
#######################################################
#                                                     #
#                        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 T0350TS599_3
# Molecule2: number of CA atoms  109 ( 1798),  selected  109 , name T0350.pdb
# PARAMETERS: T0350TS599_3.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           -
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    -       -      Q      10           -
LGA    -       -      P      11           -
LGA    T       7      V      12           #
LGA    T       8      W      13           -
LGA    L       9      D      14           -
LGA    Q      10      R      15          5.266
LGA    P      11      Y      16          2.580
LGA    V      12      -       -           -
LGA    W      13      D      17          1.775
LGA    D      14      T      18          4.363
LGA    R      15      Q      19           -
LGA    Y      16      I      20           -
LGA    D      17      -       -           -
LGA    T      18      -       -           -
LGA    Q      19      -       -           -
LGA    I      20      H      21          3.694
LGA    H      21      N      22          3.545
LGA    N      22      -       -           -
LGA    Q      23      -       -           -
LGA    K      24      Q      23          2.727
LGA    D      25      -       -           -
LGA    N      26      -       -           -
LGA    D      27      K      24          3.222
LGA    N      28      D      25          2.129
LGA    E      29      -       -           -
LGA    V      30      -       -           -
LGA    P      31      N      26          4.219
LGA    V      32      -       -           -
LGA    H      33      -       -           -
LGA    Q      34      -       -           -
LGA    V      35      -       -           -
LGA    S      36      -       -           -
LGA    Y      37      -       -           -
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      -       -           -
LGA    A      41      -       -           -
LGA    E      42      -       -           -
LGA    M      43      D      27           #
LGA    V      44      N      28           -
LGA    G      45      E      29           -
LGA    -       -      V      30           -
LGA    E      46      P      31           #
LGA    M      47      V      32          2.620
LGA    N      48      -       -           -
LGA    K      49      -       -           -
LGA    L      50      H      33          1.483
LGA    L      51      Q      34          3.889
LGA    E      52      V      35          1.442
LGA    P      53      S      36          2.715
LGA    S      54      -       -           -
LGA    Q      55      Y      37          4.850
LGA    V      56      T      38          4.251
LGA    H      57      N      39          3.822
LGA    -       -      L      40           -
LGA    L      58      A      41          2.262
LGA    -       -      E      42           -
LGA    -       -      M      43           -
LGA    K      59      V      44          2.291
LGA    F      60      G      45          3.542
LGA    -       -      E      46           -
LGA    -       -      M      47           -
LGA    E      61      N      48          0.880
LGA    L      62      K      49          3.966
LGA    -       -      L      50           -
LGA    H      63      L      51          2.334
LGA    D      64      E      52          2.843
LGA    K      65      P      53          1.571
LGA    L      66      S      54          1.844
LGA    N      67      Q      55          1.307
LGA    E      68      V      56          0.666
LGA    Y      69      H      57          1.356
LGA    Y      70      L      58          2.840
LGA    V      71      K      59          2.638
LGA    K      72      F      60          4.662
LGA    V      73      E      61          5.720
LGA    I      74      -       -           -
LGA    E      75      -       -           -
LGA    D      76      -       -           -
LGA    S      77      -       -           -
LGA    T      78      -       -           -
LGA    N      79      -       -           -
LGA    E      80      -       -           -
LGA    V      81      L      62           #
