
#######################################################
#                                                     #
#                        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 T0360TS168_5
# Molecule2: number of CA atoms  116 (  917),  selected  116 , name T0360.pdb
# PARAMETERS: T0360TS168_5.T0360.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    Q       3      Q       3           -
LGA    E       4      E       4           -
LGA    T       5      T       5           -
LGA    A       6      A       6           -
LGA    L       7      L       7           -
LGA    G       8      G       8           -
LGA    A       9      A       9           -
LGA    A      10      A      10           -
LGA    L      11      L      11           -
LGA    K      12      K      12           -
LGA    S      13      S      13           -
LGA    A      14      A      14           -
LGA    V      15      V      15           -
LGA    Q      16      Q      16           -
LGA    T      17      T      17           -
LGA    M      18      M      18           -
LGA    S      19      S      19           -
LGA    -       -      K      20           -
LGA    -       -      K      21           -
LGA    -       -      K      22           -
LGA    -       -      Q      23           -
LGA    -       -      T      24           -
LGA    -       -      E      25           -
LGA    -       -      M      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      D      29           -
LGA    -       -      H      30           -
LGA    -       -      I      31           -
LGA    K      20      Y      32           #
LGA    K      21      -       -           -
LGA    K      22      -       -           -
LGA    Q      23      G      33          3.742
LGA    T      24      K      34          2.675
LGA    E      25      Y      35           #
LGA    M      26      D      36           -
LGA    I      27      V      37           -
LGA    A      28      F      38           -
LGA    D      29      K      39           -
LGA    H      30      R      40           -
LGA    I      31      F      41           -
LGA    Y      32      K      42           -
LGA    G      33      P      43           -
LGA    K      34      L      44           -
LGA    -       -      A      45           -
LGA    -       -      L      46           -
LGA    -       -      G      47           -
LGA    Y      35      I      48           #
LGA    D      36      -       -           -
LGA    V      37      -       -           -
LGA    F      38      D      49          4.124
LGA    K      39      Q      50          1.024
LGA    -       -      D      51           -
LGA    -       -      L      52           -
LGA    R      40      I      53          4.426
LGA    -       -      A      54           -
LGA    -       -      A      55           -
LGA    -       -      L      56           -
LGA    -       -      P      57           -
LGA    -       -      Q      58           -
LGA    -       -      Y      59           -
LGA    -       -      D      60           -
LGA    F      41      A      61          4.409
LGA    K      42      A      62           -
LGA    P      43      L      63           -
LGA    L      44      I      64           -
LGA    A      45      -       -           -
LGA    L      46      -       -           -
LGA    G      47      -       -           -
LGA    I      48      A      65          3.957
LGA    D      49      -       -           -
LGA    Q      50      -       -           -
LGA    D      51      -       -           -
LGA    L      52      R      66          3.232
LGA    I      53      V      67           -
LGA    A      54      L      68           -
LGA    A      55      A      69           -
LGA    L      56      -       -           -
LGA    P      57      -       -           -
LGA    Q      58      -       -           -
LGA    Y      59      -       -           -
LGA    D      60      -       -           -
LGA    A      61      -       -           -
LGA    A      62      -       -           -
