
#######################################################
#                                                     #
#                        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  124 (  124),  selected  124 , name T0356TS599_3-D1
# Molecule2: number of CA atoms  124 (  963),  selected  124 , name T0356_D1.pdb
# PARAMETERS: T0356TS599_3-D1.T0356_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N       7      N       7           #
LGA    D       8      D       8          4.322
LGA    L       9      L       9          4.224
LGA    R      10      R      10          3.664
LGA    D      11      D      11          2.669
LGA    F      12      F      12          2.027
LGA    L      13      L      13          2.914
LGA    T      14      T      14          1.717
LGA    L      15      L      15          0.677
LGA    L      16      L      16          2.019
LGA    E      17      E      17          1.724
LGA    Q      18      Q      18          1.033
LGA    Q      19      Q      19          1.199
LGA    G      20      G      20          1.415
LGA    E      21      E      21          1.850
LGA    L      22      L      22          1.962
LGA    K      23      K      23          1.393
LGA    R      24      -       -           -
LGA    I      25      R      24           #
LGA    T      26      I      25          5.374
LGA    L      27      T      26           #
LGA    P      28      L      27           #
LGA    V      29      P      28           -
LGA    -       -      V      29           -
LGA    -       -      D      30           -
LGA    -       -      P      31           -
LGA    -       -      H      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    -       -      I      35           -
LGA    -       -      T      36           -
LGA    -       -      E      37           -
LGA    D      30      I      38          4.258
LGA    P      31      A      39          5.397
LGA    H      32      D      40           #
LGA    L      33      R      41          4.146
LGA    E      34      T      42          2.822
LGA    I      35      L      43          2.387
LGA    T      36      R      44          1.949
LGA    E      37      A      45          3.296
LGA    I      38      G      46          3.952
LGA    A      39      G      47           -
LGA    D      40      P      48           -
LGA    R      41      A      49           -
LGA    T      42      L      50           -
LGA    L      43      L      51           -
LGA    R      44      F      52           -
LGA    A      45      E      53           -
LGA    G      46      N      54           -
LGA    G      47      P      55           -
LGA    P      48      K      56           -
LGA    A      49      G      57           -
LGA    L      50      Y      58           -
LGA    L      51      S      59           -
LGA    F      52      M      60           -
LGA    E      53      P      61           -
LGA    N      54      V      62           -
LGA    P      55      L      63           -
LGA    K      56      -       -           -
LGA    G      57      -       -           -
LGA    Y      58      -       -           -
LGA    S      59      -       -           -
LGA    M      60      C      64          4.436
LGA    P      61      N      65           #
LGA    V      62      L      66           #
LGA    L      63      F      67           #
LGA    C      64      G      68           -
LGA    N      65      T      69           -
LGA    -       -      P      70           -
LGA    -       -      K      71           -
LGA    -       -      R      72           -
LGA    L      66      V      73          1.315
LGA    F      67      A      74           #
LGA    G      68      M      75           -
LGA    -       -      G      76           -
LGA    -       -      M      77           -
LGA    -       -      G      78           -
LGA    -       -      Q      79           -
LGA    -       -      E      80           -
LGA    -       -      D      81           -
LGA    -       -      V      82           -
LGA    -       -      S      83           -
LGA    -       -      A      84           -
LGA    T      69      L      85          4.167
LGA    P      70      R      86          3.796
LGA    K      71      E      87          3.516
LGA    R      72      V      88          1.978
LGA    V      73      G      89          1.931
LGA    A      74      K      90          3.109
LGA    M      75      L      91          2.252
LGA    G      76      L      92          2.328
LGA    M      77      A      93          1.849
LGA    G      78      F      94          4.604
LGA    -       -      L      95           -
LGA    -       -      K      96           -
LGA    -       -      D     314           -
LGA    -       -      A     315           -
LGA    -       -      I     316           -
LGA    -       -      Y     317           -
