
#######################################################
#                                                     #
#                        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   91 (   91),  selected   91 , name T0350TS168_4-D1
# Molecule2: number of CA atoms   91 ( 1511),  selected   91 , name T0350_D1.pdb
# PARAMETERS: T0350TS168_4-D1.T0350_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    N       2      N       2           -
LGA    I       3      I       3           -
LGA    E       4      -       -           -
LGA    R       5      -       -           -
LGA    L       6      -       -           -
LGA    T       7      -       -           -
LGA    T       8      -       -           -
LGA    L       9      -       -           -
LGA    Q      10      -       -           -
LGA    P      11      -       -           -
LGA    V      12      -       -           -
LGA    W      13      -       -           -
LGA    D      14      -       -           -
LGA    R      15      -       -           -
LGA    Y      16      -       -           -
LGA    D      17      -       -           -
LGA    T      18      -       -           -
LGA    Q      19      -       -           -
LGA    I      20      E       4           #
LGA    H      21      -       -           -
LGA    S      36      R       5          2.931
LGA    Y      37      L       6          4.364
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      T       7          2.594
LGA    A      41      T       8          1.636
LGA    E      42      -       -           -
LGA    M      43      -       -           -
LGA    V      44      L       9          0.860
LGA    G      45      Q      10          1.028
LGA    E      46      P      11          1.344
LGA    M      47      V      12          1.475
LGA    N      48      W      13          1.581
LGA    K      49      D      14          1.825
LGA    L      50      R      15          1.849
LGA    L      51      Y      16          2.511
LGA    E      52      D      17          2.254
LGA    P      53      T      18          1.591
LGA    S      54      Q      19          1.882
LGA    Q      55      -       -           -
LGA    V      56      -       -           -
LGA    H      57      -       -           -
LGA    L      58      -       -           -
LGA    K      59      -       -           -
LGA    F      60      -       -           -
LGA    E      61      -       -           -
LGA    L      62      -       -           -
LGA    H      63      -       -           -
LGA    D      64      -       -           -
LGA    K      65      -       -           -
LGA    L      66      -       -           -
LGA    N      67      -       -           -
LGA    E      68      -       -           -
LGA    Y      69      -       -           -
LGA    Y      70      -       -           -
LGA    V      71      -       -           -
LGA    K      72      -       -           -
LGA    V      73      -       -           -
LGA    I      74      -       -           -
LGA    E      75      -       -           -
LGA    D      76      -       -           -
LGA    S      77      -       -           -
LGA    T      78      -       -           -
LGA    N      79      -       -           -
LGA    E      80      -       -           -
LGA    V      81      -       -           -
LGA    I      82      -       -           -
LGA    R      83      -       -           -
LGA    E      84      -       -           -
LGA    I      85      -       -           -
LGA    P      86      I      20          3.748
LGA    P      87      H      21           -
LGA    -       -      S      36           -
LGA    -       -      Y      37           -
LGA    -       -      T      38           -
LGA    -       -      N      39           -
