
#######################################################
#                                                     #
#                        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   52 (   52),  selected   52 , name T0342TS464_4_2
# Molecule2: number of CA atoms  169 ( 1343),  selected  169 , name T0342.pdb
# PARAMETERS: T0342TS464_4_2.T0342.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       2      E      14           -
LGA    N       3      E      15           -
LGA    S       4      S      16           -
LGA    G       5      F      17           -
LGA    C       6      L      18           -
LGA    -       -      Y      19           -
LGA    -       -      F      20           -
LGA    -       -      A      21           -
LGA    -       -      Y      22           -
LGA    -       -      G      23           -
LGA    -       -      S      24           -
LGA    E      78      N      25          3.051
LGA    V      79      L      26          1.157
LGA    W      80      L      27          5.304
LGA    -       -      T      28           -
LGA    -       -      E      29           -
LGA    -       -      R      30           -
LGA    -       -      I      31           -
LGA    -       -      H      32           -
LGA    -       -      L      33           -
LGA    -       -      R      34           -
LGA    -       -      N      35           -
LGA    -       -      P      36           -
LGA    -       -      S      37           -
LGA    -       -      A      38           -
LGA    -       -      A      39           -
LGA    G      81      F      40          4.675
LGA    V      82      F      41           #
LGA    V      83      C      42           #
LGA    W      84      V      43          1.668
LGA    K      85      A      44          3.221
LGA    M      86      R      45          3.762
LGA    -       -      L      46           -
LGA    -       -      Q      47           -
LGA    -       -      D      48           -
LGA    -       -      F      49           -
LGA    -       -      K      50           -
LGA    -       -      L      51           -
LGA    -       -      D      52           -
LGA    -       -      F      53           -
LGA    -       -      G      54           -
LGA    -       -      N      55           -
LGA    -       -      S      56           -
LGA    -       -      Q      57           -
LGA    -       -      G      58           -
LGA    -       -      K      59           -
LGA    -       -      T      60           -
LGA    -       -      S      61           -
LGA    -       -      Q      62           -
LGA    -       -      T      63           -
LGA    -       -      W      64           -
LGA    P     135      H      65          4.076
LGA    -       -      G      66           -
LGA    -       -      G      67           -
LGA    -       -      I      68           -
LGA    -       -      A      69           -
LGA    -       -      T      70           -
LGA    -       -      I      71           -
LGA    -       -      F      72           -
LGA    -       -      Q      73           -
LGA    -       -      S      74           -
LGA    -       -      P      75           -
LGA    -       -      G      76           -
LGA    -       -      D      77           -
LGA    -       -      E      78           -
LGA    -       -      V      79           -
LGA    -       -      W      80           -
LGA    -       -      G      81           -
LGA    -       -      V      82           -
LGA    -       -      V      83           -
LGA    -       -      W      84           -
LGA    -       -      K      85           -
LGA    -       -      M      86           -
LGA    -       -      N      87           -
LGA    -       -      K      88           -
LGA    -       -      S      89           -
LGA    -       -      N      90           -
LGA    -       -      L      91           -
LGA    -       -      N      92           -
LGA    -       -      S      93           -
LGA    -       -      L      94           -
LGA    -       -      D      95           -
LGA    -       -      E      96           -
LGA    -       -      Q      97           -
LGA    -       -      E      98           -
