
#######################################################
#                                                     #
#                        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  141 (  141),  selected  141 , name T0357TS393_4
# Molecule2: number of CA atoms  132 ( 2030),  selected  132 , name T0357.pdb
# PARAMETERS: T0357TS393_4.T0357.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      V       2           -
LGA    V       2      K       3           -
LGA    K       3      F       4           -
LGA    F       4      A       5           -
LGA    A       5      C       6           -
LGA    C       6      R       7           -
LGA    R       7      A       8           -
LGA    A       8      I       9           -
LGA    -       -      T      10           -
LGA    -       -      R      11           -
LGA    -       -      G      12           -
LGA    -       -      R      13           -
LGA    -       -      A      14           -
LGA    -       -      E      15           -
LGA    -       -      G      16           -
LGA    -       -      E      17           -
LGA    -       -      A      18           -
LGA    -       -      L      19           -
LGA    I       9      V      20           #
LGA    T      10      T      21           -
LGA    R      11      K      22           -
LGA    G      12      -       -           -
LGA    R      13      E      23          1.911
LGA    A      14      Y      24          2.766
LGA    E      15      I      25          4.966
LGA    G      16      S      26           #
LGA    E      17      F      27          4.789
LGA    A      18      -       -           -
LGA    L      19      -       -           -
LGA    V      20      L      28           #
LGA    T      21      G      29           -
LGA    K      22      G      30           -
LGA    E      23      I      31           -
LGA    Y      24      -       -           -
LGA    I      25      D      32          4.962
LGA    S      26      K      33          3.214
LGA    -       -      E      34           -
LGA    F      27      T      35          3.988
LGA    L      28      G      36           #
LGA    G      29      -       -           -
LGA    G      30      -       -           -
LGA    I      31      I      37          1.904
LGA    D      32      V      38          3.282
LGA    K      33      K      39          3.474
LGA    E      34      E      40          4.852
LGA    -       -      D      41           -
LGA    -       -      C      42           -
LGA    -       -      E      43           -
LGA    -       -      I      44           -
LGA    T      35      K      45           #
LGA    G      36      G      46           -
LGA    I      37      E      47           -
LGA    -       -      S      48           -
LGA    V      38      V      49          3.075
LGA    K      39      A      50           #
LGA    E      40      -       -           -
LGA    D      41      -       -           -
LGA    C      42      -       -           -
LGA    E      43      -       -           -
LGA    I      44      G      51           #
LGA    K      45      -       -           -
LGA    G      46      -       -           -
LGA    E      47      -       -           -
LGA    S      48      -       -           -
LGA    V      49      -       -           -
LGA    A      50      -       -           -
LGA    G      51      R      52          3.494
LGA    R      52      I      53          1.829
LGA    I      53      L      54          0.973
LGA    L      54      V      55           #
LGA    V      55      F      56           #
LGA    F      56      P      57           -
LGA    -       -      G      58           -
LGA    -       -      G      59           -
LGA    P      57      K      60          4.747
LGA    G      58      G      61          4.049
LGA    G      59      S      62          3.190
LGA    K      60      T      63          1.746
LGA    G      61      V      64          0.462
LGA    S      62      G      65          4.449
LGA    T      63      -       -           -