LGA    -       -      L      40           -
LGA    -       -      A      41           -
LGA    -       -      E      42           -
LGA    -       -      M      43           -
LGA    -       -      V      44           -
LGA    -       -      G      45           -
LGA    -       -      E      46           -
LGA    -       -      M      47           -
LGA    -       -      N      48           -
LGA    -       -      K      49           -
LGA    -       -      L      50           -
LGA    -       -      L      51           -
LGA    -       -      E      52           -
LGA    -       -      P      53           -
LGA    -       -      S      54           -
LGA    -       -      Q      55           -
LGA    -       -      V      56           -
LGA    -       -      H      57           -
LGA    -       -      L      58           -
LGA    -       -      K      59           -
LGA    -       -      F      60           -
LGA    -       -      E      61           -
LGA    -       -      L      62           -
LGA    -       -      H      63           -
LGA    -       -      D      64           -
LGA    -       -      K      65           -
LGA    -       -      L      66           -
LGA    -       -      N      67           -
LGA    -       -      E      68           -
LGA    -       -      Y      69           -
LGA    -       -      Y      70           -
LGA    -       -      V      71           -
LGA    -       -      K      72           -
LGA    -       -      V      73           -
LGA    -       -      I      74           -
LGA    -       -      E      75           -
LGA    -       -      D      76           -
LGA    -       -      S      77           -
LGA    -       -      T      78           -
LGA    -       -      N      79           -
LGA    -       -      E      80           -
LGA    -       -      V      81           -
LGA    -       -      I      82           -
LGA    -       -      R      83           -
LGA    -       -      E      84           -
LGA    -       -      I      85           -
LGA    -       -      P      86           -
LGA    -       -      P      87           -
LGA    -       -      K      88           -
LGA    K      88      R      89           #
LGA    R      89      W      90          2.484
LGA    -       -      L      91           -
LGA    W      90      D      92          1.957
LGA    L      91      F      93          2.968
LGA    D      92      Y      94          1.264
LGA    F      93      A      95          1.491
LGA    Y      94      A      96          3.315
LGA    A      95      M      97          4.146
LGA    A      96      T      98          4.192
LGA    M      97      E      99          5.360
LGA    T      98      F     100           #
LGA    -       -      L     101           -
LGA    E      99      G     102          4.565
LGA    F     100      -       -           -
LGA    L     101      -       -           -
LGA    G     102      L     103           #
LGA    L     103      F     104           -
LGA    F     104      V     105           -
LGA    V     105      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   91   91    5.0     26    2.78     0.00     21.452     0.901

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.288804 * X  +   0.863537 * Y  +  -0.413395 * Z  +   0.083976
  Y_new =   0.845346 * X  +   0.027312 * Y  +  -0.533520 * Z  +   1.601410
  Z_new =  -0.449424 * X  +  -0.503545 * Y  +  -0.737876 * Z  + -13.849900 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.542760    0.598833  [ DEG:  -145.6894     34.3106 ]
  Theta =   0.466120    2.675473  [ DEG:    26.7067    153.2933 ]
  Phi   =   1.900004   -1.241588  [ DEG:   108.8622    -71.1378 ]
 