LGA    I      82      H      63           -
LGA    R      83      -       -           -
LGA    E      84      D      64          5.347
LGA    I      85      K      65          4.465
LGA    P      86      L      66          3.421
LGA    P      87      N      67          3.408
LGA    K      88      E      68          3.667
LGA    R      89      -       -           -
LGA    W      90      Y      69          1.784
LGA    L      91      Y      70          2.874
LGA    D      92      V      71          4.458
LGA    F      93      K      72          3.424
LGA    Y      94      V      73           #
LGA    A      95      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    A      96      I      85          4.720
LGA    M      97      P      86           -
LGA    -       -      P      87           -
LGA    -       -      K      88           -
LGA    -       -      R      89           -
LGA    T      98      W      90           #
LGA    E      99      L      91           -
LGA    F     100      D      92           -
LGA    -       -      F      93           -
LGA    -       -      Y      94           -
LGA    -       -      A      95           -
LGA    -       -      A      96           -
LGA    L     101      M      97           #
LGA    G     102      T      98           #
LGA    L     103      E      99           -
LGA    F     104      -       -           -
LGA    V     105      F     100           #
LGA    D     106      L     101          1.974
LGA    E     107      G     102          0.903
LGA    K     108      L     103          3.622
LGA    -       -      F     104           -
LGA    K     109      V     105          0.384
LGA    L     110      D     106           #
LGA    E     111      E     107          3.550
LGA    H     112      K     108          3.659
LGA    H     113      K     109          3.538
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     51    3.29     1.96     25.650     1.504

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.514374 * X  +   0.661656 * Y  +   0.545556 * Z  +   0.904834
  Y_new =   0.576097 * X  +   0.204634 * Y  +  -0.791351 * Z  +   0.051466
  Z_new =  -0.635241 * X  +   0.721344 * Y  +  -0.275920 * Z  + -23.256908 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.936133   -1.205459  [ DEG:   110.9323    -69.0677 ]
  Theta =   0.688321    2.453272  [ DEG:    39.4379    140.5621 ]
  Phi   =   0.841940   -2.299652  [ DEG:    48.2396   -131.7604 ]
 
# 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: T0350TS599_3                                  
REMARK     2: T0350.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS599_3.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   51   3.29    1.96  25.650
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS599_3
PFRMAT TS                                                                       
TARGET T0350                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -9.741  -4.486 -24.942  1.00  0.00              
ATOM      2  CA  ASN     2      -7.445  -0.976 -24.609  1.00  0.00              
ATOM      3  CA  ILE     3      -4.140   0.757 -22.674  1.00  0.00              
ATOM      4  CA  GLU     4      -5.565  -2.967 -21.360  1.00  0.00              
ATOM      5  CA  ARG     5      -3.276  -4.566 -23.968  1.00  0.00              
ATOM      6  CA  LEU     6      -0.067  -2.947 -22.761  1.00  0.00              
ATOM      7  CA  THR     7      -0.562  -3.881 -19.058  1.00  0.00              
ATOM      8  CA  THR     8      -1.263  -7.483 -19.956  1.00  0.00              
ATOM      9  CA  LEU     9       1.732  -8.075 -22.247  1.00  0.00              
ATOM     10  CA  GLN    10       4.355  -7.235 -19.675  1.00  0.00              
ATOM     11  CA  PRO    11       2.758  -9.576 -17.110  1.00  0.00              
ATOM     12  CA  VAL    12       2.561 -12.435 -19.627  1.00  0.00              
ATOM     13  CA  TRP    13       6.211 -11.994 -20.717  1.00  0.00              
ATOM     14  CA  ASP    14       7.264 -12.275 -17.086  1.00  0.00              
ATOM     15  CA  ARG    15       5.138 -15.487 -16.712  1.00  0.00              
