
#######################################################
#                                                     #
#                        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   25 (  125),  selected   25 , name T0361TS239_5_1-D1
# Molecule2: number of CA atoms  158 ( 1268),  selected  158 , name T0361_D1.pdb
# PARAMETERS: T0361TS239_5_1-D1.T0361_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T       3      T       3           -
LGA    -       -      L       4           -
LGA    -       -      T       5           -
LGA    -       -      E       6           -
LGA    -       -      D       7           -
LGA    -       -      D       8           -
LGA    -       -      V       9           -
LGA    -       -      L      10           -
LGA    -       -      E      11           -
LGA    -       -      Q      12           -
LGA    -       -      L      13           -
LGA    -       -      D      14           -
LGA    -       -      A      15           -
LGA    -       -      Q      16           -
LGA    -       -      D      17           -
LGA    -       -      N      18           -
LGA    L       4      L      19          4.441
LGA    -       -      F      20           -
LGA    -       -      S      21           -
LGA    T       5      F      22          4.644
LGA    E       6      M      23          2.154
LGA    D       7      K      24          0.942
LGA    D       8      T      25          0.769
LGA    V       9      A      26          0.666
LGA    L      10      H      27          0.648
LGA    E      11      S      28          0.890
LGA    Q      12      I      29          0.435
LGA    L      13      L      30          0.512
LGA    D      14      L      31          1.181
LGA    A      15      Q      32          1.227
LGA    Q      16      G      33          0.400
LGA    D      17      I      34          1.680
LGA    N      18      R      35          2.043
LGA    L      19      Q      36          1.066
LGA    F      20      F      37          0.827
LGA    -       -      L      38           -
LGA    S      21      P      39          3.274
LGA    F      22      S      40           #
LGA    -       -      L      41           -
LGA    -       -      F      42           -
LGA    -       -      V      43           -
LGA    M      23      D      44          1.247
LGA    K      24      N      45          0.995
LGA    T      25      D      46          1.049
LGA    A      26      E      47          6.034
LGA    -       -      E      48           -
LGA    H      27      I      49          0.724
LGA    -       -      V      50           -
LGA    -       -      E      51           -
LGA    -       -      Y      52           -
LGA    -       -      A      53           -
LGA    -       -      V      54           -
LGA    -       -      K      55           -
LGA    -       -      P      56           -
LGA    -       -      L      57           -
LGA    -       -      L      58           -
LGA    -       -      A      59           -
LGA    -       -      Q      60           -
LGA    -       -      S      61           -
LGA    -       -      G      62           -
LGA    -       -      P      63           -
LGA    -       -      L      64           -
LGA    -       -      D      65           -
LGA    -       -      D      66           -
LGA    -       -      I      67           -
LGA    -       -      D      68           -
LGA    -       -      V      69           -
LGA    -       -      A      70           -
LGA    -       -      L      71           -
LGA    -       -      R      72           -
LGA    -       -      L      73           -
LGA    -       -      I      74           -
LGA    -       -      Y      75           -
LGA    -       -      A      76           -
LGA    -       -      L      77           -
LGA    -       -      G      78           -
LGA    -       -      K      79           -
LGA    -       -      M      80           -
LGA    -       -      D      81           -
LGA    -       -      K      82           -
LGA    -       -      W      83           -
LGA    -       -      L      84           -
LGA    -       -      Y      85           -
LGA    -       -      A      86           -
LGA    -       -      D      87           -