# 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: T0350TS168_4-D1                               
REMARK     2: T0350_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS168_4-D1.T0350_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   91   91   5.0   26   2.78    0.00  21.452
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS168_4-D1
PFRMAT TS
TARGET T0350
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1     -10.640   0.002 -35.353  1.00 25.00           C
ATOM      2  CA  ASN     2      -9.139   2.758 -33.238  1.00 25.00           C
ATOM      3  CA  ILE     3      -6.611   5.647 -33.046  1.00 25.00           C
ATOM      4  CA  GLU     4      -4.865   9.035 -33.447  1.00 25.00           C
ATOM      5  CA  ARG     5      -1.481   9.080 -31.757  1.00 25.00           C
ATOM      6  CA  LEU     6      -1.907   5.903 -29.698  1.00 25.00           C
ATOM      7  CA  THR     7      -0.692   7.332 -26.361  1.00 25.00           C
ATOM      8  CA  THR     8       1.849   9.038 -24.111  1.00 25.00           C
ATOM      9  CA  LEU     9       5.338   7.465 -23.787  1.00 25.00           C
ATOM     10  CA  GLN    10       8.910   8.775 -24.096  1.00 25.00           C
ATOM     11  CA  PRO    11      11.283   9.307 -21.175  1.00 25.00           C
ATOM     12  CA  VAL    12       9.601  12.569 -20.370  1.00 25.00           C
ATOM     13  CA  TRP    13       6.401  10.991 -19.166  1.00 25.00           C
ATOM     14  CA  ASP    14       5.698  14.198 -17.196  1.00 25.00           C
ATOM     15  CA  ARG    15       5.324  12.165 -13.972  1.00 25.00           C
ATOM     16  CA  TYR    16       8.643  10.388 -14.677  1.00 25.00           C
ATOM     17  CA  ASP    17      10.351  13.764 -15.271  1.00 25.00           C
ATOM     18  CA  THR    18       8.926  15.093 -11.975  1.00 25.00           C
ATOM     19  CA  GLN    19      10.199  11.981 -10.141  1.00 25.00           C
ATOM     20  CA  ILE    20      13.668  12.458 -11.689  1.00 25.00           C
ATOM     21  CA  HIS    21      13.677  16.129 -10.601  1.00 25.00           C
ATOM     36  CA  SER    36      13.506   4.436  -0.575  1.00 25.00           C
ATOM     37  CA  TYR    37      14.079   1.929  -3.352  1.00 25.00           C
ATOM     38  CA  THR    38      13.307  -1.671  -2.296  1.00 25.00           C
ATOM     39  CA  ASN    39       9.606  -1.149  -3.133  1.00 25.00           C
ATOM     40  CA  LEU    40      10.556   0.256  -6.566  1.00 25.00           C
ATOM     41  CA  ALA    41      12.819  -2.766  -7.204  1.00 25.00           C
ATOM     42  CA  GLU    42       9.977  -5.135  -6.218  1.00 25.00           C
ATOM     43  CA  MET    43       7.593  -3.302  -8.590  1.00 25.00           C
ATOM     44  CA  VAL    44      10.157  -3.583 -11.422  1.00 25.00           C
ATOM     45  CA  GLY    45      10.542  -7.331 -10.734  1.00 25.00           C
ATOM     46  CA  GLU    46       6.738  -7.761 -10.809  1.00 25.00           C
ATOM     47  CA  MET    47       6.566  -5.877 -14.139  1.00 25.00           C
ATOM     48  CA  ASN    48       9.323  -8.114 -15.575  1.00 25.00           C
ATOM     49  CA  LYS    49       7.430 -11.235 -14.414  1.00 25.00           C
ATOM     50  CA  LEU    50       4.223  -9.927 -16.050  1.00 25.00           C
ATOM     51  CA  LEU    51       6.122  -9.274 -19.310  1.00 25.00           C
ATOM     52  CA  GLU    52       7.563 -12.822 -19.211  1.00 25.00           C
ATOM     53  CA  PRO    53       4.056 -14.255 -18.653  1.00 25.00           C
ATOM     54  CA  SER    54       0.908 -12.889 -20.357  1.00 25.00           C
ATOM     55  CA  GLN    55      -1.595 -12.707 -23.239  1.00 25.00           C
ATOM     56  CA  VAL    56      -4.481 -10.831 -21.487  1.00 25.00           C
ATOM     57  CA  HIS    57      -6.861 -12.128 -18.808  1.00 25.00           C
ATOM     58  CA  LEU    58      -3.886 -14.210 -17.669  1.00 25.00           C