LGA    L      63      -       -           -
LGA    I      64      -       -           -
LGA    A      65      -       -           -
LGA    R      66      -       -           -
LGA    V      67      -       -           -
LGA    L      68      N      70          1.788
LGA    A      69      -       -           -
LGA    N      70      H      71           #
LGA    H      71      C      72          4.875
LGA    C      72      R      73          2.612
LGA    R      73      R      74          3.151
LGA    -       -      P      75           -
LGA    R      74      R      76          1.819
LGA    P      75      Y      77          1.653
LGA    R      76      L      78          1.963
LGA    Y      77      K      79          0.805
LGA    L      78      A      80          0.765
LGA    K      79      L      81          1.887
LGA    A      80      A      82          1.201
LGA    L      81      R      83          1.459
LGA    A      82      G      84          2.952
LGA    R      83      G      85          0.800
LGA    G      84      K      86          2.560
LGA    G      85      R      87          4.365
LGA    K      86      F      88          2.727
LGA    -       -      D      89           -
LGA    -       -      L      90           -
LGA    R      87      N      91           #
LGA    F      88      N      92          2.181
LGA    D      89      R      93          2.627
LGA    L      90      F      94          3.458
LGA    N      91      K      95           #
LGA    N      92      -       -           -
LGA    R      93      -       -           -
LGA    F      94      -       -           -
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    E      97      G      96           #
LGA    -       -      E      97           -
LGA    V      98      V      98          5.170
LGA    T      99      T      99          2.398
LGA    P     100      P     100          4.171
LGA    E     101      E     101          3.636
LGA    E     102      E     102          1.003
LGA    Q     103      Q     103          2.086
LGA    -       -      A     104           -
LGA    A     104      I     105          0.908
LGA    I     105      A     106          3.094
LGA    A     106      Q     107          3.592
LGA    Q     107      N     108          1.853
LGA    N     108      H     109          4.851
LGA    -       -      P     110           -
LGA    -       -      F     111           -
LGA    H     109      V     112          1.624
LGA    P     110      Q     113          1.596
LGA    F     111      Q     114          3.196
LGA    V     112      A     115           -
LGA    Q     113      L     116           -
LGA    Q     114      -       -           -
LGA    A     115      -       -           -
LGA    L     116      -       -           -
LGA    Q     117      -       -           -
LGA    Q     118      -       -           -
LGA    Q     119      -       -           -
LGA    S     120      -       -           -
LGA    A     121      -       -           -
LGA    Q     122      -       -           -
LGA    A     123      -       -           -
LGA    A     124      -       -           -
LGA    A     125      -       -           -
LGA    E     126      -       -           -
LGA    T     127      -       -           -
LGA    L     128      -       -           -
LGA    S     129      -       -           -
LGA    V     130      -       -           -
LGA    E     131      -       -           -
LGA    A     132      -       -           -
LGA    E     133      -       -           -
LGA    A     134      -       -           -
LGA    A     135      -       -           -
LGA    E     136      -       -           -
LGA    S     137      -       -           -
LGA    S     138      -       -           -
LGA    A     139      -       -           -
LGA    A     140      -       -           -
LGA    E     141      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  116    5.0     42    2.95    21.43     21.667     1.375

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.597971 * X  +   0.563564 * Y  +   0.569935 * Z  + -72.450478