LGA    -       -      G      99           -
LGA    -       -      V     100           -
LGA    -       -      K     101           -
LGA    -       -      S     102           -
LGA    -       -      G     103           -
LGA    -       -      M     104           -
LGA    -       -      Y     105           -
LGA    -       -      V     106           -
LGA    -       -      V     107           -
LGA    -       -      I     108           -
LGA    -       -      E     109           -
LGA    -       -      V     110           -
LGA    -       -      K     111           -
LGA    -       -      V     112           -
LGA    -       -      A     113           -
LGA    -       -      T     114           -
LGA    -       -      Q     115           -
LGA    -       -      E     116           -
LGA    -       -      G     117           -
LGA    -       -      K     118           -
LGA    -       -      E     119           -
LGA    -       -      I     120           -
LGA    -       -      T     121           -
LGA    -       -      C     122           -
LGA    -       -      R     123           -
LGA    -       -      S     124           -
LGA    -       -      Y     125           -
LGA    -       -      L     126           -
LGA    -       -      M     127           -
LGA    -       -      T     128           -
LGA    -       -      N     129           -
LGA    -       -      Y     130           -
LGA    -       -      E     131           -
LGA    -       -      S     132           -
LGA    -       -      A     133           -
LGA    -       -      P     134           -
LGA    -       -      P     135           -
LGA    S     136      S     136          0.432
LGA    P     137      P     137          0.413
LGA    Q     138      Q     138          0.618
LGA    Y     139      Y     139          0.991
LGA    K     140      K     140          0.609
LGA    K     141      K     141          0.727
LGA    I     142      I     142          0.386
LGA    I     143      I     143          0.376
LGA    C     144      C     144          0.462
LGA    M     145      M     145          0.833
LGA    G     146      G     146          0.834
LGA    A     147      A     147          0.484
LGA    K     148      K     148          0.719
LGA    E     149      E     149          1.147
LGA    N     150      N     150          0.851
LGA    G     151      G     151          0.885
LGA    L     152      L     152          1.042
LGA    P     153      P     153          3.530
LGA    -       -      L     154           -
LGA    -       -      E     155           -
LGA    -       -      Y     156           -
LGA    L     154      Q     157          0.929
LGA    -       -      E     158           -
LGA    -       -      K     159           -
LGA    E     155      L     160          2.035
LGA    Y     156      K     161           -
LGA    Q     157      A     162           -
LGA    E     158      I     163           #
LGA    K     159      E     164           -
LGA    L     160      P     165           -
LGA    K     161      N     166           -
LGA    A     162      D     167           -
LGA    I     163      Y     168           -
LGA    E     164      T     169           -
LGA    P     165      G     170           -
LGA    N     166      K     171           -
LGA    D     167      V     172           -
LGA    Y     168      S     173           -
LGA    T     169      E     174           -
LGA    G     170      E     175           -
LGA    K     171      I     176           -
LGA    V     172      E     177           -
LGA    -       -      D     178           -
LGA    -       -      I     179           -
LGA    -       -      I     180           -
LGA    -       -      K     181           -
LGA    -       -      K     182           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   52  169    5.0     28    2.16    64.29     14.013     1.236

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.032669 * X  +   0.038325 * Y  +   0.998731 * Z  + -40.466042
  Y_new =   0.066314 * X  +   0.997146 * Y  +  -0.036095 * Z  + -51.591320
  Z_new =  -0.997264 * X  +   0.065051 * Y  +  -0.035117 * Z  +   8.303023 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.065808   -1.075785  [ DEG:   118.3621    -61.6379 ]