LGA    -       -      I      88           -
LGA    -       -      T      89           -
LGA    -       -      H      90           -
LGA    -       -      F      91           -
LGA    -       -      S      92           -
LGA    -       -      Q      93           -
LGA    -       -      Y      94           -
LGA    -       -      W      95           -
LGA    -       -      H      96           -
LGA    -       -      Y      97           -
LGA    -       -      L      98           -
LGA    -       -      N      99           -
LGA    -       -      E     100           -
LGA    -       -      Q     101           -
LGA    -       -      D     102           -
LGA    -       -      E     103           -
LGA    -       -      T     104           -
LGA    -       -      P     105           -
LGA    -       -      G     106           -
LGA    -       -      F     107           -
LGA    -       -      A     108           -
LGA    -       -      D     109           -
LGA    -       -      D     110           -
LGA    -       -      I     111           -
LGA    -       -      T     112           -
LGA    -       -      W     113           -
LGA    -       -      D     114           -
LGA    -       -      F     115           -
LGA    -       -      I     116           -
LGA    -       -      S     117           -
LGA    -       -      N     118           -
LGA    -       -      V     119           -
LGA    -       -      N     120           -
LGA    -       -      S     121           -
LGA    -       -      I     122           -
LGA    -       -      T     123           -
LGA    -       -      R     124           -
LGA    -       -      N     125           -
LGA    -       -      A     126           -
LGA    -       -      T     127           -
LGA    -       -      L     128           -
LGA    -       -      Y     129           -
LGA    -       -      D     130           -
LGA    -       -      A     131           -
LGA    -       -      L     132           -
LGA    -       -      K     133           -
LGA    -       -      A     134           -
LGA    -       -      M     135           -
LGA    -       -      K     136           -
LGA    -       -      E     145           -
LGA    -       -      A     146           -
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      S     149           -
LGA    -       -      G     150           -
LGA    -       -      M     151           -
LGA    -       -      V     152           -
LGA    -       -      K     153           -
LGA    -       -      T     154           -
LGA    -       -      A     155           -
LGA    -       -      L     156           -
LGA    -       -      T     157           -
LGA    -       -      L     158           -
LGA    -       -      A     159           -
LGA    -       -      V     160           -
LGA    -       -      T     161           -
LGA    -       -      T     162           -
LGA    -       -      T     163           -
LGA    -       -      L     164           -
LGA    -       -      K     165           -
LGA    -       -      E     166           -
LGA    -       -      L     167           -
LGA    -       -      T     168           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   25  158    5.0     23    2.21    13.04     12.758     0.994

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.278074 * X  +  -0.052622 * Y  +  -0.959117 * Z  +  38.592461
  Y_new =   0.045275 * X  +   0.996671 * Y  +  -0.067808 * Z  + -73.282089
  Z_new =   0.959492 * X  +  -0.062280 * Y  +  -0.274766 * Z  + -26.639397 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.918694    0.222899  [ DEG:  -167.2289     12.7712 ]
  Theta =  -1.285193   -1.856399  [ DEG:   -73.6362   -106.3638 ]
  Phi   =   2.980192   -0.161400  [ DEG:   170.7525     -9.2475 ]
 
# 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: T0361TS239_5_1-D1                             
REMARK     2: T0361_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0361TS239_5_1-D1.T0361_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   25  158   5.0   23   2.21   13.04  12.758
REMARK  ---------------------------------------------------------- 
MOLECULE T0361TS239_5_1-D1
REMARK PARENT number 1
