
#######################################################
#                                                     #
#                        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   33 (   33),  selected   33 , name T0321TS464_5_2
# Molecule2: number of CA atoms  244 ( 1840),  selected  244 , name T0321.pdb
# PARAMETERS: T0321TS464_5_2.T0321.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      W       2           -
LGA    -       -      E       3           -
LGA    -       -      I       4           -
LGA    -       -      Y       5           -
LGA    -       -      D       6           -
LGA    -       -      A       7           -
LGA    -       -      M       8           -
LGA    -       -      I       9           -
LGA    -       -      N      10           -
LGA    -       -      G      11           -
LGA    -       -      I      12           -
LGA    -       -      P      13           -
LGA    -       -      E      14           -
LGA    -       -      D      15           -
LGA    -       -      F      16           -
LGA    -       -      L      17           -
LGA    -       -      V      18           -
LGA    -       -      D      19           -
LGA    -       -      E      20           -
LGA    -       -      L      21           -
LGA    -       -      V      22           -
LGA    -       -      C      23           -
LGA    -       -      G      24           -
LGA    -       -      T      25           -
LGA    -       -      T      26           -
LGA    -       -      H      27           -
LGA    -       -      S      28           -
LGA    -       -      V      29           -
LGA    -       -      I      30           -
LGA    -       -      R      31           -
LGA    -       -      S      32           -
LGA    -       -      G      33           -
LGA    -       -      N      34           -
LGA    -       -      G      35           -
LGA    -       -      V      36           -
LGA    -       -      G      37           -
LGA    -       -      L      38           -
LGA    -       -      G      39           -
LGA    -       -      P      40           -
LGA    -       -      N      41           -
LGA    -       -      R      42           -
LGA    -       -      P      43           -
LGA    -       -      F      44           -
LGA    -       -      E      45           -
LGA    -       -      T      46           -
LGA    -       -      R      47           -
LGA    -       -      M      48           -
LGA    -       -      P      49           -
LGA    -       -      M      50           -
LGA    -       -      L      51           -
LGA    -       -      T      52           -
LGA    -       -      Q      53           -
LGA    -       -      N      54           -
LGA    -       -      L      55           -
LGA    -       -      L      56           -
LGA    -       -      G      57           -
LGA    -       -      L      58           -
LGA    -       -      P      59           -
LGA    -       -      L      60           -
LGA    -       -      R      61           -
LGA    -       -      V      62           -
LGA    -       -      A      63           -
LGA    -       -      A      64           -
LGA    -       -      G      65           -
LGA    -       -      C      66           -
LGA    -       -      V      67           -
LGA    -       -      K      68           -
LGA    -       -      S      69           -
LGA    -       -      W      70           -
LGA    -       -      N      71           -
LGA    -       -      Y      72           -
LGA    -       -      V      73           -
LGA    -       -      E      74           -
LGA    -       -      A      75           -
LGA    -       -      S      76           -
LGA    -       -      I      77           -
LGA    -       -      G      78           -
LGA    -       -      L      79           -
LGA    -       -      A      80           -
LGA    -       -      A      81           -
LGA    -       -      I      82           -
LGA    -       -      N      83           -
LGA    -       -      A      84           -
LGA    -       -      Y      85           -
LGA    -       -      Y      86           -
LGA    -       -      N      87           -
LGA    -       -      N      88           -
LGA    -       -      P      89           -
LGA    -       -      Q      90           -
LGA    -       -      V      91           -
LGA    -       -      A      92           -
LGA    -       -      R      93           -
LGA    -       -      E      94           -
LGA    -       -      H      95           -
LGA    -       -      G      96           -
LGA    -       -      V      97           -
LGA    -       -      I      98           -
LGA    -       -      F      99           -
LGA    -       -      S     100           -
LGA    -       -      D     101           -
LGA    -       -      A     102           -
LGA    -       -      N     110           -
LGA    -       -      D     111           -
