
#######################################################
#                                                     #
#                        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   37 (  156),  selected   37 , name T0303AL586_1-D2
# Molecule2: number of CA atoms   77 (  602),  selected   77 , name T0303_D2.pdb
# PARAMETERS: T0303AL586_1-D2.T0303_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S      18      S      18          2.995
LGA    -       -      L      19           -
LGA    -       -      P      20           -
LGA    D      21      D      21          1.323
LGA    L      22      L      22          1.529
LGA    -       -      A      23           -
LGA    L      24      L      24          0.612
LGA    -       -      S      25           -
LGA    I      26      I      26          1.114
LGA    N      27      N      27          0.887
LGA    A      29      S      28          3.331
LGA    -       -      A      29           -
LGA    L      30      L      30          1.216
LGA    -       -      K      31           -
LGA    -       -      D      32           -
LGA    -       -      V      33           -
LGA    V      33      N      34          1.178
LGA    P      36      L      35          2.098
LGA    A      38      P      36          3.542
LGA    -       -      Q      37           -
LGA    E      40      A      38           #
LGA    V      43      S      39           -
LGA    -       -      E      40           -
LGA    -       -      N      41           -
LGA    M      44      L      42          5.589
LGA    -       -      V      43           -
LGA    -       -      M      44           -
LGA    -       -      T      45           -
LGA    -       -      W      46           -
LGA    I      47      I      47          2.771
LGA    -       -      G      48           -
LGA    -       -      N      49           -
LGA    -       -      G      50           -
LGA    -       -      A      51           -
LGA    N      49      D      52           #
LGA    G      50      V      53          3.193
LGA    A      51      L      54          2.582
LGA    D      52      S      55          2.675
LGA    -       -      Q      56           -
LGA    L      54      R      57          2.313
LGA    S      55      A      58          3.118
LGA    -       -      V      59           -
LGA    V      59      D      60          2.518
LGA    D      60      W      61          2.531
LGA    -       -      A      62           -
LGA    -       -      C      63           -
LGA    A      62      T      64          1.105
LGA    C      63      Q      65          3.831
LGA    -       -      A      66           -
LGA    -       -      E      67           -
LGA    -       -      K      68           -
LGA    L      70      E      69          4.416
LGA    -       -      L      70           -
LGA    -       -      T      71           -
LGA    -       -      E      72           -
LGA    -       -      D      73           -
LGA    D      73      E      74          1.728
LGA    F      75      F      75          1.776
LGA    K      76      K      76          2.502
LGA    F      78      Y      77          3.797
LGA    K      79      F      78          4.105
LGA    -       -      K      79           -
LGA    -       -      R      80           -
LGA    -       -      Q      81           -
LGA    Q      81      F      82          0.595
LGA    F      82      G      83          1.177
LGA    Y      86      F      84          2.740
LGA    -       -      Y      85           -
LGA    -       -      Y      86           -
LGA    N      89      G      87          0.821
LGA    C      91      E      88          2.333
LGA    -       -      N      89           -
LGA    N      92      L      90          1.620
LGA    -       -      C      91           -
LGA    -       -      N      92           -
LGA    -       -      I      93           -
LGA    -       -      S      94           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   37   77    5.0     34    2.62    29.41     28.902     1.248

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.153856 * X  +   0.070322 * Y  +   0.985588 * Z  +  -1.101962
  Y_new =   0.372925 * X  +   0.927827 * Y  +  -0.007985 * Z  +  18.143290
  Z_new =  -0.915017 * X  +   0.366322 * Y  +  -0.168977 * Z  +  29.051481 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.002990   -1.138602  [ DEG:   114.7629    -65.2371 ]