PFRMAT TS
TARGET T0361
PARENT 1f5q_B
ATOM     11  N   THR     3       6.004 -10.569  25.659  1.00  9.99
ATOM     12  CA  THR     3       4.618 -10.483  26.097  1.00  9.99
ATOM     13  C   THR     3       4.226  -9.277  26.934  1.00  9.99
ATOM     14  O   THR     3       3.107  -8.794  26.817  1.00  9.99
ATOM     15  CB  THR     3       4.241 -11.742  26.872  1.00  9.99
ATOM     16  N   LEU     4       5.139  -8.787  27.764  1.00  9.99
ATOM     17  CA  LEU     4       4.851  -7.661  28.657  1.00  9.99
ATOM     18  C   LEU     4       5.021  -6.270  28.068  1.00  9.99
ATOM     19  O   LEU     4       4.875  -5.267  28.780  1.00  9.99
ATOM     20  CB  LEU     4       5.706  -7.778  29.923  1.00  9.99
ATOM     21  N   THR     5       5.326  -6.207  26.780  1.00  9.99
ATOM     22  CA  THR     5       5.510  -4.935  26.102  1.00  9.99
ATOM     23  C   THR     5       4.202  -4.199  25.861  1.00  9.99
ATOM     24  O   THR     5       3.184  -4.808  25.567  1.00  9.99
ATOM     25  CB  THR     5       6.202  -5.156  24.752  1.00  9.99
ATOM     26  N   GLU     6       4.245  -2.878  25.990  1.00  9.99
ATOM     27  CA  GLU     6       3.084  -2.031  25.737  1.00  9.99
ATOM     28  C   GLU     6       3.509  -1.060  24.647  1.00  9.99
ATOM     29  O   GLU     6       4.679  -0.710  24.556  1.00  9.99
ATOM     30  CB  GLU     6       2.685  -1.264  26.989  1.00  9.99
ATOM     31  N   ASP     7       2.567  -0.624  23.821  1.00  9.99
ATOM     32  CA  ASP     7       2.885   0.285  22.724  1.00  9.99
ATOM     33  C   ASP     7       4.089   1.201  22.950  1.00  9.99
ATOM     34  O   ASP     7       4.977   1.273  22.114  1.00  9.99
ATOM     35  CB  ASP     7       1.664   1.146  22.356  1.00  9.99
ATOM     36  N   ASP     8       4.134   1.880  24.084  1.00  9.99
ATOM     37  CA  ASP     8       5.219   2.805  24.337  1.00  9.99
ATOM     38  C   ASP     8       6.615   2.196  24.277  1.00  9.99
ATOM     39  O   ASP     8       7.557   2.862  23.830  1.00  9.99
ATOM     40  CB  ASP     8       5.020   3.502  25.676  1.00  9.99
ATOM     41  N   VAL     9       6.755   0.949  24.729  1.00  9.99
ATOM     42  CA  VAL     9       8.045   0.272  24.712  1.00  9.99
ATOM     43  C   VAL     9       8.486   0.067  23.265  1.00  9.99
ATOM     44  O   VAL     9       9.652   0.284  22.918  1.00  9.99
ATOM     45  CB  VAL     9       7.955  -1.091  25.399  1.00  9.99
ATOM     46  N   LEU    10       7.540  -0.366  22.433  1.00  9.99
ATOM     47  CA  LEU    10       7.786  -0.610  21.025  1.00  9.99
ATOM     48  C   LEU    10       8.151   0.707  20.345  1.00  9.99
ATOM     49  O   LEU    10       8.932   0.741  19.386  1.00  9.99
ATOM     50  CB  LEU    10       6.532  -1.202  20.367  1.00  9.99
ATOM     51  N   GLU    11       7.574   1.797  20.837  1.00  9.99
ATOM     52  CA  GLU    11       7.869   3.098  20.267  1.00  9.99
ATOM     53  C   GLU    11       9.276   3.519  20.638  1.00  9.99
ATOM     54  O   GLU    11       9.972   4.117  19.827  1.00  9.99
ATOM     55  CB  GLU    11       6.851   4.132  20.733  1.00  9.99
ATOM     56  N   GLN    12       9.695   3.205  21.863  1.00  9.99
ATOM     57  CA  GLN    12      11.041   3.529  22.318  1.00  9.99
ATOM     58  C   GLN    12      12.076   2.886  21.412  1.00  9.99
ATOM     59  O   GLN    12      13.093   3.487  21.091  1.00  9.99
ATOM     60  CB  GLN    12      11.268   3.019  23.736  1.00  9.99
ATOM     61  N   LEU    13      11.795   1.648  21.023  1.00  9.99
ATOM     62  CA  LEU    13      12.660   0.852  20.160  1.00  9.99
ATOM     63  C   LEU    13      12.715   1.481  18.776  1.00  9.99
ATOM     64  O   LEU    13      13.767   1.555  18.149  1.00  9.99
ATOM     65  CB  LEU    13      12.110  -0.581  20.074  1.00  9.99
ATOM     66  N   ASP    14      11.573   1.938  18.295  1.00  9.99
ATOM     67  CA  ASP    14      11.535   2.561  16.982  1.00  9.99
ATOM     68  C   ASP    14      12.352   3.842  17.027  1.00  9.99
ATOM     69  O   ASP    14      13.111   4.124  16.113  1.00  9.99
ATOM     70  CB  ASP    14      10.083   2.874  16.560  1.00  9.99
ATOM     71  N   ALA    15      12.194   4.603  18.105  1.00  9.99
ATOM     72  CA  ALA    15      12.914   5.850  18.280  1.00  9.99