LGA    -       -      H     318           -
LGA    -       -      S     319           -
LGA    -       -      T     320           -
LGA    -       -      Y     321           -
LGA    -       -      T     322           -
LGA    -       -      G     323           -
LGA    -       -      R     324           -
LGA    -       -      P     325           -
LGA    -       -      P     326           -
LGA    -       -      D     327           -
LGA    -       -      E     328           -
LGA    -       -      P     329           -
LGA    -       -      A     330           -
LGA    -       -      V     331           -
LGA    -       -      L     332           -
LGA    -       -      G     333           -
LGA    -       -      V     334           -
LGA    -       -      A     335           -
LGA    -       -      L     336           -
LGA    -       -      N     337           -
LGA    -       -      E     338           -
LGA    Q      79      V     339           #
LGA    E      80      -       -           -
LGA    D      81      -       -           -
LGA    V      82      -       -           -
LGA    S      83      F     340           #
LGA    A      84      V     341          4.473
LGA    L      85      P     342          2.431
LGA    R      86      I     343           #
LGA    E      87      L     344          3.974
LGA    V      88      Q     345           #
LGA    G      89      K     346           -
LGA    K      90      Q     347           -
LGA    L      91      -       -           -
LGA    L      92      -       -           -
LGA    A      93      -       -           -
LGA    F      94      -       -           -
LGA    L      95      -       -           -
LGA    K      96      -       -           -
LGA    D     314      -       -           -
LGA    A     315      -       -           -
LGA    I     316      -       -           -
LGA    Y     317      -       -           -
LGA    H     318      -       -           -
LGA    S     319      -       -           -
LGA    T     320      -       -           -
LGA    Y     321      -       -           -
LGA    T     322      -       -           -
LGA    G     323      -       -           -
LGA    R     324      -       -           -
LGA    P     325      -       -           -
LGA    P     326      -       -           -
LGA    D     327      -       -           -
LGA    E     328      -       -           -
LGA    P     329      -       -           -
LGA    A     330      -       -           -
LGA    V     331      -       -           -
LGA    L     332      -       -           -
LGA    G     333      -       -           -
LGA    V     334      -       -           -
LGA    A     335      -       -           -
LGA    L     336      -       -           -
LGA    N     337      -       -           -
LGA    E     338      -       -           -
LGA    V     339      -       -           -
LGA    F     340      -       -           -
LGA    V     341      -       -           -
LGA    P     342      -       -           -
LGA    I     343      -       -           -
LGA    L     344      -       -           -
LGA    Q     345      -       -           -
LGA    K     346      -       -           -
LGA    Q     347      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  124  124    5.0     40    3.13    40.00     21.904     1.240

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.811551 * X  +   0.072741 * Y  +  -0.579735 * Z  +  81.268852
  Y_new =  -0.364112 * X  +  -0.713031 * Y  +  -0.599174 * Z  +  42.672897
  Z_new =  -0.456954 * X  +   0.697349 * Y  +  -0.552175 * Z  +  76.829857 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.240530   -0.901063  [ DEG:   128.3729    -51.6271 ]
  Theta =   0.474568    2.667025  [ DEG:    27.1907    152.8093 ]
  Phi   =  -0.421740    2.719852  [ DEG:   -24.1639    155.8361 ]
 
# 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: T0356TS599_3-D1                               
REMARK     2: T0356_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0356TS599_3-D1.T0356_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  124  124   5.0   40   3.13   40.00  21.904
REMARK  ---------------------------------------------------------- 
MOLECULE T0356TS599_3-D1
PFRMAT TS                                                                       
TARGET T0356                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      7  CA  ASN     7      79.759  83.854  85.105  1.00  0.00              
ATOM      8  CA  ASP     8      77.762  82.693  82.504  1.00  0.00              
ATOM      9  CA  LEU     9      75.690  80.345  84.361  1.00  0.00              
ATOM     10  CA  ARG    10      75.145  82.809  87.266  1.00  0.00              
ATOM     11  CA  ASP    11      73.490  85.068  84.525  1.00  0.00              
ATOM     12  CA  PHE    12      71.414  81.781  83.560  1.00  0.00              