LGA    V      64      S      66           #
LGA    G      65      Y      67           -
LGA    -       -      V      68           -
LGA    S      66      L      69          4.462
LGA    Y      67      L      70          3.903
LGA    V      68      N      71          4.379
LGA    L      69      L      72          4.084
LGA    L      70      R      73          2.172
LGA    N      71      K      74          1.960
LGA    L      72      N      75          3.430
LGA    R      73      G      76          4.081
LGA    K      74      V      77           -
LGA    N      75      A      78           -
LGA    G      76      -       -           -
LGA    V      77      -       -           -
LGA    A      78      -       -           -
LGA    P      79      P      79          4.190
LGA    K      80      K      80          1.808
LGA    A      81      A      81          3.769
LGA    I      82      I      82          0.871
LGA    I      83      I      83          5.026
LGA    N      84      N      84          5.436
LGA    -       -      K      85           -
LGA    K      85      K      86          5.011
LGA    K      86      T      87           #
LGA    T      87      E      88           #
LGA    E      88      -       -           -
LGA    T      89      T      89          1.641
LGA    I      90      I      90          1.724
LGA    I      91      I      91          1.973
LGA    A      92      A      92          1.924
LGA    V      93      V      93          1.958
LGA    G      94      G      94          2.156
LGA    A      95      A      95          1.726
LGA    A      96      A      96          1.719
LGA    M      97      M      97          2.466
LGA    A      98      A      98          1.825
LGA    E      99      E      99          1.919
LGA    I     100      I     100          1.732
LGA    P     101      P     101          2.245
LGA    L     102      L     102          3.287
LGA    V     103      V     103          2.054
LGA    E     104      E     104           #
LGA    V     105      -       -           -
LGA    R     106      -       -           -
LGA    D     107      -       -           -
LGA    E     108      -       -           -
LGA    K     109      -       -           -
LGA    F     110      -       -           -
LGA    F     111      V     105          1.513
LGA    E     112      R     106          2.630
LGA    A     113      D     107          5.104
LGA    V     114      E     108           #
LGA    K     115      K     109          4.696
LGA    T     116      F     110          3.778
LGA    G     117      F     111          3.208
LGA    -       -      E     112           -
LGA    -       -      A     113           -
LGA    -       -      V     114           -
LGA    D     118      K     115          4.048
LGA    R     119      T     116          3.666
LGA    -       -      G     117           -
LGA    -       -      D     118           -
LGA    V     120      R     119           #
LGA    V     121      V     120           #
LGA    V     122      V     121           #
LGA    N     123      V     122          3.942
LGA    A     124      N     123          2.014
LGA    D     125      A     124          3.050
LGA    -       -      D     125           -
LGA    -       -      E     126           -
LGA    -       -      G     127           -
LGA    E     126      Y     128          1.866
LGA    G     127      V     129          1.263
LGA    Y     128      E     130           #
LGA    V     129      L     131           -
LGA    E     130      I     132           -
LGA    L     131      E     133           -
LGA    I     132      -       -           -
LGA    E     133      -       -           -
LGA    L     134      -       -           -
LGA    E     135      -       -           -
LGA    H     136      -       -           -
LGA    H     137      -       -           -
LGA    H     138      -       -           -
LGA    H     139      -       -           -
LGA    H     140      -       -           -
LGA    H     141      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  132    5.0     64    3.29    45.31     27.567     1.890