ATOM     73  C   ALA    15      14.409   5.560  18.305  1.00  9.99
ATOM     74  O   ALA    15      15.225   6.391  17.907  1.00  9.99
ATOM     75  CB  ALA    15      12.500   6.527  19.600  1.00  9.99
ATOM     76  N   GLN    16      14.771   4.374  18.771  1.00  9.99
ATOM     77  CA  GLN    16      16.172   4.014  18.843  1.00  9.99
ATOM     78  C   GLN    16      16.747   3.684  17.475  1.00  9.99
ATOM     79  O   GLN    16      17.935   3.885  17.247  1.00  9.99
ATOM     80  CB  GLN    16      16.382   2.830  19.778  1.00  9.99
ATOM     81  N   ASP    17      15.927   3.168  16.569  1.00  9.99
ATOM     82  CA  ASP    17      16.437   2.859  15.242  1.00  9.99
ATOM     83  C   ASP    17      16.447   4.149  14.433  1.00  9.99
ATOM     84  O   ASP    17      17.196   4.284  13.475  1.00  9.99
ATOM     85  CB  ASP    17      15.585   1.782  14.548  1.00  9.99
ATOM     86  N   ASN    18      15.617   5.102  14.835  1.00  9.99
ATOM     87  CA  ASN    18      15.552   6.391  14.164  1.00  9.99
ATOM     88  C   ASN    18      16.871   7.108  14.415  1.00  9.99
ATOM     89  O   ASN    18      17.479   7.673  13.507  1.00  9.99
ATOM     90  CB  ASN    18      14.400   7.229  14.723  1.00  9.99
ATOM     91  N   LEU    19      17.305   7.067  15.668  1.00  9.99
ATOM     92  CA  LEU    19      18.547   7.697  16.077  1.00  9.99
ATOM     93  C   LEU    19      19.761   7.014  15.467  1.00  9.99
ATOM     94  O   LEU    19      20.709   7.682  15.055  1.00  9.99
ATOM     95  CB  LEU    19      18.644   7.718  17.611  1.00  9.99
ATOM     96  N   PHE    20      19.733   5.689  15.399  1.00  9.99
ATOM     97  CA  PHE    20      20.839   4.942  14.823  1.00  9.99
ATOM     98  C   PHE    20      20.926   5.261  13.336  1.00  9.99
ATOM     99  O   PHE    20      22.014   5.368  12.779  1.00  9.99
ATOM    100  CB  PHE    20      20.643   3.438  15.039  1.00  9.99
ATOM    101  N   SER    21      23.608   8.247   9.289  1.00  9.99
ATOM    102  CA  SER    21      23.325   9.075   8.110  1.00  9.99
ATOM    103  C   SER    21      24.044  10.430   8.040  1.00  9.99
ATOM    104  O   SER    21      24.304  10.939   6.946  1.00  9.99
ATOM    105  CB  SER    21      21.814   9.303   7.981  1.00  9.99
ATOM    106  N   PHE    22      24.345  11.032   9.187  1.00  9.99
ATOM    107  CA  PHE    22      25.045  12.310   9.165  1.00  9.99
ATOM    108  C   PHE    22      26.510  12.015   8.791  1.00  9.99
ATOM    109  O   PHE    22      27.463  12.642   9.286  1.00  9.99
ATOM    110  CB  PHE    22      24.922  13.053  10.545  1.00  9.99
ATOM    111  N   MET    23      26.666  11.047   7.890  1.00  9.99
ATOM    112  CA  MET    23      27.983  10.652   7.443  1.00  9.99
ATOM    113  C   MET    23      28.594  11.590   6.420  1.00  9.99
ATOM    114  O   MET    23      28.248  12.773   6.310  1.00  9.99
ATOM    115  CB  MET    23      27.893   9.223   6.881  1.00  9.99
ATOM    116  N   LYS    24      29.522  11.027   5.660  1.00  9.99
ATOM    117  CA  LYS    24      30.261  11.741   4.629  1.00  9.99
ATOM    118  C   LYS    24      29.931  11.089   3.274  1.00  9.99
ATOM    119  O   LYS    24      30.030   9.879   3.137  1.00  9.99
ATOM    120  CB  LYS    24      31.788  11.649   4.955  1.00  9.99
ATOM    121  N   THR    25      29.518  11.887   2.290  1.00  9.99
ATOM    122  CA  THR    25      29.173  11.355   0.972  1.00  9.99
ATOM    123  C   THR    25      28.166  10.206   1.106  1.00  9.99
ATOM    124  O   THR    25      28.395   9.113   0.564  1.00  9.99
ATOM    125  CB  THR    25      30.420  10.809   0.251  1.00  9.99
ATOM    126  N   ALA    26      27.064  10.439   1.814  1.00  9.99
ATOM    127  CA  ALA    26      26.065   9.391   2.008  1.00  9.99
ATOM    128  C   ALA    26      25.588   8.739   0.708  1.00  9.99
ATOM    129  O   ALA    26      25.785   7.549   0.493  1.00  9.99
ATOM    130  CB  ALA    26      24.840   9.932   2.794  1.00  9.99
ATOM    131  N   HIS    27      24.971   9.518  -0.166  1.00  9.99
ATOM    132  CA  HIS    27      24.448   8.998  -1.421  1.00  9.99
ATOM    133  C   HIS    27      25.489   8.283  -2.273  1.00  9.99
ATOM    134  O   HIS    27      25.198   7.275  -2.909  1.00  9.99
ATOM    135  CB  HIS    27      23.815  10.139  -2.233  1.00  9.99
TER
END
