
#######################################################
#                                                     #
#                        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   24 (   96),  selected   24 , name T0363AL044_2
# Molecule2: number of CA atoms   80 (  645),  selected   80 , name T0363.pdb
# PARAMETERS: T0363AL044_2.T0363.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      L      10           -
LGA    -       -      N      11           -
LGA    -       -      Q      12           -
LGA    -       -      I      13           -
LGA    -       -      N      14           -
LGA    -       -      I      15           -
LGA    -       -      E      16           -
LGA    -       -      I      17           -
LGA    -       -      A      18           -
LGA    -       -      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    -       -      Y      25           -
LGA    -       -      Y      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      S      29           -
LGA    -       -      F      30           -
LGA    -       -      Q      31           -
LGA    -       -      V      32           -
LGA    -       -      D      33           -
LGA    -       -      E      34           -
LGA    Q      31      G      35           #
LGA    V      32      I      36          1.780
LGA    D      33      T      37          2.525
LGA    -       -      V      38           -
LGA    V      38      Q      39          2.451
LGA    Q      39      T      40          2.051
LGA    T      40      A      41          0.720
LGA    A      41      I      42          1.084
LGA    I      42      T      43          1.156
LGA    T      43      Q      44          2.290
LGA    Q      44      S      45          2.859
LGA    S      45      G      46          3.526
LGA    -       -      I      47           -
LGA    -       -      L      48           -
LGA    G      46      S      49          4.367
LGA    I      47      Q      50          5.174
LGA    S      57      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -
LGA    -       -      S      57           -
LGA    T      58      T      58          2.932
LGA    K      60      N      59          3.508
LGA    I      63      K      60          4.107
LGA    F      64      -       -           -
LGA    S      65      -       -           -
LGA    R      66      -       -           -
LGA    P      67      -       -           -
LGA    I      68      -       -           -
LGA    T      71      I      61          1.429
LGA    D      72      G      62           -
LGA    -       -      I      63           -
LGA    -       -      F      64           -
LGA    -       -      S      65           -
LGA    -       -      R      66           -
LGA    -       -      P      67           -
LGA    -       -      I      68           -
LGA    -       -      K      69           -
LGA    -       -      L      70           -
LGA    -       -      T      71           -
LGA    -       -      D      72           -
LGA    -       -      V      73           -
LGA    -       -      L      74           -
LGA    -       -      K      75           -
LGA    -       -      E      76           -
LGA    -       -      G      77           -
LGA    -       -      D      78           -
LGA    -       -      R      79           -
LGA    -       -      I      80           -
LGA    -       -      E      81           -
LGA    -       -      I      82           -
LGA    -       -      Y      83           -
LGA    -       -      R      84           -
LGA    -       -      P      85           -
LGA    -       -      L      86           -
LGA    -       -      L      87           -
LGA    -       -      A      88           -
LGA    -       -      D      89           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   24   80    5.0     16    2.90     6.25     14.829     0.534

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.077944 * X  +  -0.953581 * Y  +  -0.290875 * Z  +  77.689110
  Y_new =   0.623322 * X  +  -0.274317 * Y  +   0.732270 * Z  + -39.455311
  Z_new =  -0.778071 * X  +  -0.124232 * Y  +   0.615770 * Z  +   6.047567 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.199079    2.942514  [ DEG:   -11.4064    168.5936 ]
