
#######################################################
#                                                     #
#                        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  113 (  113),  selected  113 , name T0372TS464_4_1
# Molecule2: number of CA atoms  298 ( 2427),  selected  298 , name T0372.pdb
# PARAMETERS: T0372TS464_4_1.T0372.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      I       2           -
LGA    -       -      P       3           -
LGA    -       -      F       4           -
LGA    -       -      K       5           -
LGA    -       -      D       6           -
LGA    -       -      I       7           -
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    -       -      A      10           -
LGA    -       -      D      11           -
LGA    -       -      R      12           -
LGA    -       -      D      13           -
LGA    -       -      T      14           -
LGA    -       -      I      15           -
LGA    -       -      T      16           -
LGA    -       -      A      17           -
LGA    -       -      F      18           -
LGA    -       -      T      19           -
LGA    -       -      M      20           -
LGA    -       -      K      21           -
LGA    -       -      S      22           -
LGA    -       -      D      23           -
LGA    -       -      R      24           -
LGA    -       -      R      25           -
LGA    -       -      N      26           -
LGA    -       -      C      27           -
LGA    -       -      D      28           -
LGA    -       -      L      29           -
LGA    -       -      S      30           -
LGA    -       -      F      31           -
LGA    -       -      S      32           -
LGA    -       -      N      33           -
LGA    -       -      L      34           -
LGA    -       -      C      35           -
LGA    -       -      S      36           -
LGA    -       -      W      37           -
LGA    -       -      R      38           -
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    -       -      Y      41           -
LGA    -       -      D      42           -
LGA    -       -      T      43           -
LGA    -       -      Q      44           -
LGA    -       -      F      45           -
LGA    -       -      A      46           -
LGA    -       -      V      47           -
LGA    -       -      I      48           -
LGA    -       -      D      49           -
LGA    -       -      D      50           -
LGA    -       -      F      51           -
LGA    -       -      L      52           -
LGA    -       -      V      53           -
LGA    -       -      F      54           -
LGA    -       -      K      55           -
LGA    -       -      F      56           -
LGA    -       -      W      57           -
LGA    -       -      A      58           -
LGA    -       -      G      59           -
LGA    -       -      E      60           -
LGA    -       -      Q      61           -
LGA    -       -      L      62           -
LGA    -       -      A      63           -
LGA    -       -      Y      64           -
LGA    -       -      M      65           -
LGA    -       -      M      66           -
LGA    -       -      P      67           -
LGA    -       -      V      68           -
LGA    -       -      G      69           -
LGA    -       -      N      70           -
LGA    -       -      G      71           -
LGA    -       -      D      72           -
LGA    -       -      L      73           -
LGA    -       -      K      74           -
LGA    -       -      A      75           -
LGA    -       -      V      76           -
LGA    -       -      L      77           -
LGA    -       -      R      78           -
LGA    -       -      K      79           -
LGA    -       -      L      80           -
LGA    -       -      I      81           -
LGA    -       -      E      82           -
LGA    -       -      D      83           -
LGA    -       -      A      84           -
LGA    -       -      D      85           -
