
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0350TS168_2
# Molecule2: number of CA atoms  109 ( 1798),  selected  109 , name T0350.pdb
# PARAMETERS: T0350TS168_2.T0350.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      E       4           -
LGA    R       5      R       5           -
LGA    L       6      L       6           -
LGA    T       7      T       7           -
LGA    T       8      T       8           -
LGA    L       9      L       9           -
LGA    Q      10      Q      10           -
LGA    P      11      P      11           -
LGA    V      12      V      12           -
LGA    W      13      W      13           -
LGA    D      14      D      14           -
LGA    R      15      R      15           -
LGA    Y      16      Y      16           -
LGA    D      17      D      17           -
LGA    T      18      T      18           -
LGA    Q      19      Q      19           -
LGA    I      20      I      20           -
LGA    H      21      H      21           -
LGA    N      22      N      22           -
LGA    Q      23      Q      23           -
LGA    K      24      K      24           -
LGA    D      25      D      25           -
LGA    N      26      N      26           -
LGA    D      27      D      27           -
LGA    N      28      -       -           -
LGA    E      29      -       -           -
LGA    V      30      -       -           -
LGA    P      31      N      28           #
LGA    V      32      E      29          4.663
LGA    H      33      V      30           #
LGA    Q      34      P      31           -
LGA    V      35      V      32           #
LGA    S      36      -       -           -
LGA    Y      37      -       -           -
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      H      33          1.909
LGA    A      41      Q      34          1.805
LGA    E      42      -       -           -
LGA    M      43      V      35          3.776
LGA    V      44      S      36          4.033
LGA    G      45      Y      37          3.029
LGA    E      46      T      38          2.917
LGA    M      47      N      39          4.475
LGA    N      48      L      40          4.642
LGA    K      49      -       -           -
LGA    L      50      A      41          3.947
LGA    L      51      E      42           -
LGA    E      52      M      43           -
LGA    P      53      V      44           -
LGA    S      54      G      45           -
LGA    Q      55      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    V      56      K      59          3.745
LGA    H      57      F      60          2.877
LGA    L      58      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      59      K      72          4.473
LGA    F      60      V      73          5.483
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      I      74          4.110
LGA    S      77      E      75          4.234
LGA    T      78      D      76          2.651
LGA    -       -      S      77           -
LGA    -       -      T      78           -
LGA    -       -      N      79           -
LGA    N      79      E      80          3.398
LGA    E      80      V      81          2.508
LGA    V      81      I      82          3.437
LGA    I      82      R      83          2.770
LGA    R      83      E      84          3.343
LGA    E      84      I      85          4.570
LGA    I      85      P      86          3.995
LGA    P      86      -       -           -
LGA    P      87      P      87          1.403
LGA    K      88      K      88          2.206
LGA    R      89      R      89          2.274
LGA    W      90      W      90          2.621
LGA    L      91      L      91          2.486
LGA    D      92      D      92          1.467
LGA    F      93      F      93          1.457