  Y_new =   0.745168 * X  +   0.652793 * Y  +   0.136329 * Z  +   5.934889
  Z_new =  -0.295219 * X  +   0.506219 * Y  +  -0.810301 * Z  + -11.085910 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.583189   -0.558404  [ DEG:   148.0058    -31.9942 ]
  Theta =   0.299685    2.841908  [ DEG:    17.1707    162.8293 ]
  Phi   =   2.247038   -0.894554  [ DEG:   128.7458    -51.2542 ]
 
# 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: T0360TS168_5                                  
REMARK     2: T0360.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0360TS168_5.T0360.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  116   5.0   42   2.95   21.43  21.667
REMARK  ---------------------------------------------------------- 
MOLECULE T0360TS168_5
PFRMAT TS
TARGET T0360
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1     -67.536   7.862  16.333  1.00 25.00           C
ATOM      2  CA  THR     2     -64.397   6.521  14.533  1.00 25.00           C
ATOM      3  CA  GLN     3     -62.797   3.183  13.511  1.00 25.00           C
ATOM      4  CA  GLU     4     -60.138   1.220  11.574  1.00 25.00           C
ATOM      5  CA  THR     5     -61.780  -2.079  12.615  1.00 25.00           C
ATOM      6  CA  ALA     6     -65.192  -0.772  11.469  1.00 25.00           C
ATOM      7  CA  LEU     7     -63.690   0.273   8.106  1.00 25.00           C
ATOM      8  CA  GLY     8     -62.123  -3.197   7.699  1.00 25.00           C
ATOM      9  CA  ALA     9     -65.493  -4.838   8.484  1.00 25.00           C
ATOM     10  CA  ALA    10     -67.214  -2.598   5.897  1.00 25.00           C
ATOM     11  CA  LEU    11     -64.570  -3.536   3.290  1.00 25.00           C
ATOM     12  CA  LYS    12     -65.092  -7.251   4.062  1.00 25.00           C
ATOM     13  CA  SER    13     -68.879  -6.824   3.680  1.00 25.00           C
ATOM     14  CA  ALA    14     -68.366  -5.058   0.320  1.00 25.00           C
ATOM     15  CA  VAL    15     -66.082  -7.899  -0.852  1.00 25.00           C
ATOM     16  CA  GLN    16     -68.711 -10.479   0.194  1.00 25.00           C
ATOM     17  CA  THR    17     -71.407  -8.543  -1.717  1.00 25.00           C
ATOM     18  CA  MET    18     -73.688 -11.360  -0.521  1.00 25.00           C
ATOM     19  CA  SER    19     -73.549 -12.400  -4.174  1.00 25.00           C
ATOM     20  CA  LYS    20     -74.483 -11.589  -7.722  1.00 25.00           C
ATOM     21  CA  LYS    21     -75.767 -13.761 -10.604  1.00 25.00           C
ATOM     22  CA  LYS    22     -79.245 -13.868  -9.005  1.00 25.00           C
ATOM     23  CA  GLN    23     -79.214 -10.058  -8.623  1.00 25.00           C
ATOM     24  CA  THR    24     -78.207  -9.672 -12.297  1.00 25.00           C
ATOM     25  CA  GLU    25     -81.048 -12.015 -13.348  1.00 25.00           C
ATOM     26  CA  MET    26     -83.529  -9.986 -11.252  1.00 25.00           C
ATOM     27  CA  ILE    27     -82.286  -6.746 -12.874  1.00 25.00           C
ATOM     28  CA  ALA    28     -82.698  -8.299 -16.350  1.00 25.00           C
ATOM     29  CA  ASP    29     -86.258  -9.398 -15.466  1.00 25.00           C
ATOM     30  CA  HIS    30     -87.071  -5.862 -14.239  1.00 25.00           C
ATOM     31  CA  ILE    31     -85.689  -4.390 -17.494  1.00 25.00           C
ATOM     32  CA  TYR    32     -87.817  -6.836 -19.533  1.00 25.00           C
ATOM     33  CA  GLY    33     -86.123  -7.286 -22.867  1.00 25.00           C
ATOM     34  CA  LYS    34     -82.794  -6.150 -21.413  1.00 25.00           C
ATOM     35  CA  TYR    35     -80.105  -5.223 -23.977  1.00 25.00           C
ATOM     36  CA  ASP    36     -82.790  -3.843 -26.332  1.00 25.00           C
ATOM     37  CA  VAL    37     -84.275  -1.777 -23.470  1.00 25.00           C
ATOM     38  CA  PHE    38     -80.802  -0.403 -22.627  1.00 25.00           C
ATOM     39  CA  LYS    39     -80.250   0.526 -26.301  1.00 25.00           C
ATOM     40  CA  ARG    40     -83.643   2.301 -26.387  1.00 25.00           C