LGA    -       -      K      86           -
LGA    -       -      E      87           -
LGA    -       -      K      88           -
LGA    -       -      H      89           -
LGA    -       -      N      90           -
LGA    -       -      F      91           -
LGA    -       -      C      92           -
LGA    -       -      M      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      V      96           -
LGA    -       -      C      97           -
LGA    -       -      S      98           -
LGA    -       -      N      99           -
LGA    -       -      M     100           -
LGA    -       -      R     101           -
LGA    -       -      A     102           -
LGA    -       -      D     103           -
LGA    -       -      L     104           -
LGA    -       -      E     105           -
LGA    -       -      A     106           -
LGA    -       -      I     107           -
LGA    -       -      L     108           -
LGA    -       -      P     109           -
LGA    -       -      E     110           -
LGA    -       -      R     111           -
LGA    -       -      F     112           -
LGA    -       -      I     113           -
LGA    -       -      F     114           -
LGA    -       -      T     115           -
LGA    -       -      E     116           -
LGA    -       -      D     117           -
LGA    -       -      R     118           -
LGA    -       -      A     119           -
LGA    -       -      Y     120           -
LGA    -       -      A     121           -
LGA    -       -      D     122           -
LGA    -       -      Y     123           -
LGA    -       -      I     124           -
LGA    -       -      Y     125           -
LGA    -       -      L     126           -
LGA    -       -      R     127           -
LGA    -       -      S     128           -
LGA    -       -      D     129           -
LGA    -       -      L     130           -
LGA    -       -      A     131           -
LGA    -       -      T     132           -
LGA    -       -      L     133           -
LGA    -       -      K     134           -
LGA    -       -      G     135           -
LGA    -       -      K     136           -
LGA    -       -      K     137           -
LGA    -       -      F     138           -
LGA    -       -      Q     139           -
LGA    -       -      A     140           -
LGA    -       -      K     141           -
LGA    -       -      R     142           -
LGA    -       -      N     143           -
LGA    -       -      H     144           -
LGA    -       -      I     145           -
LGA    -       -      N     146           -
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      R     149           -
LGA    -       -      N     150           -
LGA    -       -      T     151           -
LGA    -       -      Y     152           -
LGA    -       -      P     153           -
LGA    -       -      D     154           -
LGA    -       -      Y     155           -
LGA    -       -      E     156           -
LGA    -       -      Y     157           -
LGA    -       -      T     158           -
LGA    -       -      P     159           -
LGA    -       -      I     160           -
LGA    -       -      T     161           -
LGA    -       -      P     162           -
LGA    -       -      D     163           -
LGA    -       -      R     164           -
LGA    -       -      I     165           -
LGA    -       -      Q     166           -
LGA    -       -      E     167           -
LGA    -       -      C     168           -
LGA    -       -      L     169           -
LGA    -       -      D     170           -
LGA    -       -      L     171           -
LGA    -       -      E     172           -
LGA    -       -      A     173           -
LGA    -       -      E     174           -
LGA    -       -      W     175           -
LGA    -       -      C     176           -
LGA    -       -      K     177           -
LGA    -       -      V     178           -