  Theta =   1.155549    1.986044  [ DEG:    66.2081    113.7919 ]
  Phi   =   1.962088   -1.179504  [ DEG:   112.4194    -67.5806 ]
 
# 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: T0303AL586_1-D2                               
REMARK     2: T0303_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0303AL586_1-D2.T0303_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   37   77   5.0   34   2.62   29.41  28.902
REMARK  ---------------------------------------------------------- 
MOLECULE T0303AL586_1-D2
REMARK Aligment from pdb entry: 1te2_A
ATOM     49  N   SER    18     -11.960  82.877  23.281  1.00  0.00              
ATOM     50  CA  SER    18     -10.877  83.609  23.932  1.00  0.00              
ATOM     51  C   SER    18     -10.240  84.718  23.078  1.00  0.00              
ATOM     52  O   SER    18      -9.505  85.546  23.610  1.00  0.00              
ATOM     53  N   ASP    21     -10.727  88.015  24.402  1.00  0.00              
ATOM     54  CA  ASP    21     -10.016  88.118  25.680  1.00  0.00              
ATOM     55  C   ASP    21      -8.513  88.350  25.498  1.00  0.00              
ATOM     56  O   ASP    21      -7.917  89.193  26.184  1.00  0.00              
ATOM     57  N   LEU    22      -7.896  87.607  24.583  1.00  0.00              
ATOM     58  CA  LEU    22      -6.527  87.882  24.176  1.00  0.00              
ATOM     59  C   LEU    22      -6.393  89.303  23.651  1.00  0.00              
ATOM     60  O   LEU    22      -5.417  89.952  23.921  1.00  0.00              
ATOM     61  N   LEU    24      -8.120  91.979  24.465  1.00  0.00              
ATOM     62  CA  LEU    24      -8.187  92.853  25.633  1.00  0.00              
ATOM     63  C   LEU    24      -6.890  92.787  26.462  1.00  0.00              
ATOM     64  O   LEU    24      -6.394  93.810  26.915  1.00  0.00              
ATOM     65  N  AILE    26      -3.821  92.004  25.330  1.00  0.00              
ATOM     66  N  BILE    26      -3.931  91.974  25.348  1.00  0.00              
ATOM     67  CA AILE    26      -2.775  92.697  24.500  1.00  0.00              
ATOM     68  CA BILE    26      -2.948  92.530  24.458  1.00  0.00              
ATOM     69  C  AILE    26      -2.975  94.194  24.560  1.00  0.00              
ATOM     70  C  BILE    26      -3.007  94.081  24.480  1.00  0.00              
ATOM     71  O  AILE    26      -2.021  94.943  24.762  1.00  0.00              
ATOM     72  O  BILE    26      -1.981  94.749  24.614  1.00  0.00              
ATOM     73  N   ASN    27      -4.220  94.622  24.391  1.00  0.00              
ATOM     74  CA  ASN    27      -4.516  96.059  24.409  1.00  0.00              
ATOM     75  C   ASN    27      -4.082  96.714  25.706  1.00  0.00              
ATOM     76  O   ASN    27      -3.395  97.726  25.697  1.00  0.00              
ATOM     77  N   ALA    29      -2.037  95.636  28.081  1.00  0.00              
ATOM     78  CA  ALA    29      -0.592  95.595  28.331  1.00  0.00              
ATOM     79  C   ALA    29       0.138  96.592  27.428  1.00  0.00              
ATOM     80  O   ALA    29       0.942  97.382  27.899  1.00  0.00              
ATOM     81  N   LEU    30      -0.145  96.559  26.128  1.00  0.00              
ATOM     82  CA  LEU    30       0.463  97.509  25.190  1.00  0.00              
ATOM     83  C   LEU    30       0.179  98.958  25.582  1.00  0.00              
ATOM     84  O   LEU    30       1.069  99.793  25.529  1.00  0.00              
ATOM     85  N   VAL    33       2.423 100.280  28.247  1.00  0.00              
ATOM     86  CA  VAL    33       3.806 100.504  27.809  1.00  0.00              
ATOM     87  C   VAL    33       3.997 101.794  27.029  1.00  0.00              
ATOM     88  O   VAL    33       5.130 102.149  26.674  1.00  0.00              
ATOM     89  N   PRO    36       2.435 102.254  24.135  1.00  0.00              
ATOM     90  CA  PRO    36       2.256 101.908  22.733  1.00  0.00              
ATOM     91  C   PRO    36       0.964 102.532  22.197  1.00  0.00              
ATOM     92  O   PRO    36      -0.102 102.415  22.786  1.00  0.00              
ATOM     93  N   ALA    38      -1.953 102.470  20.297  1.00  0.00              
ATOM     94  CA  ALA    38      -2.862 101.412  19.874  1.00  0.00              
ATOM     95  C   ALA    38      -3.573 101.699  18.549  1.00  0.00              