ATOM     13  CA  LEU    13      70.693  81.456  87.271  1.00  0.00              
ATOM     14  CA  THR    14      69.750  85.055  87.778  1.00  0.00              
ATOM     15  CA  LEU    15      67.539  85.031  85.263  1.00  0.00              
ATOM     16  CA  LEU    16      65.881  82.513  86.331  1.00  0.00              
ATOM     17  CA  GLU    17      65.226  83.748  89.606  1.00  0.00              
ATOM     18  CA  GLN    18      63.969  86.891  88.588  1.00  0.00              
ATOM     19  CA  GLN    19      61.253  85.954  86.358  1.00  0.00              
ATOM     20  CA  GLY    20      59.386  83.761  88.944  1.00  0.00              
ATOM     21  CA  GLU    21      60.517  80.389  87.633  1.00  0.00              
ATOM     22  CA  LEU    22      62.656  78.863  90.377  1.00  0.00              
ATOM     23  CA  LYS    23      60.484  80.323  93.183  1.00  0.00              
ATOM     24  CA  ARG    24      57.092  78.514  91.663  1.00  0.00              
ATOM     25  CA  ILE    25      58.648  75.007  90.465  1.00  0.00              
ATOM     26  CA  THR    26      61.064  74.893  93.089  1.00  0.00              
ATOM     27  CA  LEU    27      58.685  75.490  95.907  1.00  0.00              
ATOM     28  CA  PRO    28      55.667  73.718  96.896  1.00  0.00              
ATOM     29  CA  VAL    29      54.018  72.905  93.346  1.00  0.00              
ATOM     30  CA  ASP    30      51.348  70.371  93.540  1.00  0.00              
ATOM     31  CA  PRO    31      51.503  67.412  91.141  1.00  0.00              
ATOM     32  CA  HIS    32      47.901  67.526  90.107  1.00  0.00              
ATOM     33  CA  LEU    33      47.891  71.206  89.004  1.00  0.00              
ATOM     34  CA  GLU    34      50.968  72.199  87.662  1.00  0.00              
ATOM     35  CA  ILE    35      51.921  69.787  85.589  1.00  0.00              
ATOM     36  CA  THR    36      49.376  69.329  83.578  1.00  0.00              
ATOM     37  CA  GLU    37      48.617  72.605  82.435  1.00  0.00              
ATOM     38  CA  ILE    38      52.183  72.474  81.253  1.00  0.00              
ATOM     39  CA  ALA    39      52.120  69.460  79.496  1.00  0.00              
ATOM     40  CA  ASP    40      49.157  70.676  77.492  1.00  0.00              
ATOM     41  CA  ARG    41      50.195  73.685  76.565  1.00  0.00              
ATOM     42  CA  THR    42      52.987  72.547  74.788  1.00  0.00              
ATOM     43  CA  LEU    43      50.926  70.734  73.058  1.00  0.00              
ATOM     44  CA  ARG    44      48.245  72.628  71.918  1.00  0.00              
ATOM     45  CA  ALA    45      50.330  75.151  70.159  1.00  0.00              
ATOM     46  CA  GLY    46      52.752  73.153  68.335  1.00  0.00              
ATOM     47  CA  GLY    47      55.128  73.516  71.059  1.00  0.00              
ATOM     48  CA  PRO    48      57.471  70.485  72.214  1.00  0.00              
ATOM     49  CA  ALA    49      55.808  68.404  74.566  1.00  0.00              
ATOM     50  CA  LEU    50      57.324  67.529  78.059  1.00  0.00              
ATOM     51  CA  LEU    51      56.014  64.704  80.164  1.00  0.00              
ATOM     52  CA  PHE    52      56.251  64.850  83.905  1.00  0.00              
ATOM     53  CA  GLU    53      56.078  62.198  86.131  1.00  0.00              
ATOM     54  CA  ASN    54      54.820  62.612  89.714  1.00  0.00              
ATOM     55  CA  PRO    55      55.655  66.126  90.416  1.00  0.00              
ATOM     56  CA  LYS    56      56.365  65.474  93.816  1.00  0.00              
ATOM     57  CA  GLY    57      59.320  62.906  93.269  1.00  0.00              
ATOM     58  CA  TYR    58      60.620  63.690  90.304  1.00  0.00              
ATOM     59  CA  SER    59      64.127  64.757  89.913  1.00  0.00              
ATOM     60  CA  MET    60      64.143  66.411  86.615  1.00  0.00              
ATOM     61  CA  PRO    61      65.876  66.969  83.650  1.00  0.00              
ATOM     62  CA  VAL    62      66.731  70.075  81.852  1.00  0.00              
ATOM     63  CA  LEU    63      65.803  70.752  78.072  1.00  0.00              
ATOM     64  CA  CYS    64      66.978  72.280  75.760  1.00  0.00              
ATOM     65  CA  ASN    65      65.393  75.741  75.741  1.00  0.00              
ATOM     66  CA  LEU    66      62.287  74.530  76.614  1.00  0.00              
ATOM     67  CA  PHE    67      61.795  71.453  74.699  1.00  0.00              
ATOM     68  CA  GLY    68      63.978  72.280  71.783  1.00  0.00              
ATOM     69  CA  THR    69      63.404  75.320  71.059  1.00  0.00              
ATOM     70  CA  PRO    70      61.735  76.541  67.655  1.00  0.00              
ATOM     71  CA  LYS    71      64.463  78.634  66.852  1.00  0.00              
