
#######################################################
#                                                     #
#                        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   69 (   69),  selected   69 , name T0318TS464_4-D1
# Molecule2: number of CA atoms  154 ( 1200),  selected  154 , name T0318_D1.pdb
# PARAMETERS: T0318TS464_4-D1.T0318_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    Q       3      T       2           -
LGA    V       4      Q       3           -
LGA    -       -      V       4           -
LGA    -       -      L       5           -
LGA    -       -      V       6           -
LGA    -       -      R       7           -
LGA    -       -      N       8           -
LGA    -       -      G       9           -
LGA    -       -      I      10           -
LGA    -       -      Q      11           -
LGA    -       -      A      12           -
LGA    -       -      V      13           -
LGA    -       -      G      14           -
LGA    -       -      D      15           -
LGA    -       -      G      16           -
LGA    -       -      L      17           -
LGA    -       -      T      18           -
LGA    -       -      S      19           -
LGA    -       -      L      20           -
LGA    -       -      I      21           -
LGA    -       -      I      22           -
LGA    L       5      V      23           #
LGA    V       6      G      24          2.979
LGA    -       -      K      25           -
LGA    -       -      K      26           -
LGA    -       -      S      27           -
LGA    R       7      V      28          3.896
LGA    N       8      L      29           #
LGA    -       -      K      30           -
LGA    -       -      N      31           -
LGA    -       -      V      32           -
LGA    -       -      T      33           -
LGA    -       -      F      34           -
LGA    -       -      E      35           -
LGA    -       -      G      36           -
LGA    -       -      K      37           -
LGA    -       -      F      38           -
LGA    -       -      K      39           -
LGA    -       -      E      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      Q      43           -
LGA    -       -      K      44           -
LGA    -       -      F      45           -
LGA    -       -      V      46           -
LGA    -       -      T      47           -
LGA    -       -      D      48           -
LGA    -       -      G      49           -
LGA    -       -      D      50           -
LGA    -       -      S      51           -
LGA    -       -      W      52           -
LGA    -       -      N      53           -
LGA    -       -      S      54           -
LGA    -       -      M      55           -
LGA    -       -      I      56           -
LGA    -       -      S      57           -
LGA    -       -      R      58           -
LGA    -       -      I      59           -
LGA    -       -      P      60           -
LGA    -       -      A      61           -
LGA    -       -      S      62           -
LGA    -       -      G      63           -
LGA    -       -      R      64           -
LGA    -       -      H      65           -
LGA    -       -      P      66           -
LGA    -       -      L      67           -
LGA    -       -      H      68           -
LGA    -       -      Y      69           -
LGA    -       -      E      70           -
LGA    -       -      L      71           -
LGA    -       -      A      72           -
LGA    -       -      H      73           -
LGA    -       -      L      74           -
LGA    G       9      I      75          4.640
LGA    I      10      T      76          3.930
LGA    Q      11      V      77          2.639
LGA    A      12      P      78          1.721
LGA    V      13      D      79          1.684
LGA    G      14      A      80          2.088
LGA    D      15      S      81          4.524
LGA    E      40      S      82           -
LGA    V      41      R      83           -
LGA    A      42      G      84           -
LGA    Q      43      N      85           -
LGA    K      44      -       -           -
LGA    F      45      -       -           -
LGA    V      46      -       -           -
LGA    T      47      -       -           -
LGA    D      48      -       -           -
LGA    I      75      T      86          2.410
LGA    T      76      P      87          6.133