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.407348 * X  +   0.824989 * Y  +   0.391741 * Z  +  -1.780632
  Y_new =  -0.775577 * X  +  -0.538984 * Y  +   0.328600 * Z  +  -1.772430
  Z_new =   0.482233 * X  +  -0.169971 * Y  +   0.859396 * Z  +  -1.373172 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.195260    2.946333  [ DEG:   -11.1876    168.8125 ]
  Theta =  -0.503202   -2.638391  [ DEG:   -28.8313   -151.1687 ]
  Phi   =  -2.054415    1.087177  [ DEG:  -117.7093     62.2907 ]
 
# 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: T0357TS393_4                                  
REMARK     2: T0357.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0357TS393_4.T0357.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  132   5.0   64   3.29   45.31  27.567
REMARK  ---------------------------------------------------------- 
MOLECULE T0357TS393_4
PFRMAT TS
TARGET T0357
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1     -14.612   9.816  13.862  1.00 25.00           C
ATOM      2  CA  VAL     2     -11.747   7.570  12.601  1.00 25.00           C
ATOM      3  CA  LYS     3      -8.437   7.357  10.653  1.00 25.00           C
ATOM      4  CA  PHE     4      -7.008   4.216   9.122  1.00 25.00           C
ATOM      5  CA  ALA     5      -8.952   1.341   7.432  1.00 25.00           C
ATOM      6  CA  CYS     6      -5.571  -0.466   7.567  1.00 25.00           C
ATOM      7  CA  ARG     7      -2.739   1.650   6.322  1.00 25.00           C
ATOM      8  CA  ALA     8      -1.978   3.319   2.941  1.00 25.00           C
ATOM      9  CA  ILE     9      -4.323   5.400   0.789  1.00 25.00           C
ATOM     10  CA  THR    10      -7.214   7.820   0.276  1.00 25.00           C
ATOM     11  CA  ARG    11     -10.305   7.741   2.391  1.00 25.00           C
ATOM     12  CA  GLY    12     -12.836   5.194   3.588  1.00 25.00           C
ATOM     13  CA  ARG    13     -12.700   3.612   0.101  1.00 25.00           C
ATOM     14  CA  ALA    14      -9.281   1.906   0.148  1.00 25.00           C
ATOM     15  CA  GLU    15      -6.670   1.383   2.946  1.00 25.00           C
ATOM     16  CA  GLY    16      -5.053  -0.956   0.405  1.00 25.00           C
ATOM     17  CA  GLU    17      -3.622  -2.666   3.489  1.00 25.00           C
ATOM     18  CA  ALA    18      -0.588  -3.966   1.643  1.00 25.00           C
ATOM     19  CA  LEU    19      -1.968  -6.809   3.788  1.00 25.00           C
ATOM     20  CA  VAL    20      -1.126 -10.010   5.631  1.00 25.00           C
ATOM     21  CA  THR    21       1.709 -12.571   5.541  1.00 25.00           C
ATOM     22  CA  LYS    22      -1.048 -15.056   6.569  1.00 25.00           C
ATOM     23  CA  GLU    23      -3.098 -18.014   5.230  1.00 25.00           C
ATOM     24  CA  TYR    24      -2.673 -19.090   1.597  1.00 25.00           C
ATOM     25  CA  ILE    25      -3.165 -16.261  -0.959  1.00 25.00           C
ATOM     26  CA  SER    26      -4.378 -17.911  -4.164  1.00 25.00           C
ATOM     27  CA  PHE    27      -6.322 -14.713  -4.881  1.00 25.00           C
ATOM     28  CA  LEU    28      -9.539 -16.617  -4.350  1.00 25.00           C
ATOM     29  CA  GLY    29     -10.393 -16.251  -7.996  1.00 25.00           C
ATOM     30  CA  GLY    30     -10.619 -13.763 -10.846  1.00 25.00           C
ATOM     31  CA  ILE    31      -8.754 -11.505  -8.471  1.00 25.00           C
ATOM     32  CA  ASP    32     -11.164 -11.274  -5.486  1.00 25.00           C
ATOM     33  CA  LYS    33     -12.868 -11.826  -2.091  1.00 25.00           C
ATOM     34  CA  GLU    34     -10.091  -9.914  -0.331  1.00 25.00           C
ATOM     35  CA  THR    35      -7.931  -7.492  -2.369  1.00 25.00           C
ATOM     36  CA  GLY    36      -5.428  -6.007   0.090  1.00 25.00           C
ATOM     37  CA  ILE    37      -2.880  -4.387  -2.177  1.00 25.00           C
ATOM     38  CA  VAL    38      -1.871  -6.009  -5.524  1.00 25.00           C
ATOM     39  CA  LYS    39      -3.172  -5.196  -8.998  1.00 25.00           C