ATOM     72  CA  ARG    72      66.997  76.030  67.082  1.00  0.00              
ATOM     73  CA  VAL    73      65.290  74.670  64.743  1.00  0.00              
ATOM     74  CA  ALA    74      64.871  77.639  62.322  1.00  0.00              
ATOM     75  CA  MET    75      68.797  78.348  62.464  1.00  0.00              
ATOM     76  CA  GLY    76      70.431  75.372  61.859  1.00  0.00              
ATOM     77  CA  MET    77      68.358  73.935  59.028  1.00  0.00              
ATOM     78  CA  GLY    78      67.928  76.872  56.904  1.00  0.00              
ATOM     79  CA  GLN    79      64.013  76.787  57.312  1.00  0.00              
ATOM     80  CA  GLU    80      61.027  78.718  57.934  1.00  0.00              
ATOM     81  CA  ASP    81      58.563  76.191  56.222  1.00  0.00              
ATOM     82  CA  VAL    82      57.407  74.940  59.484  1.00  0.00              
ATOM     83  CA  SER    83      56.587  71.302  58.233  1.00  0.00              
ATOM     84  CA  ALA    84      60.035  71.162  57.291  1.00  0.00              
ATOM     85  CA  LEU    85      61.939  72.204  60.072  1.00  0.00              
ATOM     86  CA  ARG    86      59.797  69.824  62.191  1.00  0.00              
ATOM     87  CA  GLU    87      60.911  66.882  60.499  1.00  0.00              
ATOM     88  CA  VAL    88      63.861  67.771  60.681  1.00  0.00              
ATOM     89  CA  GLY    89      64.321  68.152  64.401  1.00  0.00              
ATOM     90  CA  LYS    90      63.257  65.313  65.119  1.00  0.00              
ATOM     91  CA  LEU    91      65.153  63.088  62.867  1.00  0.00              
ATOM     92  CA  LEU    92      67.881  64.346  65.179  1.00  0.00              
ATOM     93  CA  ALA    93      66.902  63.998  68.581  1.00  0.00              
ATOM     94  CA  PHE    94      66.622  60.022  67.843  1.00  0.00              
ATOM     95  CA  LEU    95      69.907  60.241  66.615  1.00  0.00              
ATOM     96  CA  LYS    96      71.351  61.666  69.683  1.00  0.00              
ATOM    314  CA  ASP   314     112.765  25.789  72.177  1.00  0.00              
ATOM    315  CA  ALA   315     110.492  27.678  74.446  1.00  0.00              
ATOM    316  CA  ILE   316     107.189  26.335  75.483  1.00  0.00              
ATOM    317  CA  TYR   317     104.871  28.655  76.328  1.00  0.00              
ATOM    318  CA  HIS   318     102.040  27.727  78.473  1.00  0.00              
ATOM    319  CA  SER   319      98.661  29.572  78.381  1.00  0.00              
ATOM    320  CA  THR   320      96.488  29.366  81.298  1.00  0.00              
ATOM    321  CA  TYR   321      94.148  30.721  83.152  1.00  0.00              
ATOM    322  CA  THR   322      90.437  31.134  82.692  1.00  0.00              
ATOM    323  CA  GLY   323      87.841  29.747  84.980  1.00  0.00              
ATOM    324  CA  ARG   324      86.810  26.090  84.067  1.00  0.00              
ATOM    325  CA  PRO   325      84.110  24.899  86.147  1.00  0.00              
ATOM    326  CA  PRO   326      84.614  22.621  88.760  1.00  0.00              
ATOM    327  CA  ASP   327      82.699  19.970  88.058  1.00  0.00              
ATOM    328  CA  GLU   328      83.523  19.682  84.596  1.00  0.00              
ATOM    329  CA  PRO   329      83.369  16.069  83.901  1.00  0.00              
ATOM    330  CA  ALA   330      81.148  15.604  81.212  1.00  0.00              
ATOM    331  CA  VAL   331      77.477  14.814  82.501  1.00  0.00              
ATOM    332  CA  LEU   332      74.346  17.226  82.696  1.00  0.00              
ATOM    333  CA  GLY   333      71.787  15.346  81.083  1.00  0.00              
ATOM    334  CA  VAL   334      68.994  15.150  83.612  1.00  0.00              
ATOM    335  CA  ALA   335      68.408  18.037  85.749  1.00  0.00              
ATOM    336  CA  LEU   336      69.125  20.518  83.287  1.00  0.00              
ATOM    337  CA  ASN   337      67.220  19.483  80.132  1.00  0.00              
ATOM    338  CA  GLU   338      63.946  19.649  81.614  1.00  0.00              
ATOM    339  CA  VAL   339      64.121  23.163  82.884  1.00  0.00              
ATOM    340  CA  PHE   340      65.669  24.921  80.307  1.00  0.00              
ATOM    341  CA  VAL   341      63.829  24.037  77.535  1.00  0.00              
ATOM    342  CA  PRO   342      60.501  24.826  79.199  1.00  0.00              
ATOM    343  CA  ILE   343      61.442  28.390  80.137  1.00  0.00              
ATOM    344  CA  LEU   344      62.434  28.761  76.545  1.00  0.00              
ATOM    345  CA  GLN   345      59.261  27.532  75.391  1.00  0.00              
ATOM    346  CA  LYS   346      57.156  29.609  77.128  1.00  0.00              
ATOM    347  CA  GLN   347      59.098  32.800  76.200  1.00  0.00              
TER                                                                             
END