LGA    -       -      T      88           -
LGA    V      77      N      89          1.289
LGA    P      78      A      90          1.284
LGA    D      79      H      91          0.945
LGA    A      80      S      92          1.009
LGA    S      81      I      93          1.098
LGA    S      82      Y      94          1.321
LGA    R      83      K      95          2.171
LGA    G      84      E      96          2.349
LGA    N      85      L      97           -
LGA    T      86      K      98           -
LGA    P      87      P      99           -
LGA    T      88      I     100           -
LGA    N      89      N     101           -
LGA    A      90      Y     102           -
LGA    H      91      P     103           -
LGA    S      92      E     104           -
LGA    I      93      D     105           -
LGA    Y      94      T     106           -
LGA    K      95      K     107           -
LGA    E      96      N     108           -
LGA    L      97      V     109           -
LGA    K      98      H     110           -
LGA    P      99      F     111           -
LGA    D     119      V     112           -
LGA    -       -      L     113           -
LGA    -       -      F     114           -
LGA    -       -      A     115           -
LGA    V     120      E     116          5.136
LGA    L     121      Y     117          2.249
LGA    S     122      -       -           -
LGA    H     123      P     118          3.136
LGA    V     124      D     119          1.881
LGA    A     125      V     120          1.798
LGA    A     126      L     121          1.892
LGA    I     127      S     122          1.763
LGA    A     128      H     123          0.923
LGA    R     129      V     124          0.647
LGA    T     130      A     125          0.907
LGA    F     131      A     126          1.610
LGA    C     132      I     127          1.626
LGA    K     133      A     128          2.078
LGA    F     134      R     129          2.681
LGA    L     144      T     130           -
LGA    N     145      F     131           -
LGA    V     146      C     132           -
LGA    N     147      K     133           -
LGA    I     148      F     134           -
LGA    D     149      S     135           -
LGA    -       -      M     136           -
LGA    -       -      K     137           -
LGA    -       -      T     138           -
LGA    -       -      S     139           -
LGA    -       -      G     140           -
LGA    -       -      I     141           -
LGA    -       -      R     142           -
LGA    -       -      E     143           -
LGA    -       -      L     144           -
LGA    -       -      N     145           -
LGA    -       -      V     146           -
LGA    -       -      N     147           -
LGA    -       -      I     148           -
LGA    -       -      D     149           -
LGA    -       -      V     150           -
LGA    -       -      V     151           -
LGA    -       -      C     152           -
LGA    -       -      D     153           -
LGA    -       -      K     154           -
LGA    -       -      L     155           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   69  154    5.0     33    2.66     0.00     15.600     1.194

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.801204 * X  +   0.144591 * Y  +  -0.580660 * Z  +  42.506462
  Y_new =  -0.508328 * X  +  -0.347509 * Y  +  -0.787934 * Z  + 238.593781
  Z_new =  -0.315713 * X  +   0.926462 * Y  +  -0.204926 * Z  +  55.353333 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.788484   -1.353109  [ DEG:   102.4726    -77.5274 ]
  Theta =   0.321207    2.820385  [ DEG:    18.4038    161.5962 ]
  Phi   =  -0.565370    2.576222  [ DEG:   -32.3933    147.6067 ]
 
# 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: T0318TS464_4-D1                               
REMARK     2: T0318_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0318TS464_4-D1.T0318_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   69  154   5.0   33   2.66    0.00  15.600
REMARK  ---------------------------------------------------------- 
MOLECULE T0318TS464_4-D1
PFRMAT TS
TARGET T0318
MODEL 4
PARENT N/A
ATOM      1  CA  GLN     3      26.558  32.131  32.531  1.00  0.00
ATOM      2  CA  VAL     4      27.422  32.146  28.827  1.00  0.00
ATOM      3  CA  LEU     5      26.548  35.853  28.831  1.00  0.00
ATOM      4  CA  VAL     6      29.052  36.478  31.619  1.00  0.00
