    -50.9479 ]
  Theta =  -0.596688   -2.544905  [ DEG:   -34.1877   -145.8123 ]
  Phi   =   2.035615   -1.105977  [ DEG:   116.6322    -63.3678 ]
 
# 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: T0356TS599_4-D1                               
REMARK     2: T0356_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_4-D1.T0356_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  124  124   5.0   44   2.85   81.82  23.109
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_4-D1
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      7  CA  ASN     7      65.255  86.250  88.868  1.00  0.00              
ATOM      8  CA  ASP     8      64.483  83.547  91.275  1.00  0.00              
ATOM      9  CA  LEU     9      63.888  80.690  89.022  1.00  0.00              
ATOM     10  CA  ARG    10      66.216  81.343  86.731  1.00  0.00              
ATOM     11  CA  ASP    11      68.476  81.752  88.895  1.00  0.00              
ATOM     12  CA  PHE    12      68.017  78.216  90.055  1.00  0.00              
ATOM     13  CA  LEU    13      68.145  76.713  86.959  1.00  0.00              
ATOM     14  CA  THR    14      71.414  78.382  85.765  1.00  0.00              
ATOM     15  CA  LEU    15      73.526  77.280  89.191  1.00  0.00              
ATOM     16  CA  LEU    16      72.168  73.622  88.903  1.00  0.00              
ATOM     17  CA  GLU    17      73.063  73.571  85.221  1.00  0.00              
ATOM     18  CA  GLN    18      76.824  74.485  85.247  1.00  0.00              
ATOM     19  CA  GLN    19      77.822  72.812  87.699  1.00  0.00              
ATOM     20  CA  GLY    20      76.489  69.575  86.378  1.00  0.00              
ATOM     21  CA  GLU    21      74.566  69.056  89.478  1.00  0.00              
ATOM     22  CA  LEU    22      71.135  69.378  87.907  1.00  0.00              
ATOM     23  CA  LYS    23      71.668  66.196  85.805  1.00  0.00              
ATOM     24  CA  ARG    24      73.507  64.648  88.479  1.00  0.00              
ATOM     25  CA  ILE    25      70.675  64.383  90.839  1.00  0.00              
ATOM     26  CA  THR    26      68.470  62.784  88.209  1.00  0.00              
ATOM     27  CA  LEU    27      70.865  59.907  88.432  1.00  0.00              
ATOM     28  CA  PRO    28      70.111  59.166  92.216  1.00  0.00              
ATOM     29  CA  VAL    29      67.078  58.856  92.193  1.00  0.00              
ATOM     30  CA  ASP    30      64.987  56.513  94.905  1.00  0.00              
ATOM     31  CA  PRO    31      61.632  55.964  93.772  1.00  0.00              
ATOM     32  CA  HIS    32      59.626  56.765  96.804  1.00  0.00              
ATOM     33  CA  LEU    33      61.022  60.380  96.832  1.00  0.00              
ATOM     34  CA  GLU    34      58.892  63.062  97.602  1.00  0.00              
ATOM     35  CA  ILE    35      60.798  65.779  95.021  1.00  0.00              
ATOM     36  CA  THR    36      59.358  63.758  91.881  1.00  0.00              
ATOM     37  CA  GLU    37      55.794  63.327  92.488  1.00  0.00              
ATOM     38  CA  ILE    38      55.476  66.929  93.303  1.00  0.00              
ATOM     39  CA  ALA    39      57.163  68.243  90.431  1.00  0.00              
ATOM     40  CA  ASP    40      55.314  66.527  87.921  1.00  0.00              
ATOM     41  CA  ARG    41      52.171  67.145  89.508  1.00  0.00              
ATOM     42  CA  THR    42      52.210  70.954  89.773  1.00  0.00              
ATOM     43  CA  LEU    43      53.757  71.493  86.258  1.00  0.00              