ATOM     16  CA  TYR    16       7.004 -17.678 -19.082  1.00  0.00              
ATOM     17  CA  ASP    17       6.464 -17.764 -22.698  1.00  0.00              
ATOM     18  CA  THR    18       4.414 -20.989 -22.999  1.00  0.00              
ATOM     19  CA  GLN    19       2.061 -19.817 -20.228  1.00  0.00              
ATOM     20  CA  ILE    20       1.538 -16.416 -21.870  1.00  0.00              
ATOM     21  CA  HIS    21       0.759 -17.959 -25.248  1.00  0.00              
ATOM     22  CA  ASN    22      -1.863 -20.189 -23.709  1.00  0.00              
ATOM     23  CA  GLN    23      -3.326 -17.223 -21.780  1.00  0.00              
ATOM     24  CA  LYS    24      -3.560 -15.044 -24.898  1.00  0.00              
ATOM     25  CA  ASP    25      -5.345 -17.969 -26.596  1.00  0.00              
ATOM     26  CA  ASN    26      -7.884 -18.458 -23.835  1.00  0.00              
ATOM     27  CA  ASP    27      -8.073 -14.718 -23.379  1.00  0.00              
ATOM     28  CA  ASN    28      -9.370 -14.648 -26.877  1.00  0.00              
ATOM     29  CA  GLU    29     -11.668 -17.476 -27.037  1.00  0.00              
ATOM     30  CA  VAL    30     -14.258 -16.798 -24.404  1.00  0.00              
ATOM     31  CA  PRO    31     -13.832 -13.127 -25.338  1.00  0.00              
ATOM     32  CA  VAL    32     -15.078 -13.809 -28.796  1.00  0.00              
ATOM     33  CA  HIS    33     -18.056 -15.640 -27.713  1.00  0.00              
ATOM     34  CA  GLN    34     -19.209 -13.583 -24.780  1.00  0.00              
ATOM     35  CA  VAL    35     -19.135 -10.206 -26.628  1.00  0.00              
ATOM     36  CA  SER    36     -19.948 -11.395 -30.129  1.00  0.00              
ATOM     37  CA  TYR    37     -17.235 -11.830 -32.792  1.00  0.00              
ATOM     38  CA  THR    38     -18.109  -8.737 -34.747  1.00  0.00              
ATOM     39  CA  ASN    39     -18.097  -6.559 -31.590  1.00  0.00              
ATOM     40  CA  LEU    40     -14.822  -7.885 -30.463  1.00  0.00              
ATOM     41  CA  ALA    41     -13.140  -7.225 -33.765  1.00  0.00              
ATOM     42  CA  GLU    42     -14.500  -3.645 -33.704  1.00  0.00              
ATOM     43  CA  MET    43     -13.175  -3.198 -30.143  1.00  0.00              
ATOM     44  CA  VAL    44      -9.717  -4.521 -31.154  1.00  0.00              
ATOM     45  CA  GLY    45      -9.587  -2.170 -34.097  1.00  0.00              
ATOM     46  CA  GLU    46     -10.415   0.768 -31.791  1.00  0.00              
ATOM     47  CA  MET    47      -7.707  -0.361 -29.368  1.00  0.00              
ATOM     48  CA  ASN    48      -5.208  -0.577 -32.278  1.00  0.00              
ATOM     49  CA  LYS    49      -6.004   2.993 -33.214  1.00  0.00              
ATOM     50  CA  LEU    50      -5.442   4.062 -29.564  1.00  0.00              
ATOM     51  CA  LEU    51      -2.067   2.230 -29.471  1.00  0.00              
ATOM     52  CA  GLU    52      -0.991   3.857 -32.715  1.00  0.00              
ATOM     53  CA  PRO    53      -1.843   7.308 -31.397  1.00  0.00              
ATOM     54  CA  SER    54       0.095   6.676 -28.142  1.00  0.00              
ATOM     55  CA  GLN    55       3.118   5.448 -30.031  1.00  0.00              
ATOM     56  CA  VAL    56       3.327   8.452 -32.317  1.00  0.00              
ATOM     57  CA  HIS    57       3.157  10.864 -29.414  1.00  0.00              
ATOM     58  CA  LEU    58       5.280   9.494 -26.576  1.00  0.00              
ATOM     59  CA  LYS    59       4.582  10.636 -23.068  1.00  0.00              
ATOM     60  CA  PHE    60       7.583  10.399 -20.677  1.00  0.00              
ATOM     61  CA  GLU    61       6.826  10.173 -16.509  1.00  0.00              
ATOM     62  CA  LEU    62       9.672  10.805 -14.356  1.00  0.00              
ATOM     63  CA  HIS    63       9.862   9.211 -11.061  1.00  0.00              
ATOM     64  CA  ASP    64      11.700  11.006  -8.338  1.00  0.00              
ATOM     65  CA  LYS    65       9.171  10.300  -5.599  1.00  0.00              
ATOM     66  CA  LEU    66       8.922   6.555  -6.291  1.00  0.00              
ATOM     67  CA  ASN    67      12.681   6.292  -6.842  1.00  0.00              