ATOM     41  CA  PHE    41     -82.743   4.227 -23.201  1.00 25.00           C
ATOM     42  CA  LYS    42     -80.910   6.471 -25.669  1.00 25.00           C
ATOM     43  CA  PRO    43     -78.398   8.220 -23.493  1.00 25.00           C
ATOM     44  CA  LEU    44     -79.117  11.603 -25.178  1.00 25.00           C
ATOM     45  CA  ALA    45     -82.758  11.366 -24.013  1.00 25.00           C
ATOM     46  CA  LEU    46     -82.222  14.486 -21.824  1.00 25.00           C
ATOM     47  CA  GLY    47     -80.481  12.015 -19.562  1.00 25.00           C
ATOM     48  CA  ILE    48     -78.513   9.463 -17.438  1.00 25.00           C
ATOM     49  CA  ASP    49     -77.369  10.916 -14.084  1.00 25.00           C
ATOM     50  CA  GLN    50     -80.191  13.502 -14.215  1.00 25.00           C
ATOM     51  CA  ASP    51     -82.729  10.731 -14.956  1.00 25.00           C
ATOM     52  CA  LEU    52     -81.399   8.688 -12.003  1.00 25.00           C
ATOM     53  CA  ILE    53     -81.697  11.750  -9.720  1.00 25.00           C
ATOM     54  CA  ALA    54     -85.297  12.309 -10.900  1.00 25.00           C
ATOM     55  CA  ALA    55     -86.123   8.635 -10.207  1.00 25.00           C
ATOM     56  CA  LEU    56     -88.475   8.734  -7.179  1.00 25.00           C
ATOM     57  CA  PRO    57     -91.145  10.150  -4.962  1.00 25.00           C
ATOM     58  CA  GLN    58     -89.170   9.517  -1.722  1.00 25.00           C
ATOM     59  CA  TYR    59     -87.062   6.546  -2.809  1.00 25.00           C
ATOM     60  CA  ASP    60     -84.017   8.331  -1.390  1.00 25.00           C
ATOM     61  CA  ALA    61     -83.241   9.002  -4.993  1.00 25.00           C
ATOM     62  CA  ALA    62     -80.171  10.968  -3.817  1.00 25.00           C
ATOM     63  CA  LEU    63     -78.494   7.718  -2.681  1.00 25.00           C
ATOM     64  CA  ILE    64     -79.236   6.118  -6.081  1.00 25.00           C
ATOM     65  CA  ALA    65     -77.745   9.161  -7.866  1.00 25.00           C
ATOM     66  CA  ARG    66     -74.611   8.941  -5.675  1.00 25.00           C
ATOM     67  CA  VAL    67     -74.280   5.213  -6.480  1.00 25.00           C
ATOM     68  CA  LEU    68     -74.618   5.965 -10.220  1.00 25.00           C
ATOM     69  CA  ALA    69     -71.922   8.671  -9.945  1.00 25.00           C
ATOM     70  CA  ASN    70     -69.610   6.215  -8.131  1.00 25.00           C
ATOM     71  CA  HIS    71     -70.199   3.600 -10.865  1.00 25.00           C
ATOM     72  CA  CYS    72     -69.397   6.200 -13.560  1.00 25.00           C
ATOM     73  CA  ARG    73     -66.175   7.150 -11.719  1.00 25.00           C
ATOM     74  CA  ARG    74     -65.186   3.458 -11.492  1.00 25.00           C
ATOM     75  CA  PRO    75     -65.841   3.027 -15.242  1.00 25.00           C
ATOM     76  CA  ARG    76     -63.693   6.107 -15.995  1.00 25.00           C
ATOM     77  CA  TYR    77     -60.875   4.705 -13.814  1.00 25.00           C
ATOM     78  CA  LEU    78     -61.091   1.350 -15.647  1.00 25.00           C
ATOM     79  CA  LYS    79     -60.924   3.154 -19.021  1.00 25.00           C
ATOM     80  CA  ALA    80     -57.855   5.120 -17.845  1.00 25.00           C
ATOM     81  CA  LEU    81     -56.178   1.871 -16.709  1.00 25.00           C
ATOM     82  CA  ALA    82     -56.919   0.271 -20.109  1.00 25.00           C
ATOM     83  CA  ARG    83     -58.358   0.548 -23.599  1.00 25.00           C
ATOM     84  CA  GLY    84     -59.611  -3.071 -23.709  1.00 25.00           C
ATOM     85  CA  GLY    85     -62.177  -1.762 -21.199  1.00 25.00           C
ATOM     86  CA  LYS    86     -65.415  -3.672 -22.073  1.00 25.00           C
ATOM     87  CA  ARG    87     -64.450  -6.773 -24.071  1.00 25.00           C
ATOM     88  CA  PHE    88     -67.709  -8.720 -24.340  1.00 25.00           C
ATOM     89  CA  ASP    89     -66.672 -10.973 -27.196  1.00 25.00           C
ATOM     90  CA  LEU    90     -67.224  -7.997 -29.524  1.00 25.00           C
