
#######################################################
#                                                     #
#                        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   12 (   48),  selected   12 , name T0361AL586_1-D1
# Molecule2: number of CA atoms  158 ( 1268),  selected  158 , name T0361_D1.pdb
# PARAMETERS: T0361AL586_1-D1.T0361_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T     157      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      19           -
LGA    -       -      F      20           -
LGA    -       -      S      21           -
LGA    -       -      F      22           -
LGA    -       -      M      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      A      26           -
LGA    -       -      H      27           -
LGA    -       -      S      28           -
LGA    -       -      I      29           -
LGA    -       -      L      30           -
LGA    -       -      L      31           -
LGA    -       -      Q      32           -
LGA    -       -      G      33           -
LGA    -       -      I      34           -
LGA    -       -      R      35           -
LGA    -       -      Q      36           -
LGA    -       -      F      37           -
LGA    -       -      L      38           -
LGA    -       -      P      39           -
LGA    -       -      S      40           -
LGA    -       -      L      41           -
LGA    -       -      F      42           -
LGA    -       -      V      43           -
LGA    -       -      D      44           -
LGA    -       -      N      45           -
LGA    -       -      D      46           -
LGA    -       -      E      47           -
LGA    -       -      E      48           -
LGA    -       -      I      49           -
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     158      L     132          3.010
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    A     159      T     154          1.722
LGA    V     160      A     155          1.709
LGA    T     161      L     156          0.550
LGA    T     162      T     157          0.756
LGA    T     163      L     158          0.906
LGA    L     164      A     159          0.512
LGA    K     165      V     160          0.835
LGA    E     166      T     161          0.575
LGA    L     167      T     162          0.204
LGA    T     168      T     163          0.490
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)   12  158    5.0     11    1.29    27.27      6.779     0.793

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.816536 * X  +   0.549891 * Y  +  -0.175752 * Z  +  42.690426
  Y_new =  -0.516012 * X  +  -0.831716 * Y  +  -0.204892 * Z  +  28.418240
  Z_new =  -0.258844 * X  +  -0.076612 * Y  +   0.962876 * Z  +  23.457617 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.079398    3.062195  [ DEG:    -4.5492    175.4508 ]
  Theta =   0.261825    2.879768  [ DEG:    15.0015    164.9985 ]
  Phi   =  -2.578010    0.563583  [ DEG:  -147.7091     32.2909 ]
 
# 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: T0361AL586_1-D1                               
REMARK     2: T0361_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0361AL586_1-D1.T0361_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   12  158   5.0   11   1.29   27.27   6.779
REMARK  ---------------------------------------------------------- 
MOLECULE T0361AL586_1-D1
REMARK Aligment from pdb entry: 1h97_A
ATOM      1  N   THR   157      11.372 -12.340  43.990  1.00  0.00              
ATOM      2  CA  THR   157      11.873 -12.413  42.600  1.00  0.00              
ATOM      3  C   THR   157      11.569 -11.048  41.999  1.00  0.00              
ATOM      4  O   THR   157      10.534 -10.421  42.393  1.00  0.00              
ATOM      5  N   LEU   158      12.362 -10.470  41.112  1.00  0.00              
ATOM      6  CA  LEU   158      12.077  -9.199  40.474  1.00  0.00              
ATOM      7  C   LEU   158      10.756  -9.338  39.718  1.00  0.00              
ATOM      8  O   LEU   158      10.462 -10.420  39.270  1.00  0.00              
ATOM      9  N   ALA   159       9.882  -4.737  36.379  1.00  0.00              
ATOM     10  CA  ALA   159      11.292  -4.440  36.545  1.00  0.00              
ATOM     11  C   ALA   159      12.149  -5.046  35.427  1.00  0.00              
ATOM     12  O   ALA   159      13.064  -4.348  34.940  1.00  0.00              
ATOM     13  N   VAL   160      11.825  -6.277  35.016  1.00  0.00              
ATOM     14  CA  VAL   160      12.521  -6.886  33.865  1.00  0.00              
ATOM     15  C   VAL   160      12.345  -5.981  32.636  1.00  0.00              
ATOM     16  O   VAL   160      13.333  -5.713  31.897  1.00  0.00              
ATOM     17  N   THR   161      11.123  -5.485  32.445  1.00  0.00              
ATOM     18  CA  THR   161      10.811  -4.668  31.242  1.00  0.00              
ATOM     19  C   THR   161      11.548  -3.357  31.318  1.00  0.00              
ATOM     20  O   THR   161      12.111  -2.902  30.285  1.00  0.00              
ATOM     21  N   THR   162      11.626  -2.727  32.501  1.00  0.00              
ATOM     22  CA  THR   162      12.338  -1.469  32.633  1.00  0.00              
ATOM     23  C   THR   162      13.824  -1.654  32.346  1.00  0.00              
ATOM     24  O   THR   162      14.450  -0.875  31.630  1.00  0.00              
ATOM     25  N   THR   163      14.417  -2.705  32.885  1.00  0.00              
ATOM     26  CA  THR   163      15.841  -2.982  32.683  1.00  0.00              
ATOM     27  C   THR   163      16.109  -3.212  31.181  1.00  0.00              
ATOM     28  O   THR   163      17.113  -2.713  30.689  1.00  0.00              
ATOM     29  N   LEU   164      15.334  -4.124  30.581  1.00  0.00              
ATOM     30  CA  LEU   164      15.606  -4.401  29.155  1.00  0.00              
ATOM     31  C   LEU   164      15.459  -3.136  28.344  1.00  0.00              
ATOM     32  O   LEU   164      16.255  -2.876  27.400  1.00  0.00              
ATOM     33  N   LYS   165      14.438  -2.297  28.579  1.00  0.00              
ATOM     34  CA  LYS   165      14.227  -1.060  27.825  1.00  0.00              
ATOM     35  C   LYS   165      15.347  -0.071  28.047  1.00  0.00              
ATOM     36  O   LYS   165      15.917   0.425  27.052  1.00  0.00              
ATOM     37  N   GLU   166      15.796   0.113  29.312  1.00  0.00              
ATOM     38  CA  GLU   166      16.785   1.162  29.517  1.00  0.00              
ATOM     39  C   GLU   166      18.203   0.709  29.180  1.00  0.00              
ATOM     40  O   GLU   166      19.044   1.590  28.885  1.00  0.00              
ATOM     41  N   LEU   167      18.516  -0.562  29.242  1.00  0.00              
ATOM     42  CA  LEU   167      19.837  -1.029  28.860  1.00  0.00              
ATOM     43  C   LEU   167      19.896  -1.405  27.371  1.00  0.00              
ATOM     44  O   LEU   167      21.000  -1.572  26.853  1.00  0.00              
ATOM     45  N   THR   168      18.760  -1.442  26.685  1.00  0.00              
ATOM     46  CA  THR   168      18.714  -1.831  25.298  1.00  0.00              
ATOM     47  C   THR   168      19.736  -1.177  24.399  1.00  0.00              
ATOM     48  O   THR   168      20.436  -1.865  23.646  1.00  0.00              
END