  Theta =   1.496804    1.644788  [ DEG:    85.7606     94.2394 ]
  Phi   =   2.028539   -1.113054  [ DEG:   116.2267    -63.7733 ]
 
# 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: T0342TS464_4_2                                
REMARK     2: T0342.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0342TS464_4_2.T0342.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   52  169   5.0   28   2.16   64.29  14.013
REMARK  ---------------------------------------------------------- 
MOLECULE T0342TS464_4_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0342
PARENT N/A
ATOM      1  CA  ALA     2      11.122  88.826  23.280  1.00  0.00
ATOM      2  CA  ASN     3       9.155  86.143  25.130  1.00  0.00
ATOM      3  CA  SER     4       8.973  84.233  21.854  1.00  0.00
ATOM      4  CA  GLY     5      12.759  84.431  21.725  1.00  0.00
ATOM      5  CA  CYS     6      12.970  87.231  19.183  1.00  0.00
ATOM      6  CA  GLU    78       2.749  83.132   4.635  1.00  0.00
ATOM      7  CA  VAL    79       5.457  84.344   6.999  1.00  0.00
ATOM      8  CA  TRP    80       7.695  81.321   6.417  1.00  0.00
ATOM      9  CA  GLY    81       7.434  81.847   2.649  1.00  0.00
ATOM     10  CA  VAL    82       8.673  85.429   3.024  1.00  0.00
ATOM     11  CA  VAL    83      11.531  84.470   5.354  1.00  0.00
ATOM     12  CA  TRP    84      12.778  81.800   2.921  1.00  0.00
ATOM     13  CA  LYS    85      12.476  84.209   0.005  1.00  0.00
ATOM     14  CA  MET    86      14.705  86.736   1.784  1.00  0.00
ATOM     15  CA  PRO   135      -4.839  90.192  21.636  1.00  0.00
ATOM     16  CA  SER   136      -1.413  91.671  21.009  1.00  0.00
ATOM     17  CA  PRO   137       0.517  88.848  22.715  1.00  0.00
ATOM     18  CA  GLN   138      -1.512  86.534  20.541  1.00  0.00
ATOM     19  CA  TYR   139      -0.606  88.661  17.526  1.00  0.00
ATOM     20  CA  LYS   140       3.069  88.540  18.524  1.00  0.00
ATOM     21  CA  LYS   141       2.801  84.771  18.899  1.00  0.00
ATOM     22  CA  ILE   142       1.965  83.322  15.341  1.00  0.00
ATOM     23  CA  ILE   143       4.317  85.785  13.628  1.00  0.00
ATOM     24  CA  CYS   144       7.212  84.763  15.928  1.00  0.00
ATOM     25  CA  MET   145       5.908  81.377  14.828  1.00  0.00
ATOM     26  CA  GLY   146       6.277  82.367  11.158  1.00  0.00
ATOM     27  CA  ALA   147       9.789  83.727  11.748  1.00  0.00
ATOM     28  CA  LYS   148      10.762  80.344  13.167  1.00  0.00
ATOM     29  CA  GLU   149       8.955  78.238  10.576  1.00  0.00
ATOM     30  CA  ASN   150      10.775  79.906   7.691  1.00  0.00
ATOM     31  CA  GLY   151      13.996  80.671   9.553  1.00  0.00
ATOM     32  CA  LEU   152      13.873  84.449   9.364  1.00  0.00
ATOM     33  CA  PRO   153      15.568  86.648  11.983  1.00  0.00
ATOM     34  CA  LEU   154      13.287  87.346  14.955  1.00  0.00
ATOM     35  CA  GLU   155      11.002  90.219  14.023  1.00  0.00
ATOM     36  CA  TYR   156      11.084  90.047  10.209  1.00  0.00
ATOM     37  CA  GLN   157       7.309  89.421   9.866  1.00  0.00
ATOM     38  CA  GLU   158       6.684  92.217  12.369  1.00  0.00
ATOM     39  CA  LYS   159       8.634  94.741  10.287  1.00  0.00
ATOM     40  CA  LEU   160       7.006  93.608   7.037  1.00  0.00
ATOM     41  CA  LYS   161       3.464  93.493   8.506  1.00  0.00
ATOM     42  CA  ALA   162       3.913  96.959  10.069  1.00  0.00
ATOM     43  CA  ILE   163       4.908  98.509   6.730  1.00  0.00
ATOM     44  CA  GLU   164       2.765  96.809   4.134  1.00  0.00
ATOM     45  CA  PRO   165      -0.378  95.760   5.941  1.00  0.00
ATOM     46  CA  ASN   166      -2.413  98.863   5.213  1.00  0.00
ATOM     47  CA  ASP   167      -5.826  97.590   6.489  1.00  0.00
ATOM     48  CA  TYR   168      -4.478  95.819   9.591  1.00  0.00
ATOM     49  CA  THR   169      -5.674  92.224   8.967  1.00  0.00
ATOM     50  CA  GLY   170      -2.238  90.472   9.529  1.00  0.00
ATOM     51  CA  LYS   171      -2.108  89.377   5.884  1.00  0.00
ATOM     52  CA  VAL   172       0.208  91.142   3.405  1.00  0.00
TER
END