LGA    -       -      P     112           -
LGA    -       -      F     113           -
LGA    -       -      I     114           -
LGA    E       3      M     115          2.977
LGA    I       4      S     116          3.281
LGA    Y       5      Q     117          1.892
LGA    D       6      N     118          3.123
LGA    A       7      E     119          1.694
LGA    -       -      V     120           -
LGA    -       -      K     121           -
LGA    -       -      G     122           -
LGA    V      18      K     123           #
LGA    D      19      K     124          2.899
LGA    E      20      V     125          2.901
LGA    L      21      G     126          1.205
LGA    V      22      V     127          1.700
LGA    C      23      V     128          1.971
LGA    G      24      G     129          3.226
LGA    N     110      -       -           -
LGA    D     111      -       -           -
LGA    P     112      -       -           -
LGA    F     113      -       -           -
LGA    I     114      -       -           -
LGA    M     115      -       -           -
LGA    S     116      -       -           -
LGA    T     203      H     130           #
LGA    -       -      F     131           -
LGA    -       -      P     132           -
LGA    P     204      H     133          1.999
LGA    L     205      L     134          1.734
LGA    A     206      E     135          2.047
LGA    P     207      S     136          1.321
LGA    V     208      L     137          0.773
LGA    L     209      L     138          1.810
LGA    F     210      E     139          3.412
LGA    E     211      P     140          4.408
LGA    H     212      -       -           -
LGA    G     213      -       -           -
LGA    L     214      I     141          1.281
LGA    Q     215      C     142          3.667
LGA    E     216      D     143          2.695
LGA    -       -      L     144           -
LGA    -       -      S     145           -
LGA    -       -      I     146           -
LGA    -       -      L     147           -
LGA    -       -      E     148           -
LGA    -       -      W     149           -
LGA    -       -      S     150           -
LGA    -       -      P     151           -
LGA    -       -      E     152           -
LGA    -       -      E     153           -
LGA    -       -      G     154           -
LGA    -       -      D     155           -
LGA    -       -      Y     156           -
LGA    -       -      P     157           -
LGA    -       -      L     158           -
LGA    -       -      P     159           -
LGA    -       -      A     160           -
LGA    -       -      S     161           -
LGA    -       -      E     162           -
LGA    -       -      F     163           -
LGA    -       -      I     164           -
LGA    -       -      L     165           -
LGA    -       -      P     166           -
LGA    -       -      E     167           -
LGA    -       -      C     168           -
LGA    -       -      D     169           -
LGA    -       -      Y     170           -
LGA    -       -      V     171           -
LGA    -       -      Y     172           -
LGA    -       -      I     173           -
LGA    -       -      T     174           -
LGA    -       -      C     175           -
LGA    -       -      A     176           -
LGA    -       -      S     177           -
LGA    -       -      V     178           -
LGA    -       -      V     179           -
LGA    -       -      D     180           -
LGA    -       -      K     181           -
LGA    -       -      T     182           -
LGA    -       -      L     183           -
LGA    -       -      P     184           -
LGA    -       -      R     185           -
LGA    -       -      L     186           -
LGA    -       -      L     187           -
LGA    -       -      E     188           -
LGA    -       -      L     189           -
LGA    -       -      S     190           -
LGA    -       -      R     191           -
LGA    -       -      N     192           -
LGA    -       -      A     193           -
LGA    -       -      R     194           -
LGA    -       -      R     195           -
LGA    -       -      I     196           -
LGA    -       -      T     197           -
LGA    -       -      L     198           -
LGA    -       -      V     199           -
LGA    -       -      G     200           -
LGA    -       -      P     201           -
LGA    -       -      G     202           -
LGA    -       -      T     203           -
LGA    -       -      P     204           -
LGA    -       -      L     205           -
LGA    -       -      A     206           -
LGA    -       -      P     207           -
LGA    -       -      V     208           -
LGA    -       -      L     209           -
LGA    -       -      F     210           -
LGA    -       -      E     211           -
LGA    -       -      H     212           -
LGA    -       -      G     213           -