  Theta =   0.891589    2.250004  [ DEG:    51.0843    128.9157 ]
  Phi   =   1.695197   -1.446395  [ DEG:    97.1276    -82.8724 ]
 
# 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: T0363AL044_2                                  
REMARK     2: T0363.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL044_2.T0363.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   24   80   5.0   16   2.90    6.25  14.829
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL044_2
REMARK Aligment from pdb entry: 1t6l_A
ATOM      1  N   GLN    31      28.697   7.027  16.770  1.00  0.00              
ATOM      2  CA  GLN    31      29.352   6.280  15.724  1.00  0.00              
ATOM      3  C   GLN    31      28.720   6.506  14.357  1.00  0.00              
ATOM      4  O   GLN    31      29.445   6.663  13.375  1.00  0.00              
ATOM      5  N   VAL    32      27.377   6.547  14.286  1.00  0.00              
ATOM      6  CA  VAL    32      26.693   6.899  13.031  1.00  0.00              
ATOM      7  C   VAL    32      27.102   8.235  12.396  1.00  0.00              
ATOM      8  O   VAL    32      27.107   8.404  11.156  1.00  0.00              
ATOM      9  N   ASP    33      27.466   9.197  13.236  1.00  0.00              
ATOM     10  CA  ASP    33      27.947  10.482  12.756  1.00  0.00              
ATOM     11  C   ASP    33      29.334  10.330  12.151  1.00  0.00              
ATOM     12  O   ASP    33      29.618  10.907  11.112  1.00  0.00              
ATOM     13  N   VAL    38      30.189   9.550  12.812  1.00  0.00              
ATOM     14  CA  VAL    38      31.523   9.262  12.302  1.00  0.00              
ATOM     15  C   VAL    38      31.430   8.556  10.944  1.00  0.00              
ATOM     16  O   VAL    38      32.136   8.907   9.982  1.00  0.00              
ATOM     17  N   GLN    39      30.550   7.559  10.871  1.00  0.00              
ATOM     18  CA  GLN    39      30.322   6.853   9.614  1.00  0.00              
ATOM     19  C   GLN    39      29.872   7.801   8.493  1.00  0.00              
ATOM     20  O   GLN    39      30.380   7.718   7.390  1.00  0.00              
ATOM     21  N   THR    40      28.928   8.685   8.782  1.00  0.00              
ATOM     22  CA  THR    40      28.470   9.678   7.810  1.00  0.00              
ATOM     23  C   THR    40      29.575  10.602   7.338  1.00  0.00              
ATOM     24  O   THR    40      29.639  10.941   6.144  1.00  0.00              
ATOM     25  N   ALA    41      30.429  11.036   8.262  1.00  0.00              
ATOM     26  CA  ALA    41      31.547  11.899   7.875  1.00  0.00              
ATOM     27  C   ALA    41      32.490  11.162   6.938  1.00  0.00              
ATOM     28  O   ALA    41      32.948  11.732   5.963  1.00  0.00              
ATOM     29  N   ILE    42      32.781   9.900   7.258  1.00  0.00              
ATOM     30  CA  ILE    42      33.698   9.051   6.473  1.00  0.00              
ATOM     31  C   ILE    42      33.174   8.799   5.053  1.00  0.00              
ATOM     32  O   ILE    42      33.940   8.803   4.090  1.00  0.00              
ATOM     33  N   THR    43      31.878   8.581   4.941  1.00  0.00              
ATOM     34  CA  THR    43      31.247   8.305   3.647  1.00  0.00              
ATOM     35  C   THR    43      31.222   9.556   2.789  1.00  0.00              
ATOM     36  O   THR    43      31.456   9.480   1.574  1.00  0.00              
ATOM     37  N   GLN    44      30.964  10.693   3.441  1.00  0.00              
ATOM     38  CA  GLN    44      30.998  12.029   2.831  1.00  0.00              
ATOM     39  C   GLN    44      32.398  12.355   2.343  1.00  0.00              
ATOM     40  O   GLN    44      32.583  12.669   1.161  1.00  0.00              
ATOM     41  N   SER    45      33.395  12.233   3.225  1.00  0.00              
ATOM     42  CA  SER    45      34.755  12.613   2.878  1.00  0.00              
ATOM     43  C   SER    45      35.435  11.583   1.974  1.00  0.00              
ATOM     44  O   SER    45      36.240  11.955   1.124  1.00  0.00              
ATOM     45  N   GLY    46      35.101  10.309   2.152  1.00  0.00              