ATOM     68  CA  GLU    68      12.297   4.715 -10.299  1.00  0.00              
ATOM     69  CA  TYR    69      13.531   6.693 -13.294  1.00  0.00              
ATOM     70  CA  TYR    70      11.336   7.039 -16.305  1.00  0.00              
ATOM     71  CA  VAL    71      12.248   9.396 -18.999  1.00  0.00              
ATOM     72  CA  LYS    72       9.300  10.661 -21.277  1.00  0.00              
ATOM     73  CA  VAL    73      10.015  12.105 -24.516  1.00  0.00              
ATOM     74  CA  ILE    74       7.173  14.012 -25.784  1.00  0.00              
ATOM     75  CA  GLU    75       6.867  14.974 -29.397  1.00  0.00              
ATOM     76  CA  ASP    76       3.510  16.355 -30.450  1.00  0.00              
ATOM     77  CA  SER    77       4.174  20.033 -30.718  1.00  0.00              
ATOM     78  CA  THR    78       7.290  19.822 -32.840  1.00  0.00              
ATOM     79  CA  ASN    79       6.934  16.368 -34.499  1.00  0.00              
ATOM     80  CA  GLU    80      10.469  15.459 -34.156  1.00  0.00              
ATOM     81  CA  VAL    81      10.705  12.084 -32.556  1.00  0.00              
ATOM     82  CA  ILE    82       7.945  10.402 -34.473  1.00  0.00              
ATOM     83  CA  ARG    83       9.256  11.398 -37.855  1.00  0.00              
ATOM     84  CA  GLU    84      12.814  10.258 -37.130  1.00  0.00              
ATOM     85  CA  ILE    85      11.830   7.012 -35.763  1.00  0.00              
ATOM     86  CA  PRO    86      11.609   3.728 -37.527  1.00  0.00              
ATOM     87  CA  PRO    87       8.461   1.922 -36.505  1.00  0.00              
ATOM     88  CA  LYS    88      10.358  -0.802 -34.665  1.00  0.00              
ATOM     89  CA  ARG    89      12.235   1.746 -32.620  1.00  0.00              
ATOM     90  CA  TRP    90       8.977   3.460 -31.626  1.00  0.00              
ATOM     91  CA  LEU    91       7.759   0.082 -30.311  1.00  0.00              
ATOM     92  CA  ASP    92      11.024  -0.269 -28.390  1.00  0.00              
ATOM     93  CA  PHE    93      10.616   3.220 -26.843  1.00  0.00              
ATOM     94  CA  TYR    94       7.015   2.335 -25.843  1.00  0.00              
ATOM     95  CA  ALA    95       8.164  -0.955 -24.233  1.00  0.00              
ATOM     96  CA  ALA    96      10.872   0.955 -22.345  1.00  0.00              
ATOM     97  CA  MET    97       8.388   3.495 -21.110  1.00  0.00              
ATOM     98  CA  THR    98       6.037   0.701 -19.896  1.00  0.00              
ATOM     99  CA  GLU    99       8.819  -0.831 -17.847  1.00  0.00              
ATOM    100  CA  PHE   100       9.616   2.561 -16.295  1.00  0.00              
ATOM    101  CA  LEU   101       6.093   3.813 -15.486  1.00  0.00              
ATOM    102  CA  GLY   102       5.378   0.418 -13.944  1.00  0.00              
ATOM    103  CA  LEU   103       8.469   0.851 -11.682  1.00  0.00              
ATOM    104  CA  PHE   104       7.580   4.316 -10.472  1.00  0.00              
ATOM    105  CA  VAL   105       3.952   4.166  -9.828  1.00  0.00              
ATOM    106  CA  ASP   106       1.597   2.095  -7.762  1.00  0.00              
ATOM    107  CA  GLU   107      -1.820   2.798  -9.370  1.00  0.00              
ATOM    108  CA  LYS   108      -3.278   4.374  -6.254  1.00  0.00              
ATOM    109  CA  LYS   109      -0.325   6.692  -5.798  1.00  0.00              
ATOM    110  CA  LEU   110      -0.230   7.731  -9.497  1.00  0.00              
ATOM    111  CA  GLU   111      -3.951   8.441  -9.493  1.00  0.00              
ATOM    112  CA  HIS   112      -3.684  10.541  -6.355  1.00  0.00              
ATOM    113  CA  HIS   113      -0.750  12.577  -7.676  1.00  0.00              
ATOM    114  CA  HIS   114      -2.761  13.855 -10.636  1.00  0.00              
ATOM    115  CA  HIS   115      -1.427  12.400 -13.636  1.00  0.00              
ATOM    116  CA  HIS   116       0.880  12.419 -17.112  1.00  0.00              
ATOM    117  CA  HIS   117       4.984  12.112 -17.693  1.00  0.00              
TER                                                                             
END
