
#######################################################
#                                                     #
#                        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   57 (   57),  selected   57 , name T0320TS464_5_2
# Molecule2: number of CA atoms  287 ( 2364),  selected  287 , name T0320.pdb
# PARAMETERS: T0320TS464_5_2.T0320.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      Q       2           -
LGA    -       -      L       3           -
LGA    -       -      S       4           -
LGA    -       -      K       5           -
LGA    -       -      A       6           -
LGA    -       -      A       7           -
LGA    -       -      E       8           -
LGA    -       -      M       9           -
LGA    -       -      C      10           -
LGA    -       -      Y      11           -
LGA    -       -      E      12           -
LGA    -       -      I      13           -
LGA    -       -      T      14           -
LGA    -       -      N      15           -
LGA    -       -      S      16           -
LGA    -       -      Y      17           -
LGA    -       -      L      18           -
LGA    -       -      H      19           -
LGA    -       -      I      20           -
LGA    -       -      D      21           -
LGA    -       -      Q      22           -
LGA    -       -      K      23           -
LGA    -       -      S      24           -
LGA    -       -      Q      25           -
LGA    -       -      I      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      S      29           -
LGA    -       -      T      30           -
LGA    -       -      Q      31           -
LGA    -       -      E      32           -
LGA    -       -      A      33           -
LGA    -       -      I      34           -
LGA    S       4      R      35          1.740
LGA    K       5      L      36          1.976
LGA    A       6      T      37          1.536
LGA    A       7      R      38          1.026
LGA    E       8      K      39          2.278
LGA    M       9      Y      40          1.167
LGA    C      10      L      41          0.614
LGA    Y      11      L      42          1.692
LGA    E      12      S      43          2.847
LGA    -       -      E      44           -
LGA    I      13      I      45          0.668
LGA    T      14      F      46          2.006
LGA    N      15      V      47          1.927
LGA    S      16      R      48          0.331
LGA    Y      17      W      49          1.725
LGA    L      18      S      50           #
LGA    -       -      P      51           -
LGA    -       -      L      52           -
LGA    -       -      N      53           -
LGA    -       -      G      54           -
LGA    -       -      E      55           -
LGA    H      19      I      56          2.240
LGA    -       -      S      57           -
LGA    I      20      F      58          4.410
LGA    D      21      S      59          5.096
LGA    Q      22      Y      60           -
LGA    K      23      N      61           -
LGA    -       -      G      62           -
LGA    -       -      G      63           -
LGA    -       -      K      64           -
LGA    -       -      D      65           -
LGA    -       -      C      66           -
LGA    -       -      Q      67           -
LGA    -       -      V      68           -
LGA    S      24      L      69           #
LGA    Q      25      -       -           -
LGA    I      26      -       -           -
LGA    I      27      -       -           -
LGA    A      28      -       -           -
LGA    S      29      -       -           -
LGA    T      30      -       -           -
LGA    Q      31      -       -           -
LGA    E      32      -       -           -
LGA    T     112      -       -           -
LGA    F     113      -       -           -
LGA    P     114      -       -           -
LGA    T     115      L      70           #
LGA    L     116      -       -           -
LGA    E     117      -       -           -
LGA    N     118      L      71          1.173
LGA    F     119      L      72          2.472
LGA    V     120      Y      73           -
LGA    L     121      L      74           -
LGA    -       -      S      75           -
LGA    -       -      C      76           -
LGA    -       -      L      77           -
LGA    -       -      W      78           -
LGA    -       -      E      79           -
LGA    -       -      Y      80           -
LGA    -       -      F      81           -