LGA    -       -      N     179           -
LGA    -       -      N     180           -
LGA    -       -      C     181           -
LGA    -       -      D     182           -
LGA    -       -      Q     183           -
LGA    -       -      Q     184           -
LGA    -       -      E     185           -
LGA    -       -      G     186           -
LGA    -       -      T     187           -
LGA    -       -      G     188           -
LGA    -       -      N     189           -
LGA    -       -      E     190           -
LGA    -       -      R     191           -
LGA    -       -      R     192           -
LGA    -       -      A     193           -
LGA    -       -      L     194           -
LGA    -       -      I     195           -
LGA    -       -      Y     196           -
LGA    -       -      A     197           -
LGA    -       -      L     198           -
LGA    -       -      H     199           -
LGA    -       -      N     200           -
LGA    -       -      F     201           -
LGA    -       -      E     202           -
LGA    -       -      A     203           -
LGA    -       -      L     204           -
LGA    -       -      G     205           -
LGA    -       -      L     206           -
LGA    -       -      T     207           -
LGA    -       -      G     208           -
LGA    -       -      G     209           -
LGA    -       -      I     210           -
LGA    -       -      L     211           -
LGA    -       -      H     212           -
LGA    -       -      V     213           -
LGA    -       -      N     214           -
LGA    -       -      G     215           -
LGA    -       -      K     216           -
LGA    -       -      I     217           -
LGA    -       -      V     218           -
LGA    -       -      A     219           -
LGA    D      42      F     220           #
LGA    T      43      T     221           #
LGA    Q      44      F     222          4.879
LGA    F      45      G     223          1.625
LGA    A      46      M     224          3.162
LGA    V      47      P     225          2.800
LGA    I      48      I     226          3.383
LGA    D      49      N     227          3.875
LGA    D      50      H     228          1.365
LGA    -       -      E     229           -
LGA    F      51      T     230          2.502
LGA    L      52      F     231          1.835
LGA    V      53      G     232          1.502
LGA    F      54      V     233          1.933
LGA    K      55      H     234          2.659
LGA    F      56      V     235          4.640
LGA    W      57      E     236          5.576
LGA    A      63      -       -           -
LGA    Y      64      -       -           -
LGA    M      65      -       -           -
LGA    M      66      -       -           -
LGA    P      67      K     237          2.993
LGA    V      68      A     238          3.627
LGA    G      69      D     239           #
LGA    -       -      T     240           -
LGA    -       -      S     241           -
LGA    -       -      I     242           -
LGA    -       -      D     243           -
LGA    N      70      G     244          6.311
LGA    G      71      A     245          2.608
LGA    D      72      Y     246          2.599
LGA    L      73      A     247           #
LGA    K      74      M     248          5.144
LGA    A      75      I     249          1.908
LGA    V      76      N     250          2.008
LGA    L      77      Y     251          3.665
LGA    R      78      E     252          4.179
LGA    K      79      F     253          3.220
LGA    L      80      A     254          1.839
LGA    I      81      N     255          3.119
LGA    E      82      R     256          3.524
LGA    D      83      I     257          2.688
LGA    A      84      P     258          2.895
LGA    D      85      -       -           -
LGA    K      86      -       -           -
LGA    E      87      E     259          3.129
LGA    K      88      Q     260          5.407
LGA    H      89      Y     261          3.657
