
#######################################################
#                                                     #
#                        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   30 (   30),  selected   30 , name T0328TS464_2_2
# Molecule2: number of CA atoms  307 ( 2453),  selected  307 , name T0328.pdb
# PARAMETERS: T0328TS464_2_2.T0328.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G      17      N       5           -
LGA    -       -      M       6           -
LGA    -       -      P       7           -
LGA    -       -      R       8           -
LGA    -       -      E       9           -
LGA    -       -      Q      10           -
LGA    -       -      L      11           -
LGA    -       -      G      12           -
LGA    -       -      V      13           -
LGA    -       -      C      14           -
LGA    -       -      A      15           -
LGA    -       -      E      16           -
LGA    -       -      G      17           -
LGA    -       -      N      18           -
LGA    -       -      L      19           -
LGA    -       -      H      20           -
LGA    -       -      S      21           -
LGA    -       -      V      22           -
LGA    -       -      Y      23           -
LGA    -       -      L      24           -
LGA    -       -      M      25           -
LGA    -       -      F      26           -
LGA    -       -      N      27           -
LGA    -       -      A      28           -
LGA    -       -      N      29           -
LGA    -       -      D      30           -
LGA    -       -      N      31           -
LGA    -       -      V      32           -
LGA    -       -      E      33           -
LGA    -       -      S      34           -
LGA    -       -      Q      35           -
LGA    -       -      L      36           -
LGA    -       -      R      37           -
LGA    -       -      P      38           -
LGA    -       -      C      39           -
LGA    -       -      I      40           -
LGA    -       -      A      41           -
LGA    -       -      N      42           -
LGA    -       -      V      43           -
LGA    -       -      A      44           -
LGA    -       -      Q      45           -
LGA    -       -      Y      46           -
LGA    -       -      I      47           -
LGA    -       -      Y      48           -
LGA    -       -      E      49           -
LGA    -       -      L      50           -
LGA    -       -      T      51           -
LGA    -       -      D      52           -
LGA    -       -      Q      53           -
LGA    -       -      Y      54           -
LGA    -       -      S      55           -
LGA    -       -      D      56           -
LGA    -       -      S      57           -
LGA    -       -      A      58           -
LGA    -       -      F      59           -
LGA    -       -      N      60           -
LGA    -       -      G      61           -
LGA    -       -      F      62           -
LGA    -       -      V      63           -
LGA    -       -      A      64           -
LGA    -       -      I      65           -
LGA    -       -      G      66           -
LGA    -       -      A      67           -
LGA    -       -      N      68           -
LGA    -       -      Y      69           -
LGA    -       -      W      70           -
LGA    -       -      D      71           -
LGA    -       -      S      72           -
LGA    -       -      L      73           -
LGA    -       -      Y      74           -
LGA    -       -      P      75           -
LGA    -       -      E      76           -
LGA    -       -      S      77           -
LGA    -       -      R      78           -
LGA    -       -      P      79           -
LGA    -       -      E      80           -
LGA    -       -      M      81           -
LGA    -       -      L      82           -
LGA    -       -      K      83           -
LGA    -       -      P      84           -
LGA    -       -      F      85           -
LGA    -       -      P      86           -
LGA    -       -      A      87           -
LGA    -       -      M      88           -
LGA    -       -      Q      89           -
LGA    -       -      E      90           -
LGA    -       -      G      91           -
LGA    -       -      N      92           -
LGA    -       -      R      93           -
LGA    -       -      E      94           -
LGA    -       -      A      95           -
LGA    -       -      P      96           -
LGA    -       -      A      97           -
LGA    -       -      I      98           -
LGA    -       -      E      99           -
LGA    -       -      Y     100           -
LGA    -       -      D     101           -
LGA    -       -      L     102           -
LGA    -       -      F     103           -
LGA    -       -      V     104           -
LGA    -       -      H     105           -
LGA    -       -      L     106           -
LGA    -       -      R     107           -
LGA    -       -      C     108           -
LGA    -       -      D     109           -
LGA    -       -      R     110           -
LGA    -       -      Y     111           -
LGA    -       -      D     112           -
LGA    -       -      I     113           -
LGA    -       -      L     114           -
LGA    -       -      H     115           -
LGA    -       -      L     116           -
LGA    -       -      V     117           -
LGA    -       -      A     118           -
LGA    -       -      N     119           -
LGA    -       -      E     120           -
LGA    -       -      I     121           -
LGA    -       -      S     122           -
LGA    -       -      Q     123           -
LGA    -       -      M     124           -
LGA    -       -      F     125           -
LGA    -       -      E     126           -
LGA    -       -      D     127           -
LGA    -       -      L     128           -
LGA    -       -      V     129           -
LGA    -       -      E     130           -
LGA    -       -      L     131           -
LGA    -       -      V     132           -
LGA    -       -      E     133           -