LGA    -       -      F      82           -
LGA    -       -      I      83           -
LGA    -       -      K      84           -
LGA    -       -      A      85           -
LGA    -       -      Q      86           -
LGA    -       -      N      87           -
LGA    -       -      S      88           -
LGA    -       -      F      97           -
LGA    -       -      P      98           -
LGA    -       -      M      99           -
LGA    -       -      Q     100           -
LGA    -       -      R     101           -
LGA    -       -      L     102           -
LGA    -       -      P     103           -
LGA    -       -      T     104           -
LGA    -       -      V     105           -
LGA    -       -      F     106           -
LGA    -       -      I     107           -
LGA    -       -      D     108           -
LGA    -       -      Q     109           -
LGA    -       -      E     110           -
LGA    -       -      E     111           -
LGA    -       -      T     112           -
LGA    -       -      F     113           -
LGA    -       -      P     114           -
LGA    -       -      T     115           -
LGA    -       -      L     116           -
LGA    -       -      E     117           -
LGA    -       -      N     118           -
LGA    -       -      F     119           -
LGA    -       -      V     120           -
LGA    -       -      L     121           -
LGA    -       -      E     122           -
LGA    -       -      T     123           -
LGA    -       -      S     124           -
LGA    -       -      E     125           -
LGA    -       -      R     126           -
LGA    -       -      Y     127           -
LGA    -       -      C     128           -
LGA    -       -      L     129           -
LGA    -       -      S     130           -
LGA    -       -      L     131           -
LGA    -       -      Y     132           -
LGA    -       -      E     133           -
LGA    -       -      S     134           -
LGA    -       -      Q     135           -
LGA    -       -      R     136           -
LGA    -       -      V     142           -
LGA    -       -      N     143           -
LGA    -       -      M     144           -
LGA    -       -      A     145           -
LGA    -       -      D     146           -
LGA    -       -      A     147           -
LGA    -       -      F     148           -
LGA    -       -      R     149           -
LGA    -       -      D     150           -
LGA    -       -      F     151           -
LGA    -       -      I     152           -
LGA    -       -      K     153           -
LGA    -       -      I     154           -
LGA    -       -      Y     155           -
LGA    -       -      P     156           -
LGA    -       -      E     157           -
LGA    -       -      T     158           -
LGA    -       -      E     159           -
LGA    -       -      A     160           -
LGA    -       -      I     161           -
LGA    -       -      V     162           -
LGA    -       -      I     163           -
LGA    -       -      G     164           -
LGA    -       -      I     165           -
LGA    -       -      R     166           -
LGA    -       -      H     167           -
LGA    -       -      T     168           -
LGA    -       -      D     169           -
LGA    -       -      P     170           -
LGA    -       -      F     171           -
LGA    -       -      G     172           -
LGA    -       -      E     173           -
LGA    -       -      A     174           -
LGA    -       -      L     175           -
LGA    -       -      K     176           -
LGA    -       -      P     177           -
LGA    -       -      I     178           -
LGA    -       -      Q     179           -
LGA    -       -      R     180           -
LGA    -       -      T     181           -
LGA    -       -      D     182           -
LGA    -       -      S     183           -
LGA    -       -      N     184           -
LGA    -       -      W     185           -
LGA    -       -      P     186           -
LGA    -       -      D     187           -
LGA    -       -      F     188           -
LGA    -       -      M     189           -
LGA    -       -      R     190           -
LGA    -       -      L     191           -
LGA    -       -      Q     192           -
LGA    -       -      P     193           -
LGA    E     122      L     194           #
LGA    T     123      L     195           -