LGA    N      90      I     262          1.284
LGA    F      91      Y     263          3.567
LGA    C      92      I     264          1.207
LGA    M      93      N     265          3.466
LGA    R     142      R     266           -
LGA    N     143      E     267           -
LGA    H     144      E     268           -
LGA    I     145      D     269           -
LGA    N     146      L     270           -
LGA    R     147      G     271           -
LGA    F     148      -       -           -
LGA    R     149      -       -           -
LGA    N     150      -       -           -
LGA    T     151      -       -           -
LGA    Y     152      -       -           -
LGA    P     153      -       -           -
LGA    D     154      -       -           -
LGA    A     173      -       -           -
LGA    E     174      -       -           -
LGA    W     175      -       -           -
LGA    C     176      -       -           -
LGA    K     177      -       -           -
LGA    V     178      -       -           -
LGA    N     179      -       -           -
LGA    N     180      -       -           -
LGA    C     181      -       -           -
LGA    D     182      -       -           -
LGA    Q     183      -       -           -
LGA    Q     184      -       -           -
LGA    E     185      -       -           -
LGA    G     186      I     272          3.747
LGA    T     187      -       -           -
LGA    G     188      -       -           -
LGA    N     189      -       -           -
LGA    E     190      -       -           -
LGA    R     191      E     273          2.821
LGA    R     192      G     274          2.642
LGA    A     193      L     275          2.951
LGA    L     194      R     276          3.322
LGA    I     195      K     277           #
LGA    Y     196      A     278          2.942
LGA    A     197      K     279          2.412
LGA    L     198      L     280          2.203
LGA    H     199      S     281          2.269
LGA    N     200      Y     282          2.229
LGA    F     201      -       -           -
LGA    E     202      Q     283          3.840
LGA    A     203      -       -           -
LGA    L     204      -       -           -
LGA    G     205      -       -           -
LGA    L     206      -       -           -
LGA    T     207      -       -           -
LGA    G     208      P     284          1.042
LGA    I     242      V     285           -
LGA    D     243      -       -           -
LGA    G     244      -       -           -
LGA    A     245      -       -           -
LGA    Y     246      -       -           -
LGA    E     268      -       -           -
LGA    D     269      -       -           -
LGA    L     270      -       -           -
LGA    G     271      -       -           -
LGA    I     272      -       -           -
LGA    E     273      T     286          3.497
LGA    G     274      I     287          0.748
LGA    I     287      L     288           -
LGA    L     288      E     289           -
LGA    E     289      K     290           -
LGA    K     290      Y     291           -
LGA    Y     291      M     292           -
LGA    -       -      A     293           -
LGA    -       -      C     294           -
LGA    -       -      L     295           -
LGA    -       -      K     296           -
LGA    -       -      D     297           -
LGA    -       -      H     298           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  113  298    5.0     51    3.21     5.88     10.817     1.539

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.547530 * X  +  -0.158346 * Y  +   0.821667 * Z  + -42.762253
  Y_new =  -0.265037 * X  +   0.898561 * Y  +   0.349776 * Z  +  29.336910
  Z_new =  -0.793704 * X  +  -0.409285 * Y  +   0.450022 * Z  + 119.463737 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.738026    2.403566  [ DEG:   -42.2858    137.7142 ]
  Theta =   0.916874    2.224719  [ DEG:    52.5330    127.4670 ]
  Phi   =  -0.450813    2.690779  [ DEG:   -25.8297    154.1703 ]
 