ATOM     91  CA  ASN    91     -68.365  -8.047 -33.136  1.00 25.00           C
ATOM     92  CA  ASN    92     -68.932  -4.862 -35.172  1.00 25.00           C
ATOM     93  CA  ARG    93     -66.837  -1.693 -35.811  1.00 25.00           C
ATOM     94  CA  PHE    94     -67.847   1.918 -36.631  1.00 25.00           C
ATOM     95  CA  LYS    95     -66.047   4.217 -39.084  1.00 25.00           C
ATOM     96  CA  GLY    96     -64.324   6.516 -36.531  1.00 25.00           C
ATOM     97  CA  GLU    97     -63.134   5.808 -32.989  1.00 25.00           C
ATOM     98  CA  VAL    98     -61.702   6.732 -29.580  1.00 25.00           C
ATOM     99  CA  THR    99     -59.094   8.891 -27.910  1.00 25.00           C
ATOM    100  CA  PRO   100     -58.790  12.320 -26.391  1.00 25.00           C
ATOM    101  CA  GLU   101     -62.231  13.057 -24.879  1.00 25.00           C
ATOM    102  CA  GLU   102     -62.141   9.725 -22.991  1.00 25.00           C
ATOM    103  CA  GLN   103     -58.645  10.545 -21.661  1.00 25.00           C
ATOM    104  CA  ALA   104     -59.861  13.991 -20.514  1.00 25.00           C
ATOM    105  CA  ILE   105     -62.849  12.373 -18.745  1.00 25.00           C
ATOM    106  CA  ALA   106     -60.506   9.889 -17.009  1.00 25.00           C
ATOM    107  CA  GLN   107     -58.246  12.768 -15.884  1.00 25.00           C
ATOM    108  CA  ASN   108     -55.632  12.154 -13.208  1.00 25.00           C
ATOM    109  CA  HIS   109     -56.363   9.601 -10.532  1.00 25.00           C
ATOM    110  CA  PRO   110     -53.751  11.306  -8.286  1.00 25.00           C
ATOM    111  CA  PHE   111     -55.503   9.605  -5.336  1.00 25.00           C
ATOM    112  CA  VAL   112     -55.143  12.797  -3.250  1.00 25.00           C
ATOM    113  CA  GLN   113     -56.610  14.866  -6.119  1.00 25.00           C
ATOM    114  CA  GLN   114     -59.553  12.433  -6.403  1.00 25.00           C
ATOM    115  CA  ALA   115     -60.158  12.685  -2.629  1.00 25.00           C
ATOM    116  CA  LEU   116     -60.097  16.508  -2.851  1.00 25.00           C
ATOM    117  CA  GLN   117     -62.607  16.405  -5.743  1.00 25.00           C
ATOM    118  CA  GLN   118     -64.889  14.095  -3.712  1.00 25.00           C
ATOM    119  CA  GLN   119     -64.679  16.478  -0.720  1.00 25.00           C
ATOM    120  CA  SER   120     -65.564  19.437  -2.985  1.00 25.00           C
ATOM    121  CA  ALA   121     -68.558  17.504  -4.384  1.00 25.00           C
ATOM    122  CA  GLN   122     -69.728  16.692  -0.829  1.00 25.00           C
ATOM    123  CA  ALA   123     -69.420  20.385   0.141  1.00 25.00           C
ATOM    124  CA  ALA   124     -71.451  21.390  -2.946  1.00 25.00           C
ATOM    125  CA  ALA   125     -74.147  18.825  -2.038  1.00 25.00           C
ATOM    126  CA  GLU   126     -74.272  20.187   1.539  1.00 25.00           C
ATOM    127  CA  THR   127     -74.626  23.757   0.195  1.00 25.00           C
ATOM    128  CA  LEU   128     -77.470  22.632  -2.111  1.00 25.00           C
ATOM    129  CA  SER   129     -79.222  20.931   0.839  1.00 25.00           C
ATOM    130  CA  VAL   130     -78.863  24.123   2.925  1.00 25.00           C
ATOM    131  CA  GLU   131     -80.329  26.192   0.056  1.00 25.00           C
ATOM    132  CA  ALA   132     -83.272  23.758  -0.228  1.00 25.00           C
ATOM    133  CA  GLU   133     -83.877  24.011   3.546  1.00 25.00           C
ATOM    134  CA  ALA   134     -83.816  27.834   3.324  1.00 25.00           C
ATOM    135  CA  ALA   135     -86.326  27.730   0.432  1.00 25.00           C
ATOM    136  CA  GLU   136     -88.609  25.420   2.464  1.00 25.00           C
ATOM    137  CA  SER   137     -89.746  24.373  -1.049  1.00 25.00           C
ATOM    138  CA  SER   138     -89.971  24.227  -4.843  1.00 25.00           C
ATOM    139  CA  ALA   139     -90.093  25.832  -8.321  1.00 25.00           C
ATOM    140  CA  ALA   140     -89.718  23.889 -11.578  1.00 25.00           C
ATOM    141  CA  GLU   141     -89.275  21.562 -14.585  1.00 25.00           C
TER
END