ATOM      5  CA  ARG     7      31.732  34.735  29.361  1.00  0.00
ATOM      6  CA  ASN     8      30.298  37.426  27.150  1.00  0.00
ATOM      7  CA  GLY     9      30.898  40.450  29.295  1.00  0.00
ATOM      8  CA  ILE    10      27.697  40.717  31.330  1.00  0.00
ATOM      9  CA  GLN    11      28.693  42.533  34.524  1.00  0.00
ATOM     10  CA  ALA    12      26.285  40.920  36.955  1.00  0.00
ATOM     11  CA  VAL    13      23.318  38.565  37.142  1.00  0.00
ATOM     12  CA  GLY    14      20.471  39.751  39.315  1.00  0.00
ATOM     13  CA  ASP    15      18.284  37.154  41.032  1.00  0.00
ATOM     14  CA  GLU    40      17.308  55.451  27.461  1.00  0.00
ATOM     15  CA  VAL    41      15.506  53.244  24.901  1.00  0.00
ATOM     16  CA  ALA    42      12.222  54.102  26.660  1.00  0.00
ATOM     17  CA  GLN    43      13.047  57.829  26.564  1.00  0.00
ATOM     18  CA  LYS    44      13.973  57.686  22.895  1.00  0.00
ATOM     19  CA  PHE    45      10.758  55.795  22.027  1.00  0.00
ATOM     20  CA  VAL    46       8.783  58.428  23.927  1.00  0.00
ATOM     21  CA  THR    47      10.519  61.162  21.894  1.00  0.00
ATOM     22  CA  ASP    48      10.044  59.386  18.545  1.00  0.00
ATOM     23  CA  ILE    75      15.860  41.251  29.287  1.00  0.00
ATOM     24  CA  THR    76      17.844  43.023  32.038  1.00  0.00
ATOM     25  CA  VAL    77      21.049  41.826  30.351  1.00  0.00
ATOM     26  CA  PRO    78      20.587  43.521  26.998  1.00  0.00
ATOM     27  CA  ASP    79      19.448  46.787  28.637  1.00  0.00
ATOM     28  CA  ALA    80      22.692  47.048  30.677  1.00  0.00
ATOM     29  CA  SER    81      24.657  46.368  27.492  1.00  0.00
ATOM     30  CA  SER    82      23.085  48.853  25.086  1.00  0.00
ATOM     31  CA  ARG    83      22.805  51.619  27.731  1.00  0.00
ATOM     32  CA  GLY    84      25.534  50.762  30.224  1.00  0.00
ATOM     33  CA  ASN    85      23.133  50.632  33.178  1.00  0.00
ATOM     34  CA  THR    86      23.163  49.013  36.615  1.00  0.00
ATOM     35  CA  PRO    87      20.990  45.892  36.859  1.00  0.00
ATOM     36  CA  THR    88      18.458  47.854  38.986  1.00  0.00
ATOM     37  CA  ASN    89      18.029  50.761  36.478  1.00  0.00
ATOM     38  CA  ALA    90      17.349  48.102  33.807  1.00  0.00
ATOM     39  CA  HIS    91      14.490  46.620  35.907  1.00  0.00
ATOM     40  CA  SER    92      12.854  49.900  36.895  1.00  0.00
ATOM     41  CA  ILE    93      12.937  51.115  33.263  1.00  0.00
ATOM     42  CA  TYR    94      11.055  47.959  32.249  1.00  0.00
ATOM     43  CA  LYS    95       8.183  48.930  34.560  1.00  0.00
ATOM     44  CA  GLU    96       7.980  52.436  33.063  1.00  0.00
ATOM     45  CA  LEU    97       7.608  51.027  29.513  1.00  0.00
ATOM     46  CA  LYS    98       4.795  48.750  30.704  1.00  0.00
ATOM     47  CA  PRO    99       2.973  51.431  32.679  1.00  0.00
ATOM     48  CA  ASP   119      22.168  25.829  21.699  1.00  0.00
ATOM     49  CA  VAL   120      21.882  27.960  24.813  1.00  0.00
ATOM     50  CA  LEU   121      25.387  29.459  24.548  1.00  0.00
ATOM     51  CA  SER   122      24.448  30.296  20.994  1.00  0.00
ATOM     52  CA  HIS   123      21.210  31.821  22.268  1.00  0.00
ATOM     53  CA  VAL   124      23.155  33.828  24.858  1.00  0.00
ATOM     54  CA  ALA   125      25.525  34.982  22.123  1.00  0.00
ATOM     55  CA  ALA   126      22.751  36.171  19.823  1.00  0.00
ATOM     56  CA  ILE   127      21.007  38.177  22.527  1.00  0.00
ATOM     57  CA  ALA   128      24.246  39.624  23.896  1.00  0.00
ATOM     58  CA  ARG   129      25.295  40.595  20.384  1.00  0.00
ATOM     59  CA  THR   130      22.044  42.460  19.999  1.00  0.00
ATOM     60  CA  PHE   131      22.534  44.041  23.427  1.00  0.00
ATOM     61  CA  CYS   132      25.992  45.385  22.558  1.00  0.00
ATOM     62  CA  LYS   133      24.703  46.980  19.351  1.00  0.00
ATOM     63  CA  PHE   134      22.024  48.862  21.273  1.00  0.00
ATOM     64  CA  LEU   144       2.913  54.120  29.976  1.00  0.00
ATOM     65  CA  ASN   145       2.794  51.535  27.183  1.00  0.00
ATOM     66  CA  VAL   146       5.955  52.765  25.419  1.00  0.00
ATOM     67  CA  ASN   147       6.538  50.118  22.652  1.00  0.00
ATOM     68  CA  ILE   148      10.293  49.673  22.929  1.00  0.00
ATOM     69  CA  ASP   149      11.696  46.270  21.899  1.00  0.00
TER
END