LGA    Y      94      Y      94          1.857
LGA    A      95      A      95          1.326
LGA    A      96      A      96          0.814
LGA    M      97      M      97          0.878
LGA    T      98      T      98          0.536
LGA    E      99      E      99          0.511
LGA    F     100      F     100          0.237
LGA    L     101      L     101          1.301
LGA    G     102      G     102          1.862
LGA    L     103      L     103          2.009
LGA    F     104      F     104          2.317
LGA    V     105      -       -           -
LGA    D     106      V     105          2.936
LGA    E     107      D     106           #
LGA    K     108      -       -           -
LGA    K     109      -       -           -
LGA    L     110      -       -           -
LGA    E     111      E     107           #
LGA    H     112      K     108           #
LGA    H     113      K     109           -
LGA    H     114      -       -           -
LGA    H     115      -       -           -
LGA    H     116      -       -           -
LGA    H     117      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117  109    5.0     43    3.02    44.19     25.106     1.376

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.905135 * X  +   0.251522 * Y  +   0.342734 * Z  +  -0.458951
  Y_new =  -0.256862 * X  +  -0.965965 * Y  +   0.030539 * Z  +   5.925511
  Z_new =   0.338750 * X  +  -0.060394 * Y  +   0.938936 * Z  + -19.751787 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.064233    3.077360  [ DEG:    -3.6803    176.3197 ]
  Theta =  -0.345588   -2.796005  [ DEG:   -19.8007   -160.1992 ]
  Phi   =  -2.865079    0.276513  [ DEG:  -164.1570     15.8430 ]
 
# 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_2                                  
REMARK     2: T0350.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS168_2.T0350.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117  109   5.0   43   3.02   44.19  25.106
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS168_2
PFRMAT TS
TARGET T0350
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      11.932  22.703  -7.599  1.00 25.00           C
ATOM      2  CA  ASN     2       9.561  20.350  -9.345  1.00 25.00           C
ATOM      3  CA  ILE     3       6.871  22.137 -11.247  1.00 25.00           C
ATOM      4  CA  GLU     4       7.862  23.786 -14.578  1.00 25.00           C
ATOM      5  CA  ARG     5       4.400  23.555 -16.132  1.00 25.00           C
ATOM      6  CA  LEU     6       4.503  19.798 -15.541  1.00 25.00           C
ATOM      7  CA  THR     7       1.817  17.338 -16.417  1.00 25.00           C
ATOM      8  CA  THR     8      -1.869  17.141 -17.254  1.00 25.00           C
ATOM      9  CA  LEU     9      -0.715  17.596 -20.879  1.00 25.00           C
ATOM     10  CA  GLN    10      -3.088  20.587 -21.041  1.00 25.00           C
ATOM     11  CA  PRO    11      -5.762  17.805 -20.884  1.00 25.00           C
ATOM     12  CA  VAL    12      -7.196  17.038 -17.437  1.00 25.00           C
ATOM     13  CA  TRP    13      -5.692  13.542 -17.410  1.00 25.00           C
ATOM     14  CA  ASP    14      -6.278  12.646 -21.087  1.00 25.00           C
ATOM     15  CA  ARG    15      -8.321   9.581 -20.041  1.00 25.00           C
ATOM     16  CA  TYR    16     -10.411  11.750 -17.675  1.00 25.00           C
ATOM     17  CA  ASP    17     -11.026  14.271 -20.491  1.00 25.00           C
ATOM     18  CA  THR    18     -12.107  11.435 -22.828  1.00 25.00           C
ATOM     19  CA  GLN    19     -14.501  10.108 -20.148  1.00 25.00           C
ATOM     20  CA  ILE    20     -15.972  13.614 -19.692  1.00 25.00           C
ATOM     21  CA  HIS    21     -16.452  13.932 -23.477  1.00 25.00           C
ATOM     22  CA  ASN    22     -18.198  10.525 -23.568  1.00 25.00           C