ATOM     96  O   ALA    38      -3.835 100.776  17.786  1.00  0.00              
ATOM     97  N   GLU    40      -2.610 102.671  15.846  1.00  0.00              
ATOM     98  CA  GLU    40      -1.845 102.126  14.727  1.00  0.00              
ATOM     99  C   GLU    40      -1.862 100.600  14.660  1.00  0.00              
ATOM    100  O   GLU    40      -0.951  99.989  14.103  1.00  0.00              
ATOM    101  N   VAL    43      -1.503  98.713  11.302  1.00  0.00              
ATOM    102  CA  VAL    43      -0.180  98.519  10.706  1.00  0.00              
ATOM    103  C   VAL    43       0.295  97.073  10.706  1.00  0.00              
ATOM    104  O   VAL    43       1.116  96.693   9.867  1.00  0.00              
ATOM    105  N   MET    44      -0.207  96.272  11.643  1.00  0.00              
ATOM    106  CA  MET    44       0.184  94.870  11.722  1.00  0.00              
ATOM    107  C   MET    44      -0.614  94.049  10.715  1.00  0.00              
ATOM    108  O   MET    44      -1.736  94.421  10.332  1.00  0.00              
ATOM    109  N   ILE    47      -4.440  86.375  13.243  1.00  0.00              
ATOM    110  CA  ILE    47      -5.325  85.336  13.765  1.00  0.00              
ATOM    111  C   ILE    47      -4.624  83.972  13.768  1.00  0.00              
ATOM    112  O   ILE    47      -4.185  83.494  12.724  1.00  0.00              
ATOM    113  N   ASN    49      -1.843  83.246  15.346  1.00  0.00              
ATOM    114  CA  ASN    49      -0.417  83.345  15.609  1.00  0.00              
ATOM    115  C   ASN    49      -0.188  83.319  17.116  1.00  0.00              
ATOM    116  O   ASN    49      -1.011  83.811  17.898  1.00  0.00              
ATOM    117  N   GLY    50       0.933  82.720  17.512  1.00  0.00              
ATOM    118  CA  GLY    50       1.375  82.697  18.902  1.00  0.00              
ATOM    119  C   GLY    50       1.669  84.110  19.415  1.00  0.00              
ATOM    120  O   GLY    50       2.158  84.979  18.677  1.00  0.00              
ATOM    121  N   ALA    51       1.361  84.327  20.689  1.00  0.00              
ATOM    122  CA  ALA    51       1.450  85.658  21.292  1.00  0.00              
ATOM    123  C   ALA    51       2.817  86.326  21.142  1.00  0.00              
ATOM    124  O   ALA    51       2.893  87.543  20.990  1.00  0.00              
ATOM    125  N  AASP    52       3.907  85.540  21.194  1.00  0.00              
ATOM    126  N  BASP    52       3.880  85.540  21.198  1.00  0.00              
ATOM    127  CA AASP    52       5.273  86.162  21.116  1.00  0.00              
ATOM    128  CA BASP    52       5.219  86.095  21.084  1.00  0.00              
ATOM    129  C  AASP    52       5.508  86.771  19.699  1.00  0.00              
ATOM    130  C  BASP    52       5.413  86.794  19.737  1.00  0.00              
ATOM    131  O  AASP    52       6.227  87.750  19.564  1.00  0.00              
ATOM    132  O  BASP    52       6.019  87.846  19.679  1.00  0.00              
ATOM    133  N   LEU    54       3.114  88.165  17.932  1.00  0.00              
ATOM    134  CA  LEU    54       2.319  89.393  17.984  1.00  0.00              
ATOM    135  C   LEU    54       3.064  90.487  18.750  1.00  0.00              
ATOM    136  O   LEU    54       3.127  91.630  18.311  1.00  0.00              
ATOM    137  N   SER    55       3.678  90.132  19.879  1.00  0.00              
ATOM    138  CA  SER    55       4.441  91.103  20.661  1.00  0.00              
ATOM    139  C   SER    55       5.617  91.625  19.827  1.00  0.00              
ATOM    140  O   SER    55       5.897  92.820  19.818  1.00  0.00              
ATOM    141  N   VAL    59       5.714  91.779  16.606  1.00  0.00              
ATOM    142  CA  VAL    59       5.149  92.630  15.549  1.00  0.00              
ATOM    143  C   VAL    59       4.942  94.060  16.063  1.00  0.00              
ATOM    144  O   VAL    59       5.329  95.021  15.403  1.00  0.00              
ATOM    145  N   ASP    60       4.342  94.205  17.246  1.00  0.00              
ATOM    146  CA  ASP    60       4.202  95.517  17.879  1.00  0.00              
ATOM    147  C   ASP    60       5.534  96.181  18.153  1.00  0.00              
ATOM    148  O   ASP    60       5.677  97.369  17.938  1.00  0.00              
ATOM    149  N   ALA    62       7.236  97.808  15.185  1.00  0.00              
ATOM    150  CA  ALA    62       6.599  99.084  14.838  1.00  0.00              