ATOM     46  CA  GLY    46      35.615   9.250   1.304  1.00  0.00              
ATOM     47  C   GLY    46      34.975   9.336  -0.079  1.00  0.00              
ATOM     48  O   GLY    46      33.790   9.003  -0.249  1.00  0.00              
ATOM     49  N   ILE    47      35.738   9.809  -1.063  1.00  0.00              
ATOM     50  CA  ILE    47      35.244   9.893  -2.440  1.00  0.00              
ATOM     51  C   ILE    47      35.652   8.646  -3.238  1.00  0.00              
ATOM     52  O   ILE    47      35.132   7.549  -2.966  1.00  0.00              
ATOM     53  N   SER    57      40.625   9.124  -2.348  1.00  0.00              
ATOM     54  CA  SER    57      41.793   9.931  -2.021  1.00  0.00              
ATOM     55  C   SER    57      41.402  11.384  -1.725  1.00  0.00              
ATOM     56  O   SER    57      41.013  12.119  -2.645  1.00  0.00              
ATOM     57  N   THR    58      36.560  22.980  10.608  1.00  0.00              
ATOM     58  CA  THR    58      35.580  22.641  11.643  1.00  0.00              
ATOM     59  C   THR    58      35.162  23.940  12.305  1.00  0.00              
ATOM     60  O   THR    58      35.985  24.653  12.896  1.00  0.00              
ATOM     61  N   LYS    60      33.883  24.252  12.172  1.00  0.00              
ATOM     62  CA  LYS    60      33.323  25.515  12.603  1.00  0.00              
ATOM     63  C   LYS    60      32.305  25.235  13.663  1.00  0.00              
ATOM     64  O   LYS    60      31.373  24.461  13.464  1.00  0.00              
ATOM     65  N   ILE    63      32.494  25.858  14.817  1.00  0.00              
ATOM     66  CA  ILE    63      31.661  25.599  15.984  1.00  0.00              
ATOM     67  C   ILE    63      30.955  26.883  16.358  1.00  0.00              
ATOM     68  O   ILE    63      31.556  27.962  16.305  1.00  0.00              
ATOM     69  N   PHE    64      27.928  28.690  19.162  1.00  0.00              
ATOM     70  CA  PHE    64      27.384  28.674  20.515  1.00  0.00              
ATOM     71  C   PHE    64      25.975  29.296  20.605  1.00  0.00              
ATOM     72  O   PHE    64      25.123  28.766  21.322  1.00  0.00              
ATOM     73  N   SER    65      25.692  30.362  19.860  1.00  0.00              
ATOM     74  CA  SER    65      24.321  30.914  19.860  1.00  0.00              
ATOM     75  C   SER    65      23.372  29.807  20.301  1.00  0.00              
ATOM     76  O   SER    65      23.183  29.607  21.507  1.00  0.00              
ATOM     77  N   ARG    66      23.961  25.629  19.880  1.00  0.00              
ATOM     78  CA  ARG    66      25.173  24.833  19.584  1.00  0.00              
ATOM     79  C   ARG    66      25.134  24.156  18.203  1.00  0.00              
ATOM     80  O   ARG    66      24.092  23.688  17.746  1.00  0.00              
ATOM     81  N   PRO    67      26.284  24.087  17.548  1.00  0.00              
ATOM     82  CA  PRO    67      26.382  23.382  16.272  1.00  0.00              
ATOM     83  C   PRO    67      27.849  23.104  16.001  1.00  0.00              
ATOM     84  O   PRO    67      28.722  23.880  16.390  1.00  0.00              
ATOM     85  N   ILE    68      28.091  21.982  15.364  1.00  0.00              
ATOM     86  CA  ILE    68      29.390  21.730  14.774  1.00  0.00              
ATOM     87  C   ILE    68      29.235  21.553  13.266  1.00  0.00              
ATOM     88  O   ILE    68      28.412  20.790  12.813  1.00  0.00              
ATOM     89  N   THR    71      30.051  22.264  12.507  1.00  0.00              
ATOM     90  CA  THR    71      29.938  22.308  11.053  1.00  0.00              
ATOM     91  C   THR    71      31.294  21.917  10.434  1.00  0.00              
ATOM     92  O   THR    71      32.370  22.231  10.978  1.00  0.00              
ATOM     93  N   ASP    72      33.645  23.382  -1.091  1.00  0.00              
ATOM     94  CA  ASP    72      32.443  24.103  -0.721  1.00  0.00              
ATOM     95  C   ASP    72      31.345  23.248  -0.122  1.00  0.00              
ATOM     96  O   ASP    72      30.337  23.781   0.286  1.00  0.00              
END