LGA    S     124      H     196           -
LGA    E     125      W     197          5.468
LGA    R     126      D     198          3.071
LGA    L     195      L     199          3.711
LGA    H     196      T     200          3.231
LGA    W     197      N     201          5.715
LGA    -       -      I     202           -
LGA    D     198      W     203          3.757
LGA    L     199      S     204           -
LGA    -       -      F     205           -
LGA    T     200      L     206          2.927
LGA    N     201      L     207          1.452
LGA    I     202      Y     208          2.611
LGA    W     203      S     209          1.093
LGA    S     204      N     210          3.794
LGA    F     205      E     211           -
LGA    -       -      P     212           -
LGA    -       -      I     213           -
LGA    -       -      C     214           -
LGA    -       -      G     215           -
LGA    -       -      L     216           -
LGA    -       -      Y     217           -
LGA    -       -      G     218           -
LGA    -       -      K     219           -
LGA    -       -      G     220           -
LGA    -       -      F     221           -
LGA    -       -      T     222           -
LGA    -       -      S     223           -
LGA    -       -      I     224           -
LGA    -       -      G     225           -
LGA    -       -      G     226           -
LGA    -       -      I     227           -
LGA    -       -      N     228           -
LGA    -       -      N     229           -
LGA    -       -      S     230           -
LGA    -       -      L     231           -
LGA    -       -      P     232           -
LGA    -       -      N     233           -
LGA    -       -      P     234           -
LGA    -       -      H     235           -
LGA    -       -      L     236           -
LGA    -       -      R     237           -
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      S     240           -
LGA    -       -      N     241           -
LGA    -       -      N     242           -
LGA    -       -      P     243           -
LGA    -       -      A     244           -
LGA    -       -      L     245           -
LGA    -       -      H     246           -
LGA    -       -      F     247           -
LGA    -       -      E     248           -
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    L     206      A     254          4.134
LGA    L     207      F     255          1.095
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    -       -      S     264           -
LGA    -       -      S     265           -
LGA    -       -      A     266           -
LGA    -       -      I     267           -
LGA    -       -      N     268           -
LGA    -       -      T     269           -
LGA    -       -      S     270           -
LGA    -       -      P     271           -
LGA    -       -      I     272           -
LGA    -       -      S     273           -
LGA    -       -      V     274           -
LGA    -       -      V     275           -
LGA    -       -      D     276           -
LGA    -       -      K     277           -
LGA    -       -      E     278           -
LGA    -       -      R     279           -
LGA    -       -      F     280           -
LGA    -       -      S     281           -
LGA    -       -      K     282           -
LGA    -       -      Y     283           -
LGA    -       -      H     284           -
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    -       -      Y     288           -
LGA    -       -      P     289           -
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    -       -      Y     292           -
LGA    -       -      L     293           -
LGA    -       -      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    -       -      L     298           -
LGA    -       -      E     299           -
LGA    -       -      R     300           -
LGA    -       -      A     301           -
LGA    -       -      G     302           -
LGA    -       -      R     303           -
LGA    -       -      I     304           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   57  287    5.0     32    2.85     6.25      7.707     1.086

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.891774 * X  +   0.271802 * Y  +   0.361749 * Z  +  49.065334
  Y_new =  -0.210795 * X  +   0.457869 * Y  +  -0.863668 * Z  + -24.789192
  Z_new =  -0.400380 * X  +  -0.846451 * Y  +  -0.351021 * Z  + 110.853317 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.963908    1.177685  [ DEG:  -112.5236     67.4764 ]