ATOM     23  CA  GLN    23     -20.954  12.269 -21.653  1.00 25.00           C
ATOM     24  CA  LYS    24     -24.622  11.379 -22.231  1.00 25.00           C
ATOM     25  CA  ASP    25     -24.715  10.072 -18.675  1.00 25.00           C
ATOM     26  CA  ASN    26     -24.185   8.255 -15.357  1.00 25.00           C
ATOM     27  CA  ASP    27     -22.696   5.905 -12.693  1.00 25.00           C
ATOM     28  CA  ASN    28     -24.872   2.810 -13.339  1.00 25.00           C
ATOM     29  CA  GLU    29     -22.682   0.195 -15.045  1.00 25.00           C
ATOM     30  CA  VAL    30     -19.200  -1.394 -15.389  1.00 25.00           C
ATOM     31  CA  PRO    31     -17.020  -1.552 -18.502  1.00 25.00           C
ATOM     32  CA  VAL    32     -14.931   0.880 -20.563  1.00 25.00           C
ATOM     33  CA  HIS    33     -15.765   0.696 -24.241  1.00 25.00           C
ATOM     34  CA  GLN    34     -16.034   1.045 -27.978  1.00 25.00           C
ATOM     35  CA  VAL    35     -12.727   0.812 -29.814  1.00 25.00           C
ATOM     36  CA  SER    36     -13.832   1.186 -33.400  1.00 25.00           C
ATOM     37  CA  TYR    37     -10.237   2.461 -33.882  1.00 25.00           C
ATOM     38  CA  THR    38      -9.076   5.946 -34.961  1.00 25.00           C
ATOM     39  CA  ASN    39      -8.527   6.925 -31.299  1.00 25.00           C
ATOM     40  CA  LEU    40      -6.500   3.726 -30.724  1.00 25.00           C
ATOM     41  CA  ALA    41      -4.375   4.486 -33.818  1.00 25.00           C
ATOM     42  CA  GLU    42      -3.761   8.048 -32.550  1.00 25.00           C
ATOM     43  CA  MET    43      -2.721   6.678 -29.129  1.00 25.00           C
ATOM     44  CA  VAL    44      -0.317   4.219 -30.816  1.00 25.00           C
ATOM     45  CA  GLY    45       1.187   7.070 -32.884  1.00 25.00           C
ATOM     46  CA  GLU    46       1.639   9.166 -29.711  1.00 25.00           C
ATOM     47  CA  MET    47       3.357   6.215 -27.977  1.00 25.00           C
ATOM     48  CA  ASN    48       5.686   5.771 -30.984  1.00 25.00           C
ATOM     49  CA  LYS    49       6.538   9.505 -30.905  1.00 25.00           C
ATOM     50  CA  LEU    50       7.291   9.278 -27.158  1.00 25.00           C
ATOM     51  CA  LEU    51       9.555   6.252 -27.770  1.00 25.00           C
ATOM     52  CA  GLU    52      11.394   8.156 -30.537  1.00 25.00           C
ATOM     53  CA  PRO    53      11.870  11.149 -28.195  1.00 25.00           C
ATOM     54  CA  SER    54      13.572   8.790 -25.692  1.00 25.00           C
ATOM     55  CA  GLN    55      14.863  11.464 -23.315  1.00 25.00           C
ATOM     56  CA  VAL    56      12.338  10.002 -20.832  1.00 25.00           C
ATOM     57  CA  HIS    57      14.466   6.953 -19.996  1.00 25.00           C
ATOM     58  CA  LEU    58      13.086   3.473 -19.507  1.00 25.00           C
ATOM     59  CA  LYS    59      10.589   4.673 -22.187  1.00 25.00           C
ATOM     60  CA  PHE    60       8.144   1.984 -21.085  1.00 25.00           C
ATOM     61  CA  GLU    61       5.568   4.368 -22.562  1.00 25.00           C
ATOM     62  CA  LEU    62       1.751   4.555 -23.064  1.00 25.00           C
ATOM     63  CA  HIS    63      -1.748   3.190 -23.712  1.00 25.00           C
ATOM     64  CA  ASP    64      -3.104  -0.345 -23.701  1.00 25.00           C
ATOM     65  CA  LYS    65      -3.628  -3.876 -22.430  1.00 25.00           C
ATOM     66  CA  LEU    66      -1.601  -6.801 -23.740  1.00 25.00           C
ATOM     67  CA  ASN    67       1.014  -7.842 -26.265  1.00 25.00           C
ATOM     68  CA  GLU    68       3.752  -8.044 -28.912  1.00 25.00           C
ATOM     69  CA  TYR    69       6.752  -9.809 -27.446  1.00 25.00           C