ATOM     44  CA  ARG    44      51.155  69.405  84.676  1.00  0.00              
ATOM     45  CA  ALA    45      48.236  71.112  85.999  1.00  0.00              
ATOM     46  CA  GLY    46      49.474  74.710  85.602  1.00  0.00              
ATOM     47  CA  GLY    47      50.223  75.856  88.709  1.00  0.00              
ATOM     48  CA  PRO    48      52.187  76.316  91.667  1.00  0.00              
ATOM     49  CA  ALA    49      55.778  75.913  92.039  1.00  0.00              
ATOM     50  CA  LEU    50      58.316  74.166  94.276  1.00  0.00              
ATOM     51  CA  LEU    51      61.698  76.129  94.097  1.00  0.00              
ATOM     52  CA  PHE    52      64.940  73.897  94.854  1.00  0.00              
ATOM     53  CA  GLU    53      68.048  75.338  96.287  1.00  0.00              
ATOM     54  CA  ASN    54      70.839  72.631  96.413  1.00  0.00              
ATOM     55  CA  PRO    55      69.439  69.809  95.143  1.00  0.00              
ATOM     56  CA  LYS    56      71.519  67.192  96.867  1.00  0.00              
ATOM     57  CA  GLY    57      70.944  69.120 100.201  1.00  0.00              
ATOM     58  CA  TYR    58      67.435  69.896 100.301  1.00  0.00              
ATOM     59  CA  SER    59      64.382  68.281 101.285  1.00  0.00              
ATOM     60  CA  MET    60      61.440  69.102  98.892  1.00  0.00              
ATOM     61  CA  PRO    61      62.551  71.248  95.494  1.00  0.00              
ATOM     62  CA  VAL    62      59.086  72.642  93.639  1.00  0.00              
ATOM     63  CA  LEU    63      60.369  72.907  90.029  1.00  0.00              
ATOM     64  CA  CYS    64      58.913  71.819  86.765  1.00  0.00              
ATOM     65  CA  ASN    65      56.537  74.750  85.566  1.00  0.00              
ATOM     66  CA  LEU    66      59.586  76.721  85.701  1.00  0.00              
ATOM     67  CA  PHE    67      62.306  74.604  83.664  1.00  0.00              
ATOM     68  CA  GLY    68      59.427  74.808  81.318  1.00  0.00              
ATOM     69  CA  THR    69      57.626  77.633  80.410  1.00  0.00              
ATOM     70  CA  PRO    70      58.189  79.256  77.080  1.00  0.00              
ATOM     71  CA  LYS    71      60.391  81.947  78.105  1.00  0.00              
ATOM     72  CA  ARG    72      62.662  79.199  79.681  1.00  0.00              
ATOM     73  CA  VAL    73      62.872  77.411  76.653  1.00  0.00              
ATOM     74  CA  ALA    74      64.533  79.639  74.774  1.00  0.00              
ATOM     75  CA  MET    75      66.906  80.234  77.437  1.00  0.00              
ATOM     76  CA  GLY    76      67.840  76.934  77.865  1.00  0.00              
ATOM     77  CA  MET    77      68.669  76.089  74.255  1.00  0.00              
ATOM     78  CA  GLY    78      70.278  79.313  72.894  1.00  0.00              
ATOM     79  CA  GLN    79      68.228  79.575  69.921  1.00  0.00              
ATOM     80  CA  GLU    80      66.855  82.503  68.399  1.00  0.00              
ATOM     81  CA  ASP    81      65.916  81.100  65.332  1.00  0.00              
ATOM     82  CA  VAL    82      62.423  81.496  64.919  1.00  0.00              
ATOM     83  CA  SER    83      62.093  77.980  63.039  1.00  0.00              
ATOM     84  CA  ALA    84      63.803  76.716  65.524  1.00  0.00              
ATOM     85  CA  LEU    85      61.901  77.954  68.524  1.00  0.00              
ATOM     86  CA  ARG    86      59.053  76.983  66.758  1.00  0.00              
ATOM     87  CA  GLU    87      60.120  73.400  66.613  1.00  0.00              