# 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: T0372TS464_4_1                                
REMARK     2: T0372.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS464_4_1.T0372.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  113  298   5.0   51   3.21    5.88  10.817
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS464_4_1
REMARK PARENT number 1
PFRMAT TS
TARGET T0372
PARENT N/A
ATOM      1  CA  ASP    42      38.149  39.808  23.611  1.00  0.00
ATOM      2  CA  THR    43      40.341  38.767  20.832  1.00  0.00
ATOM      3  CA  GLN    44      41.234  42.325  19.572  1.00  0.00
ATOM      4  CA  PHE    45      40.640  45.858  20.708  1.00  0.00
ATOM      5  CA  ALA    46      40.929  49.045  18.443  1.00  0.00
ATOM      6  CA  VAL    47      41.011  52.442  19.978  1.00  0.00
ATOM      7  CA  ILE    48      39.584  54.633  17.199  1.00  0.00
ATOM      8  CA  ASP    49      38.855  58.321  17.624  1.00  0.00
ATOM      9  CA  ASP    50      35.627  58.409  19.573  1.00  0.00
ATOM     10  CA  PHE    51      34.844  54.636  19.725  1.00  0.00
ATOM     11  CA  LEU    52      36.540  51.512  20.853  1.00  0.00
ATOM     12  CA  VAL    53      35.773  48.565  18.678  1.00  0.00
ATOM     13  CA  PHE    54      36.263  45.000  20.040  1.00  0.00
ATOM     14  CA  LYS    55      36.127  41.635  18.381  1.00  0.00
ATOM     15  CA  PHE    56      34.469  39.242  20.968  1.00  0.00
ATOM     16  CA  TRP    57      34.300  35.508  20.686  1.00  0.00
ATOM     17  CA  ALA    63      44.177  44.407  31.422  1.00  0.00
ATOM     18  CA  TYR    64      45.090  41.352  29.374  1.00  0.00
ATOM     19  CA  MET    65      42.518  38.546  29.223  1.00  0.00
ATOM     20  CA  MET    66      43.614  34.992  28.450  1.00  0.00
ATOM     21  CA  PRO    67      40.572  33.049  27.238  1.00  0.00
ATOM     22  CA  VAL    68      37.607  34.336  25.261  1.00  0.00
ATOM     23  CA  GLY    69      34.720  32.413  26.798  1.00  0.00
ATOM     24  CA  ASN    70      31.682  33.990  28.440  1.00  0.00
ATOM     25  CA  GLY    71      33.449  34.733  31.742  1.00  0.00
ATOM     26  CA  ASP    72      36.351  36.189  29.781  1.00  0.00
ATOM     27  CA  LEU    73      34.158  38.289  27.462  1.00  0.00
ATOM     28  CA  LYS    74      31.714  39.624  30.188  1.00  0.00
ATOM     29  CA  ALA    75      34.790  40.540  32.069  1.00  0.00
ATOM     30  CA  VAL    76      34.793  43.074  29.245  1.00  0.00
ATOM     31  CA  LEU    77      31.205  44.143  30.064  1.00  0.00
ATOM     32  CA  ARG    78      32.144  44.633  33.737  1.00  0.00
ATOM     33  CA  LYS    79      34.987  46.994  32.827  1.00  0.00
ATOM     34  CA  LEU    80      34.567  48.816  29.303  1.00  0.00
ATOM     35  CA  ILE    81      32.390  50.140  32.172  1.00  0.00
ATOM     36  CA  GLU    82      35.489  50.827  34.316  1.00  0.00
ATOM     37  CA  ASP    83      37.112  52.926  31.580  1.00  0.00
ATOM     38  CA  ALA    84      34.297  54.830  29.949  1.00  0.00
ATOM     39  CA  ASP    85      31.653  55.211  32.614  1.00  0.00
ATOM     40  CA  LYS    86      32.549  56.827  35.737  1.00  0.00
ATOM     41  CA  GLU    87      33.522  58.927  32.727  1.00  0.00
ATOM     42  CA  LYS    88      30.130  59.230  31.013  1.00  0.00
ATOM     43  CA  HIS    89      31.926  57.703  28.074  1.00  0.00
ATOM     44  CA  ASN    90      30.354  55.355  25.465  1.00  0.00
ATOM     45  CA  PHE    91      31.802  51.867  25.103  1.00  0.00
ATOM     46  CA  CYS    92      31.534  49.414  22.231  1.00  0.00
ATOM     47  CA  MET    93      31.858  45.645  22.563  1.00  0.00
ATOM     48  CA  ARG   142      23.870  37.373  34.454  1.00  0.00
ATOM     49  CA  ASN   143      26.619  37.601  37.015  1.00  0.00
ATOM     50  CA  HIS   144      27.520  41.081  35.775  1.00  0.00
ATOM     51  CA  ILE   145      24.006  42.204  36.755  1.00  0.00
ATOM     52  CA  ASN   146      24.809  41.030  40.305  1.00  0.00
ATOM     53  CA  ARG   147      28.132  42.894  40.366  1.00  0.00