ATOM     40  CA  GLU    40      -5.803  -3.684 -11.299  1.00 25.00           C
ATOM     41  CA  ASP    41      -4.975  -4.929 -14.852  1.00 25.00           C
ATOM     42  CA  CYS    42      -2.120  -2.441 -15.281  1.00 25.00           C
ATOM     43  CA  GLU    43       0.108  -5.431 -15.940  1.00 25.00           C
ATOM     44  CA  ILE    44       3.017  -3.007 -15.814  1.00 25.00           C
ATOM     45  CA  LYS    45       2.095  -2.002 -19.352  1.00 25.00           C
ATOM     46  CA  GLY    46       1.998   1.671 -20.249  1.00 25.00           C
ATOM     47  CA  GLU    47       3.101   3.964 -17.409  1.00 25.00           C
ATOM     48  CA  SER    48       3.517   3.388 -13.699  1.00 25.00           C
ATOM     49  CA  VAL    49       4.798   4.254 -10.172  1.00 25.00           C
ATOM     50  CA  ALA    50       7.393   1.505 -10.441  1.00 25.00           C
ATOM     51  CA  GLY    51       4.255  -0.709 -10.524  1.00 25.00           C
ATOM     52  CA  ARG    52       0.958  -1.621  -8.768  1.00 25.00           C
ATOM     53  CA  ILE    53      -0.936  -1.097  -5.549  1.00 25.00           C
ATOM     54  CA  LEU    54      -4.701  -1.804  -5.614  1.00 25.00           C
ATOM     55  CA  VAL    55      -7.673  -2.550  -3.416  1.00 25.00           C
ATOM     56  CA  PHE    56      -9.910  -3.238  -0.439  1.00 25.00           C
ATOM     57  CA  PRO    57     -10.490  -2.784   3.310  1.00 25.00           C
ATOM     58  CA  GLY    58      -9.087  -4.103   6.626  1.00 25.00           C
ATOM     59  CA  GLY    59      -5.599  -5.619   7.081  1.00 25.00           C
ATOM     60  CA  LYS    60      -6.629  -5.778  10.744  1.00 25.00           C
ATOM     61  CA  GLY    61      -5.000  -9.209  10.327  1.00 25.00           C
ATOM     62  CA  SER    62      -7.070 -10.476   7.324  1.00 25.00           C
ATOM     63  CA  THR    63      -6.222  -9.546   3.717  1.00 25.00           C
ATOM     64  CA  VAL    64      -3.680 -11.398   1.543  1.00 25.00           C
ATOM     65  CA  GLY    65      -3.527 -10.319  -2.129  1.00 25.00           C
ATOM     66  CA  SER    66      -0.581  -8.001  -1.350  1.00 25.00           C
ATOM     67  CA  TYR    67       1.225 -10.858   0.451  1.00 25.00           C
ATOM     68  CA  VAL    68       0.632 -13.158  -2.553  1.00 25.00           C
ATOM     69  CA  LEU    69       2.015 -10.475  -4.911  1.00 25.00           C
ATOM     70  CA  LEU    70       5.108 -10.081  -2.687  1.00 25.00           C
ATOM     71  CA  ASN    71       5.632 -13.874  -2.701  1.00 25.00           C
ATOM     72  CA  LEU    72       5.338 -13.925  -6.519  1.00 25.00           C
ATOM     73  CA  ARG    73       7.897 -11.088  -6.779  1.00 25.00           C
ATOM     74  CA  LYS    74      10.284 -12.996  -4.471  1.00 25.00           C
ATOM     75  CA  ASN    75      12.434  -9.862  -4.650  1.00 25.00           C
ATOM     76  CA  GLY    76      13.368  -7.208  -7.208  1.00 25.00           C
ATOM     77  CA  VAL    77      10.619  -4.853  -8.274  1.00 25.00           C
ATOM     78  CA  ALA    78       9.656  -5.036  -4.644  1.00 25.00           C
ATOM     79  CA  PRO    79       6.050  -6.255  -5.236  1.00 25.00           C
ATOM     80  CA  LYS    80       4.612  -2.780  -5.225  1.00 25.00           C
ATOM     81  CA  ALA    81       2.295  -4.038  -2.488  1.00 25.00           C
ATOM     82  CA  ILE    82       2.187  -0.479  -1.107  1.00 25.00           C
ATOM     83  CA  ILE    83       2.007   0.244   2.554  1.00 25.00           C
ATOM     84  CA  ASN    84       2.178   2.481   5.595  1.00 25.00           C
ATOM     85  CA  LYS    85       1.734   4.938   8.435  1.00 25.00           C
ATOM     86  CA  LYS    86       1.872   3.943  12.136  1.00 25.00           C
ATOM     87  CA  THR    87       4.640   1.645  10.935  1.00 25.00           C
ATOM     88  CA  GLU    88       3.623  -1.444  12.908  1.00 25.00           C
ATOM     89  CA  THR    89       0.097  -0.727  11.852  1.00 25.00           C
ATOM     90  CA  ILE    90      -1.135  -4.178  10.738  1.00 25.00           C