ATOM     88  CA  VAL    88      61.221  73.088  70.055  1.00  0.00              
ATOM     89  CA  GLY    89      58.137  74.138  70.860  1.00  0.00              
ATOM     90  CA  LYS    90      55.946  71.585  69.196  1.00  0.00              
ATOM     91  CA  LEU    91      58.126  69.027  70.508  1.00  0.00              
ATOM     92  CA  LEU    92      57.702  70.136  74.089  1.00  0.00              
ATOM     93  CA  ALA    93      54.077  70.350  73.414  1.00  0.00              
ATOM     94  CA  PHE    94      53.995  66.627  72.677  1.00  0.00              
ATOM     95  CA  LEU    95      56.099  65.471  75.577  1.00  0.00              
ATOM     96  CA  LYS    96      54.291  66.982  78.154  1.00  0.00              
ATOM    314  CA  ASP   314      45.240  17.635  87.781  1.00  0.00              
ATOM    315  CA  ALA   315      48.616  19.113  88.543  1.00  0.00              
ATOM    316  CA  ILE   316      51.340  16.419  89.398  1.00  0.00              
ATOM    317  CA  TYR   317      54.019  17.717  91.075  1.00  0.00              
ATOM    318  CA  HIS   318      57.283  15.673  91.153  1.00  0.00              
ATOM    319  CA  SER   319      60.134  16.413  93.577  1.00  0.00              
ATOM    320  CA  THR   320      63.147  14.549  93.528  1.00  0.00              
ATOM    321  CA  TYR   321      65.999  15.282  95.455  1.00  0.00              
ATOM    322  CA  THR   322      67.750  13.307  97.818  1.00  0.00              
ATOM    323  CA  GLY   323      70.968  14.045  99.348  1.00  0.00              
ATOM    324  CA  ARG   324      73.338  11.588 100.906  1.00  0.00              
ATOM    325  CA  PRO   325      76.666  11.636 100.204  1.00  0.00              
ATOM    326  CA  PRO   326      79.169  12.747  97.666  1.00  0.00              
ATOM    327  CA  ASP   327      79.360  10.821  94.736  1.00  0.00              
ATOM    328  CA  GLU   328      75.612  11.432  93.336  1.00  0.00              
ATOM    329  CA  PRO   329      76.062  15.071  93.390  1.00  0.00              
ATOM    330  CA  ALA   330      74.087  16.226  90.424  1.00  0.00              
ATOM    331  CA  VAL   331      74.609  13.580  87.835  1.00  0.00              
ATOM    332  CA  LEU   332      74.561  10.167  89.039  1.00  0.00              
ATOM    333  CA  GLY   333      71.706  10.480  91.320  1.00  0.00              
ATOM    334  CA  VAL   334      69.404  12.422  89.065  1.00  0.00              
ATOM    335  CA  ALA   335      70.248  10.823  86.111  1.00  0.00              
ATOM    336  CA  LEU   336      70.182   7.325  86.401  1.00  0.00              
ATOM    337  CA  ASN   337      66.742   7.358  88.563  1.00  0.00              
ATOM    338  CA  GLU   338      64.410   8.747  86.399  1.00  0.00              
ATOM    339  CA  VAL   339      65.469   6.296  83.896  1.00  0.00              
ATOM    340  CA  PHE   340      65.295   3.210  85.735  1.00  0.00              
ATOM    341  CA  VAL   341      61.691   3.915  86.727  1.00  0.00              
ATOM    342  CA  PRO   342      60.627   4.455  83.002  1.00  0.00              
ATOM    343  CA  ILE   343      62.305   1.224  82.117  1.00  0.00              
ATOM    344  CA  LEU   344      60.666  -0.725  84.492  1.00  0.00              
ATOM    345  CA  GLN   345      57.090   0.507  83.911  1.00  0.00              
ATOM    346  CA  LYS   346      57.258   0.088  80.345  1.00  0.00              
ATOM    347  CA  GLN   347      58.895  -3.931  81.317  1.00  0.00              
TER                                                                             
END