ATOM     54  CA  PHE   148      26.600  46.044  38.887  1.00  0.00
ATOM     55  CA  ARG   149      24.888  46.875  42.178  1.00  0.00
ATOM     56  CA  ASN   150      28.399  47.796  43.301  1.00  0.00
ATOM     57  CA  THR   151      29.299  49.560  40.072  1.00  0.00
ATOM     58  CA  TYR   152      26.404  51.884  39.441  1.00  0.00
ATOM     59  CA  PRO   153      23.021  52.926  40.921  1.00  0.00
ATOM     60  CA  ASP   154      21.480  53.003  37.455  1.00  0.00
ATOM     61  CA  ALA   173      15.278  31.005  19.788  1.00  0.00
ATOM     62  CA  GLU   174      16.025  34.408  18.401  1.00  0.00
ATOM     63  CA  TRP   175      19.212  33.181  16.808  1.00  0.00
ATOM     64  CA  CYS   176      17.125  30.382  15.191  1.00  0.00
ATOM     65  CA  LYS   177      14.883  32.922  13.437  1.00  0.00
ATOM     66  CA  VAL   178      17.916  34.906  12.204  1.00  0.00
ATOM     67  CA  ASN   179      19.351  31.774  10.730  1.00  0.00
ATOM     68  CA  ASN   180      15.990  30.888   9.178  1.00  0.00
ATOM     69  CA  CYS   181      15.451  34.329   7.653  1.00  0.00
ATOM     70  CA  ASP   182      18.950  34.733   6.411  1.00  0.00
ATOM     71  CA  GLN   183      19.172  31.110   5.216  1.00  0.00
ATOM     72  CA  GLN   184      22.620  30.851   6.788  1.00  0.00
ATOM     73  CA  GLU   185      23.134  28.430   9.632  1.00  0.00
ATOM     74  CA  GLY   186      25.540  28.571  12.546  1.00  0.00
ATOM     75  CA  THR   187      27.921  26.341  14.475  1.00  0.00
ATOM     76  CA  GLY   188      27.508  25.471  18.073  1.00  0.00
ATOM     77  CA  ASN   189      30.456  27.602  18.783  1.00  0.00
ATOM     78  CA  GLU   190      29.293  30.908  17.342  1.00  0.00
ATOM     79  CA  ARG   191      25.827  30.794  18.932  1.00  0.00
ATOM     80  CA  ARG   192      27.653  30.116  22.156  1.00  0.00
ATOM     81  CA  ALA   193      29.931  33.078  21.427  1.00  0.00
ATOM     82  CA  LEU   194      26.898  35.265  20.702  1.00  0.00
ATOM     83  CA  ILE   195      25.105  33.818  23.715  1.00  0.00
ATOM     84  CA  TYR   196      27.391  35.753  26.038  1.00  0.00
ATOM     85  CA  ALA   197      27.129  39.007  24.079  1.00  0.00
ATOM     86  CA  LEU   198      23.317  38.972  24.010  1.00  0.00
ATOM     87  CA  HIS   199      23.402  38.408  27.775  1.00  0.00
ATOM     88  CA  ASN   200      25.645  41.419  28.374  1.00  0.00
ATOM     89  CA  PHE   201      24.587  44.675  29.795  1.00  0.00
ATOM     90  CA  GLU   202      20.809  44.404  29.217  1.00  0.00
ATOM     91  CA  ALA   203      20.247  44.343  32.966  1.00  0.00
ATOM     92  CA  LEU   204      21.980  47.706  33.030  1.00  0.00
ATOM     93  CA  GLY   205      20.171  49.772  30.428  1.00  0.00
ATOM     94  CA  LEU   206      22.762  49.174  27.713  1.00  0.00
ATOM     95  CA  THR   207      21.317  48.208  24.323  1.00  0.00
ATOM     96  CA  GLY   208      23.390  45.250  23.184  1.00  0.00
ATOM     97  CA  ILE   242      29.405  55.741  37.597  1.00  0.00
ATOM     98  CA  ASP   243      25.804  54.918  36.542  1.00  0.00
ATOM     99  CA  GLY   244      26.574  51.512  34.811  1.00  0.00
ATOM    100  CA  ALA   245      25.567  52.911  31.415  1.00  0.00
ATOM    101  CA  TYR   246      28.224  53.811  28.818  1.00  0.00
ATOM    102  CA  GLU   268      15.972  38.410  19.333  1.00  0.00
ATOM    103  CA  ASP   269      15.776  37.197  22.904  1.00  0.00
ATOM    104  CA  LEU   270      17.324  40.319  24.449  1.00  0.00
ATOM    105  CA  GLY   271      15.988  43.022  22.129  1.00  0.00
ATOM    106  CA  ILE   272      19.552  44.012  21.310  1.00  0.00
ATOM    107  CA  GLU   273      20.030  45.653  17.912  1.00  0.00
ATOM    108  CA  GLY   274      22.843  45.731  15.332  1.00  0.00
ATOM    109  CA  ILE   287      41.784  39.284  24.903  1.00  0.00
ATOM    110  CA  LEU   288      43.903  36.430  23.580  1.00  0.00
ATOM    111  CA  GLU   289      42.045  33.224  22.578  1.00  0.00
ATOM    112  CA  LYS   290      44.003  30.297  21.207  1.00  0.00
ATOM    113  CA  TYR   291      41.229  29.040  18.956  1.00  0.00
TER
END