ATOM    151  C   ALA    62       6.916 100.162  15.856  1.00  0.00              
ATOM    152  O   ALA    62       7.332 101.266  15.505  1.00  0.00              
ATOM    153  N   CYS    63       6.693  99.841  17.126  1.00  0.00              
ATOM    154  CA  CYS    63       6.817 100.810  18.206  1.00  0.00              
ATOM    155  C   CYS    63       7.563 100.227  19.402  1.00  0.00              
ATOM    156  O   CYS    63       6.926  99.873  20.402  1.00  0.00              
ATOM    157  N   LEU    70       9.293  99.632  22.778  1.00  0.00              
ATOM    158  CA  LEU    70       9.171 100.230  24.100  1.00  0.00              
ATOM    159  C   LEU    70      10.368  99.864  24.969  1.00  0.00              
ATOM    160  O   LEU    70      11.142  98.969  24.630  1.00  0.00              
ATOM    161  N   ASP    73       9.991  96.546  30.367  1.00  0.00              
ATOM    162  CA  ASP    73       9.789  95.106  30.179  1.00  0.00              
ATOM    163  C   ASP    73      10.291  94.628  28.829  1.00  0.00              
ATOM    164  O   ASP    73      10.074  95.307  27.837  1.00  0.00              
ATOM    165  N   PHE    75      10.349  91.946  25.583  1.00  0.00              
ATOM    166  CA  PHE    75       9.267  91.304  24.865  1.00  0.00              
ATOM    167  C   PHE    75       8.787  90.049  25.592  1.00  0.00              
ATOM    168  O   PHE    75       7.590  89.823  25.689  1.00  0.00              
ATOM    169  N   LYS    76       9.706  89.237  26.115  1.00  0.00              
ATOM    170  CA  LYS    76       9.290  88.008  26.813  1.00  0.00              
ATOM    171  C   LYS    76       8.532  88.321  28.110  1.00  0.00              
ATOM    172  O   LYS    76       7.554  87.666  28.424  1.00  0.00              
ATOM    173  N   PHE    78       6.736  90.961  28.531  1.00  0.00              
ATOM    174  CA  PHE    78       5.439  91.423  28.022  1.00  0.00              
ATOM    175  C   PHE    78       4.549  90.245  27.618  1.00  0.00              
ATOM    176  O   PHE    78       3.351  90.230  27.921  1.00  0.00              
ATOM    177  N   LYS    79       5.136  89.241  26.977  1.00  0.00              
ATOM    178  CA  LYS    79       4.411  88.024  26.613  1.00  0.00              
ATOM    179  C   LYS    79       3.793  87.387  27.853  1.00  0.00              
ATOM    180  O   LYS    79       2.625  86.991  27.855  1.00  0.00              
ATOM    181  N   GLN    81       0.795  89.358  29.181  1.00  0.00              
ATOM    182  CA  GLN    81      -0.400  89.215  28.356  1.00  0.00              
ATOM    183  C   GLN    81      -1.053  87.854  28.641  1.00  0.00              
ATOM    184  O   GLN    81      -2.267  87.778  28.853  1.00  0.00              
ATOM    185  N   PHE    82      -0.236  86.803  28.685  1.00  0.00              
ATOM    186  CA  PHE    82      -0.730  85.450  28.952  1.00  0.00              
ATOM    187  C   PHE    82      -1.494  85.403  30.284  1.00  0.00              
ATOM    188  O   PHE    82      -2.579  84.826  30.383  1.00  0.00              
ATOM    189  N   TYR    86      -2.919  87.794  32.016  1.00  0.00              
ATOM    190  CA  TYR    86      -4.149  88.575  31.907  1.00  0.00              
ATOM    191  C   TYR    86      -5.221  87.809  31.129  1.00  0.00              
ATOM    192  O   TYR    86      -6.364  87.716  31.549  1.00  0.00              
ATOM    193  N   ASN    89      -5.489  84.537  30.720  1.00  0.00              
ATOM    194  CA  ASN    89      -5.934  83.412  31.546  1.00  0.00              
ATOM    195  C   ASN    89      -6.976  83.873  32.566  1.00  0.00              
ATOM    196  O   ASN    89      -8.029  83.250  32.696  1.00  0.00              
ATOM    197  N   CYS    91      -8.955  86.359  32.400  1.00  0.00              
ATOM    198  CA  CYS    91     -10.166  86.699  31.682  1.00  0.00              
ATOM    199  C   CYS    91     -10.962  85.457  31.303  1.00  0.00              
ATOM    200  O   CYS    91     -12.185  85.471  31.373  1.00  0.00              
ATOM    201  N   ASN    92     -10.276  84.384  30.914  1.00  0.00              
ATOM    202  CA  ASN    92     -10.961  83.140  30.570  1.00  0.00              
ATOM    203  C   ASN    92     -11.616  82.531  31.813  1.00  0.00              
ATOM    204  O   ASN    92     -12.771  82.150  31.773  1.00  0.00              
END