ATOM     59  CA  LYS    59      -0.901 -13.087 -15.635  1.00 25.00           C
ATOM     60  CA  PHE    60      -2.275 -11.996 -12.243  1.00 25.00           C
ATOM     61  CA  GLU    61      -2.852 -12.130  -8.500  1.00 25.00           C
ATOM     62  CA  LEU    62      -1.752  -8.628  -7.439  1.00 25.00           C
ATOM     63  CA  HIS    63       0.107  -7.620  -4.220  1.00 25.00           C
ATOM     64  CA  ASP    64      -2.593  -7.234  -1.519  1.00 25.00           C
ATOM     65  CA  LYS    65      -5.732  -5.107  -1.105  1.00 25.00           C
ATOM     66  CA  LEU    66      -3.604  -2.549  -3.026  1.00 25.00           C
ATOM     67  CA  ASN    67      -5.050  -4.149  -6.159  1.00 25.00           C
ATOM     68  CA  GLU    68      -3.446  -3.812  -9.600  1.00 25.00           C
ATOM     69  CA  TYR    69      -0.162  -2.032 -10.150  1.00 25.00           C
ATOM     70  CA  TYR    70       1.078  -5.248 -11.659  1.00 25.00           C
ATOM     71  CA  VAL    71       1.726  -8.983 -11.616  1.00 25.00           C
ATOM     72  CA  LYS    72       2.735 -12.616 -11.621  1.00 25.00           C
ATOM     73  CA  VAL    73       0.816 -15.544 -10.037  1.00 25.00           C
ATOM     74  CA  ILE    74      -0.088 -18.475 -12.346  1.00 25.00           C
ATOM     75  CA  GLU    75      -3.698 -17.551 -13.110  1.00 25.00           C
ATOM     76  CA  ASP    76      -4.093 -20.968 -14.800  1.00 25.00           C
ATOM     77  CA  SER    77      -6.829 -21.499 -12.200  1.00 25.00           C
ATOM     78  CA  THR    78      -9.206 -19.257 -14.092  1.00 25.00           C
ATOM     79  CA  ASN    79      -9.523 -17.239 -10.826  1.00 25.00           C
ATOM     80  CA  GLU    80      -7.733 -13.892 -10.734  1.00 25.00           C
ATOM     81  CA  VAL    81      -7.668 -10.537  -8.934  1.00 25.00           C
ATOM     82  CA  ILE    82      -6.364  -9.043 -12.238  1.00 25.00           C
ATOM     83  CA  ARG    83      -4.364  -7.998 -15.310  1.00 25.00           C
ATOM     84  CA  GLU    84      -2.858  -5.336 -17.542  1.00 25.00           C
ATOM     85  CA  ILE    85      -0.610  -8.093 -18.848  1.00 25.00           C
ATOM     86  CA  PRO    86       2.389  -7.765 -21.146  1.00 25.00           C
ATOM     87  CA  PRO    87       5.450  -5.621 -21.723  1.00 25.00           C
ATOM     88  CA  LYS    88       6.154  -1.903 -21.136  1.00 25.00           C
ATOM     89  CA  ARG    89       2.839  -0.984 -22.817  1.00 25.00           C
ATOM     90  CA  TRP    90       0.992  -3.515 -20.615  1.00 25.00           C
ATOM     91  CA  LEU    91       2.655  -2.048 -17.493  1.00 25.00           C
ATOM     92  CA  ASP    92       1.631   1.480 -18.574  1.00 25.00           C
ATOM     93  CA  PHE    93      -1.970   0.296 -19.115  1.00 25.00           C
ATOM     94  CA  TYR    94      -1.989  -1.314 -15.640  1.00 25.00           C
ATOM     95  CA  ALA    95      -0.675   1.937 -14.101  1.00 25.00           C
ATOM     96  CA  ALA    96      -3.407   3.925 -15.905  1.00 25.00           C
ATOM     97  CA  MET    97      -6.066   1.491 -14.612  1.00 25.00           C
ATOM     98  CA  THR    98      -4.704   1.856 -11.052  1.00 25.00           C
ATOM     99  CA  GLU    99      -4.812   5.670 -11.375  1.00 25.00           C
ATOM    100  CA  PHE   100      -8.430   5.487 -12.619  1.00 25.00           C
ATOM    101  CA  LEU   101      -9.359   3.243  -9.657  1.00 25.00           C
ATOM    102  CA  GLY   102      -7.712   5.713  -7.237  1.00 25.00           C
ATOM    103  CA  LEU   103      -9.649   8.606  -8.834  1.00 25.00           C
ATOM    104  CA  PHE   104     -12.918   6.639  -8.494  1.00 25.00           C
ATOM    105  CA  VAL   105     -13.906   4.448 -11.454  1.00 25.00           C
TER
END