ATOM     70  CA  TYR    70       8.868  -6.662 -26.771  1.00 25.00           C
ATOM     71  CA  VAL    71      10.986  -3.768 -28.000  1.00 25.00           C
ATOM     72  CA  LYS    72      13.983  -2.035 -29.666  1.00 25.00           C
ATOM     73  CA  VAL    73      15.382  -0.748 -26.325  1.00 25.00           C
ATOM     74  CA  ILE    74      17.511   2.291 -27.003  1.00 25.00           C
ATOM     75  CA  GLU    75      16.610   3.700 -23.556  1.00 25.00           C
ATOM     76  CA  ASP    76      19.406   5.968 -22.434  1.00 25.00           C
ATOM     77  CA  SER    77      19.712   6.158 -18.665  1.00 25.00           C
ATOM     78  CA  THR    78      18.599   3.918 -15.778  1.00 25.00           C
ATOM     79  CA  ASN    79      19.496   1.084 -18.203  1.00 25.00           C
ATOM     80  CA  GLU    80      17.360  -0.983 -20.617  1.00 25.00           C
ATOM     81  CA  VAL    81      13.792  -2.180 -20.039  1.00 25.00           C
ATOM     82  CA  ILE    82      11.677  -2.019 -23.216  1.00 25.00           C
ATOM     83  CA  ARG    83      10.479   0.661 -25.723  1.00 25.00           C
ATOM     84  CA  GLU    84       7.685   2.171 -27.846  1.00 25.00           C
ATOM     85  CA  ILE    85       9.822   1.250 -30.878  1.00 25.00           C
ATOM     86  CA  PRO    86       7.528  -1.605 -31.905  1.00 25.00           C
ATOM     87  CA  PRO    87       4.866  -0.337 -29.502  1.00 25.00           C
ATOM     88  CA  LYS    88       2.138  -2.705 -28.231  1.00 25.00           C
ATOM     89  CA  ARG    89       4.598  -4.234 -25.724  1.00 25.00           C
ATOM     90  CA  TRP    90       5.577  -0.734 -24.514  1.00 25.00           C
ATOM     91  CA  LEU    91       1.882   0.179 -24.089  1.00 25.00           C
ATOM     92  CA  ASP    92       1.291  -3.037 -22.095  1.00 25.00           C
ATOM     93  CA  PHE    93       4.296  -2.233 -19.861  1.00 25.00           C
ATOM     94  CA  TYR    94       2.948   1.304 -19.278  1.00 25.00           C
ATOM     95  CA  ALA    95      -0.484  -0.128 -18.363  1.00 25.00           C
ATOM     96  CA  ALA    96       1.161  -2.567 -15.911  1.00 25.00           C
ATOM     97  CA  MET    97       3.126   0.312 -14.327  1.00 25.00           C
ATOM     98  CA  THR    98      -0.097   2.352 -13.977  1.00 25.00           C
ATOM     99  CA  GLU    99      -1.838  -0.636 -12.332  1.00 25.00           C
ATOM    100  CA  PHE   100       1.094  -1.037  -9.901  1.00 25.00           C
ATOM    101  CA  LEU   101       0.922   2.691  -9.038  1.00 25.00           C
ATOM    102  CA  GLY   102      -2.845   2.398  -8.417  1.00 25.00           C
ATOM    103  CA  LEU   103      -2.260  -0.628  -6.142  1.00 25.00           C
ATOM    104  CA  PHE   104       0.409   1.316  -4.202  1.00 25.00           C
ATOM    105  CA  VAL   105       3.989   2.179  -5.029  1.00 25.00           C
ATOM    106  CA  ASP   106       2.636   5.677  -5.305  1.00 25.00           C
ATOM    107  CA  GLU   107       2.231   6.497  -1.563  1.00 25.00           C
ATOM    108  CA  LYS   108      -0.588   5.501   0.830  1.00 25.00           C
ATOM    109  CA  LYS   109      -2.940   8.009  -0.855  1.00 25.00           C
ATOM    110  CA  LEU   110      -5.650   7.800   1.746  1.00 25.00           C
ATOM    111  CA  GLU   111      -8.303   7.355  -0.937  1.00 25.00           C
ATOM    112  CA  HIS   112     -10.065  10.712  -0.478  1.00 25.00           C
ATOM    113  CA  HIS   113      -9.083  13.149   2.178  1.00 25.00           C
ATOM    114  CA  HIS   114      -6.723  16.098   2.070  1.00 25.00           C
ATOM    115  CA  HIS   115      -7.216  19.789   2.731  1.00 25.00           C
ATOM    116  CA  HIS   116      -9.634  19.952  -0.241  1.00 25.00           C
ATOM    117  CA  HIS   117     -10.536  19.532  -3.869  1.00 25.00           C
TER
END