  Theta =   0.411932    2.729661  [ DEG:    23.6020    156.3980 ]
  Phi   =  -2.909476    0.232117  [ DEG:  -166.7007     13.2993 ]
 
# 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: T0320TS464_5_2                                
REMARK     2: T0320.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS464_5_2.T0320.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   57  287   5.0   32   2.85    6.25   7.707
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS464_5_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0320
PARENT N/A
ATOM      1  CA  SER     4       1.965  18.830  32.228  1.00  0.00
ATOM      2  CA  LYS     5       4.935  16.979  33.662  1.00  0.00
ATOM      3  CA  ALA     6       7.252  19.350  31.780  1.00  0.00
ATOM      4  CA  ALA     7       5.581  22.553  32.985  1.00  0.00
ATOM      5  CA  GLU     8       5.861  21.813  36.675  1.00  0.00
ATOM      6  CA  MET     9       9.330  20.246  36.399  1.00  0.00
ATOM      7  CA  CYS    10      10.539  23.403  34.618  1.00  0.00
ATOM      8  CA  TYR    11       8.897  25.545  37.250  1.00  0.00
ATOM      9  CA  GLU    12      10.487  23.441  40.038  1.00  0.00
ATOM     10  CA  ILE    13      13.901  23.587  38.409  1.00  0.00
ATOM     11  CA  THR    14      13.645  27.371  37.981  1.00  0.00
ATOM     12  CA  ASN    15      12.370  27.911  41.521  1.00  0.00
ATOM     13  CA  SER    16      15.487  26.259  42.922  1.00  0.00
ATOM     14  CA  TYR    17      17.966  28.066  40.757  1.00  0.00
ATOM     15  CA  LEU    18      18.348  26.570  37.324  1.00  0.00
ATOM     16  CA  HIS    19      18.356  28.803  34.326  1.00  0.00
ATOM     17  CA  ILE    20      16.201  27.957  31.339  1.00  0.00
ATOM     18  CA  ASP    21      18.878  25.894  29.619  1.00  0.00
ATOM     19  CA  GLN    22      19.893  23.893  32.658  1.00  0.00
ATOM     20  CA  LYS    23      16.209  23.393  33.489  1.00  0.00
ATOM     21  CA  SER    24      15.518  22.124  29.969  1.00  0.00
ATOM     22  CA  GLN    25      18.576  19.896  30.019  1.00  0.00
ATOM     23  CA  ILE    26      17.257  18.187  33.186  1.00  0.00
ATOM     24  CA  ILE    27      13.793  17.749  31.680  1.00  0.00
ATOM     25  CA  ALA    28      15.412  16.208  28.629  1.00  0.00
ATOM     26  CA  SER    29      16.076  14.714  31.919  1.00  0.00
ATOM     27  CA  THR    30      13.994  15.831  34.916  1.00  0.00
ATOM     28  CA  GLN    31      10.671  14.719  33.493  1.00  0.00
ATOM     29  CA  GLU    32       8.904  11.612  34.867  1.00  0.00
ATOM     30  CA  THR   112      12.237  30.310  33.578  1.00  0.00
ATOM     31  CA  PHE   113       8.870  28.549  33.437  1.00  0.00
ATOM     32  CA  PRO   114       7.630  27.745  29.935  1.00  0.00
ATOM     33  CA  THR   115       5.720  30.126  27.662  1.00  0.00
ATOM     34  CA  LEU   116       3.191  28.617  25.280  1.00  0.00
ATOM     35  CA  GLU   117       5.740  29.219  22.527  1.00  0.00
ATOM     36  CA  ASN   118       8.503  27.083  24.020  1.00  0.00
ATOM     37  CA  PHE   119       6.121  24.316  25.090  1.00  0.00
ATOM     38  CA  VAL   120       5.306  23.823  21.384  1.00  0.00
ATOM     39  CA  LEU   121       8.923  23.544  20.304  1.00  0.00
ATOM     40  CA  GLU   122       9.465  20.972  22.990  1.00  0.00
ATOM     41  CA  THR   123       6.507  18.940  21.725  1.00  0.00
ATOM     42  CA  SER   124       7.843  19.104  18.164  1.00  0.00
ATOM     43  CA  GLU   125      11.094  17.697  19.371  1.00  0.00
ATOM     44  CA  ARG   126       9.623  15.064  21.678  1.00  0.00
ATOM     45  CA  LEU   195       7.547  13.531  18.893  1.00  0.00
ATOM     46  CA  HIS   196       9.910  14.365  16.037  1.00  0.00
ATOM     47  CA  TRP   197       7.636  16.674  14.081  1.00  0.00
ATOM     48  CA  ASP   198       9.021  19.419  11.822  1.00  0.00
ATOM     49  CA  LEU   199       9.638  22.662  13.729  1.00  0.00
ATOM     50  CA  THR   200       6.346  24.520  13.967  1.00  0.00
ATOM     51  CA  ASN   201       3.952  21.601  13.544  1.00  0.00
ATOM     52  CA  ILE   202       2.292  21.885  16.954  1.00  0.00
ATOM     53  CA  TRP   203       2.083  25.687  16.767  1.00  0.00
ATOM     54  CA  SER   204       0.298  25.245  13.433  1.00  0.00
ATOM     55  CA  PHE   205      -2.119  22.776  14.966  1.00  0.00
ATOM     56  CA  LEU   206      -2.917  24.999  17.925  1.00  0.00
ATOM     57  CA  LEU   207      -3.190  28.004  15.610  1.00  0.00
TER
END