ATOM     91  CA  ILE    91      -1.023  -3.063   7.076  1.00 25.00           C
ATOM     92  CA  ALA    92       2.547  -1.763   7.556  1.00 25.00           C
ATOM     93  CA  VAL    93       3.573  -5.093   9.145  1.00 25.00           C
ATOM     94  CA  GLY    94       2.024  -7.001   6.207  1.00 25.00           C
ATOM     95  CA  ALA    95       3.914  -4.772   3.732  1.00 25.00           C
ATOM     96  CA  ALA    96       7.183  -5.403   5.623  1.00 25.00           C
ATOM     97  CA  MET    97       6.536  -9.176   5.535  1.00 25.00           C
ATOM     98  CA  ALA    98       5.868  -8.999   1.768  1.00 25.00           C
ATOM     99  CA  GLU    99       8.070  -6.155   0.687  1.00 25.00           C
ATOM    100  CA  ILE   100       6.899  -2.627  -0.106  1.00 25.00           C
ATOM    101  CA  PRO   101       7.597   0.644   1.703  1.00 25.00           C
ATOM    102  CA  LEU   102       5.777   3.886   0.852  1.00 25.00           C
ATOM    103  CA  VAL   103       5.733   5.715   4.122  1.00 25.00           C
ATOM    104  CA  GLU   104       7.138   4.510   7.434  1.00 25.00           C
ATOM    105  CA  VAL   105      10.980   4.499   7.375  1.00 25.00           C
ATOM    106  CA  ARG   106      11.525   4.841   3.582  1.00 25.00           C
ATOM    107  CA  ASP   107      12.583   8.464   4.043  1.00 25.00           C
ATOM    108  CA  GLU   108       9.031   9.686   4.621  1.00 25.00           C
ATOM    109  CA  LYS   109       6.265  11.794   3.154  1.00 25.00           C
ATOM    110  CA  PHE   110       5.496   9.373   0.287  1.00 25.00           C
ATOM    111  CA  PHE   111       1.974   8.805   1.679  1.00 25.00           C
ATOM    112  CA  GLU   112       1.430  12.588   1.915  1.00 25.00           C
ATOM    113  CA  ALA   113       2.605  13.008  -1.706  1.00 25.00           C
ATOM    114  CA  VAL   114       0.205  10.244  -2.830  1.00 25.00           C
ATOM    115  CA  LYS   115      -2.672  11.950  -0.966  1.00 25.00           C
ATOM    116  CA  THR   116      -4.625  11.251  -4.144  1.00 25.00           C
ATOM    117  CA  GLY   117      -3.870   7.576  -4.770  1.00 25.00           C
ATOM    118  CA  ASP   118      -5.547   5.698  -7.604  1.00 25.00           C
ATOM    119  CA  ARG   119      -3.969   2.574  -9.068  1.00 25.00           C
ATOM    120  CA  VAL   120      -0.872   3.675  -7.067  1.00 25.00           C
ATOM    121  CA  VAL   121       2.584   2.487  -6.018  1.00 25.00           C
ATOM    122  CA  VAL   122       5.804   1.684  -4.134  1.00 25.00           C
ATOM    123  CA  ASN   123       9.044   0.256  -5.470  1.00 25.00           C
ATOM    124  CA  ALA   124      10.772   2.905  -3.309  1.00 25.00           C
ATOM    125  CA  ASP   125      11.414   6.317  -1.754  1.00 25.00           C
ATOM    126  CA  GLU   126       9.472   8.572  -4.105  1.00 25.00           C
ATOM    127  CA  GLY   127       5.941   7.868  -5.122  1.00 25.00           C
ATOM    128  CA  TYR   128       3.357   6.125  -2.966  1.00 25.00           C
ATOM    129  CA  VAL   129       0.442   4.313  -1.414  1.00 25.00           C
ATOM    130  CA  GLU   130      -2.402   1.932  -2.505  1.00 25.00           C
ATOM    131  CA  LEU   131      -5.980   2.364  -3.620  1.00 25.00           C
ATOM    132  CA  ILE   132      -9.179   2.076  -5.552  1.00 25.00           C
ATOM    133  CA  GLU   133     -12.483   3.283  -7.111  1.00 25.00           C
ATOM    134  CA  LEU   134     -15.827   4.046  -8.789  1.00 25.00           C
ATOM    135  CA  GLU   135     -18.916   5.653 -10.423  1.00 25.00           C
ATOM    136  CA  HIS   136     -21.991   4.670 -12.351  1.00 25.00           C
ATOM    137  CA  HIS   137     -22.378   1.602 -14.486  1.00 25.00           C
ATOM    138  CA  HIS   138     -26.146   1.659 -13.727  1.00 25.00           C
ATOM    139  CA  HIS   139     -27.771   0.359 -10.533  1.00 25.00           C
ATOM    140  CA  HIS   140     -31.179   1.981 -11.012  1.00 25.00           C
ATOM    141  CA  HIS   141     -33.727  -0.887 -10.872  1.00 25.00           C
TER
END