LGA    -       -      L     214           -
LGA    -       -      Q     215           -
LGA    -       -      E     216           -
LGA    -       -      L     217           -
LGA    -       -      S     218           -
LGA    -       -      G     219           -
LGA    -       -      F     220           -
LGA    -       -      M     221           -
LGA    -       -      V     222           -
LGA    -       -      K     223           -
LGA    -       -      D     224           -
LGA    -       -      N     225           -
LGA    -       -      A     226           -
LGA    -       -      R     227           -
LGA    -       -      A     228           -
LGA    -       -      F     229           -
LGA    -       -      R     230           -
LGA    -       -      I     231           -
LGA    -       -      V     232           -
LGA    -       -      A     233           -
LGA    -       -      G     234           -
LGA    -       -      A     235           -
LGA    -       -      E     236           -
LGA    -       -      K     237           -
LGA    -       -      V     238           -
LGA    -       -      K     239           -
LGA    -       -      I     240           -
LGA    -       -      Y     241           -
LGA    -       -      S     242           -
LGA    -       -      A     243           -
LGA    -       -      G     244           -
LGA    -       -      Q     245           -
LGA    -       -      K     246           -
LGA    -       -      V     247           -
LGA    -       -      T     248           -
LGA    -       -      I     249           -
LGA    -       -      K     250           -
LGA    -       -      K     251           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   33  244    5.0     22    2.54    18.18      6.148     0.835

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.809554 * X  +  -0.306499 * Y  +   0.500680 * Z  + -59.148151
  Y_new =  -0.035385 * X  +  -0.876808 * Y  +  -0.479538 * Z  + 102.899673
  Z_new =   0.585978 * X  +   0.370495 * Y  +  -0.720669 * Z  +  44.988525 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.666729   -0.474863  [ DEG:   152.7923    -27.2077 ]
  Theta =  -0.626086   -2.515506  [ DEG:   -35.8721   -144.1279 ]
  Phi   =  -0.043681    3.097911  [ DEG:    -2.5028    177.4972 ]
 
# 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: T0321TS464_5_2                                
REMARK     2: T0321.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS464_5_2.T0321.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   33  244   5.0   22   2.54   18.18   6.148
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS464_5_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0321
PARENT N/A
ATOM      1  CA  GLU     3      12.951  41.239  76.993  1.00  0.00
ATOM      2  CA  ILE     4      15.436  40.964  74.113  1.00  0.00
ATOM      3  CA  TYR     5      18.490  42.237  76.018  1.00  0.00
ATOM      4  CA  ASP     6      17.377  40.531  79.249  1.00  0.00
ATOM      5  CA  ALA     7      16.594  37.283  77.506  1.00  0.00
ATOM      6  CA  VAL    18      21.083  34.537  62.843  1.00  0.00
ATOM      7  CA  ASP    19      18.899  33.420  65.764  1.00  0.00
ATOM      8  CA  GLU    20      16.353  36.205  66.129  1.00  0.00
ATOM      9  CA  LEU    21      15.313  39.450  64.563  1.00  0.00
ATOM     10  CA  VAL    22      14.305  42.662  66.157  1.00  0.00
ATOM     11  CA  CYS    23      12.156  44.689  63.772  1.00  0.00
ATOM     12  CA  GLY    24      11.143  48.029  65.250  1.00  0.00
ATOM     13  CA  ASN   110      12.219  29.563  61.996  1.00  0.00
ATOM     14  CA  ASP   111      13.851  32.656  63.523  1.00  0.00
ATOM     15  CA  PRO   112      12.716  34.214  66.806  1.00  0.00
ATOM     16  CA  PHE   113      11.012  37.533  66.057  1.00  0.00
ATOM     17  CA  ILE   114      10.732  40.656  68.237  1.00  0.00
ATOM     18  CA  MET   115       8.652  43.655  67.221  1.00  0.00
ATOM     19  CA  SER   116       8.095  47.149  68.596  1.00  0.00
ATOM     20  CA  THR   203      20.233  50.488  65.713  1.00  0.00
ATOM     21  CA  PRO   204      19.404  51.359  69.312  1.00  0.00
ATOM     22  CA  LEU   205      18.813  47.612  69.965  1.00  0.00
ATOM     23  CA  ALA   206      22.267  46.651  68.670  1.00  0.00
ATOM     24  CA  PRO   207      23.929  49.336  70.739  1.00  0.00
ATOM     25  CA  VAL   208      21.965  47.833  73.635  1.00  0.00
ATOM     26  CA  LEU   209      22.897  44.258  73.162  1.00  0.00
ATOM     27  CA  PHE   210      26.573  45.120  72.505  1.00  0.00
ATOM     28  CA  GLU   211      26.682  47.090  75.742  1.00  0.00
ATOM     29  CA  HIS   212      25.705  43.859  77.450  1.00  0.00
ATOM     30  CA  GLY   213      28.193  41.307  76.183  1.00  0.00
ATOM     31  CA  LEU   214      25.858  39.899  73.536  1.00  0.00
ATOM     32  CA  GLN   215      27.440  39.448  70.100  1.00  0.00
ATOM     33  CA  GLU   216      24.930  40.911  67.669  1.00  0.00
TER
END