LGA    -       -      E     134           -
LGA    -       -      E     135           -
LGA    -       -      R     136           -
LGA    -       -      G     137           -
LGA    -       -      F     138           -
LGA    -       -      R     139           -
LGA    -       -      F     140           -
LGA    -       -      M     141           -
LGA    -       -      D     142           -
LGA    -       -      S     143           -
LGA    -       -      R     144           -
LGA    -       -      D     145           -
LGA    -       -      L     146           -
LGA    -       -      T     147           -
LGA    -       -      G     148           -
LGA    -       -      F     149           -
LGA    -       -      V     150           -
LGA    -       -      D     151           -
LGA    -       -      G     152           -
LGA    -       -      T     153           -
LGA    -       -      E     154           -
LGA    -       -      N     155           -
LGA    -       -      P     156           -
LGA    -       -      K     157           -
LGA    -       -      G     158           -
LGA    -       -      R     159           -
LGA    -       -      H     160           -
LGA    -       -      R     161           -
LGA    -       -      Q     162           -
LGA    -       -      E     163           -
LGA    -       -      V     164           -
LGA    -       -      A     165           -
LGA    -       -      L     166           -
LGA    -       -      V     167           -
LGA    -       -      G     168           -
LGA    -       -      S     169           -
LGA    -       -      E     170           -
LGA    -       -      D     171           -
LGA    -       -      P     172           -
LGA    -       -      E     173           -
LGA    -       -      F     174           -
LGA    -       -      K     175           -
LGA    -       -      G     176           -
LGA    -       -      G     177           -
LGA    -       -      S     178           -
LGA    -       -      Y     179           -
LGA    -       -      I     180           -
LGA    -       -      H     181           -
LGA    -       -      V     182           -
LGA    -       -      Q     183           -
LGA    -       -      K     184           -
LGA    -       -      Y     185           -
LGA    -       -      A     186           -
LGA    -       -      H     187           -
LGA    -       -      N     188           -
LGA    -       -      L     189           -
LGA    -       -      S     190           -
LGA    -       -      K     191           -
LGA    -       -      W     192           -
LGA    -       -      H     193           -
LGA    -       -      R     194           -
LGA    -       -      L     195           -
LGA    -       -      P     196           -
LGA    -       -      L     197           -
LGA    -       -      K     198           -
LGA    -       -      K     199           -
LGA    -       -      Q     200           -
LGA    -       -      E     201           -
LGA    N      18      D     202          3.158
LGA    -       -      I     203           -
LGA    -       -      I     204           -
LGA    -       -      G     205           -
LGA    -       -      R     206           -
LGA    -       -      T     207           -
LGA    -       -      K     208           -
LGA    -       -      Q     209           -
LGA    -       -      D     210           -
LGA    -       -      N     211           -
LGA    -       -      I     212           -
LGA    -       -      E     213           -
LGA    -       -      Y     214           -
LGA    -       -      E     215           -
LGA    -       -      S     216           -
LGA    -       -      E     217           -
LGA    -       -      D     218           -
LGA    L      19      K     219          4.977
LGA    -       -      P     220           -
LGA    -       -      L     221           -
LGA    -       -      T     222           -
LGA    H      20      S     223          3.528
LGA    S      21      H     224          2.826
LGA    -       -      I     225           -
LGA    -       -      K     226           -
LGA    -       -      R     227           -
LGA    -       -      V     228           -
LGA    -       -      N     229           -
LGA    -       -      L     230           -
LGA    -       -      K     231           -
LGA    -       -      D     232           -
LGA    -       -      E     233           -
LGA    -       -      N     234           -
LGA    -       -      G     235           -
LGA    -       -      K     236           -
LGA    -       -      S     237           -
LGA    -       -      I     238           -
LGA    -       -      E     239           -
LGA    -       -      I     240           -
LGA    -       -      L     241           -
LGA    -       -      R     242           -
LGA    -       -      Q     243           -
LGA    -       -      S     244           -
LGA    -       -      M     245           -
LGA    -       -      P     246           -
LGA    -       -      Y     247           -
LGA    -       -      G     248           -
LGA    -       -      S     249           -
LGA    -       -      L     250           -
LGA    -       -      K     251           -
LGA    -       -      E     252           -
LGA    -       -      Q     253           -
LGA    A      95      G     254          0.960
LGA    P      96      L     255          1.296
LGA    A      97      M     256          2.950
LGA    I      98      F     257          2.305
LGA    -       -      I     258           -
LGA    E      99      S     259          3.438
LGA    L     146      T     260           -
LGA    T     147      C     261           -
LGA    G     148      R     262           -
LGA    F     149      T     263           -
LGA    V     150      P     264           -
LGA    D     151      D     265           -
LGA    G     152      -       -           -
LGA    E     170      H     266          1.835
LGA    D     171      F     267          2.077
LGA    P     172      E     268          4.172
LGA    E     173      K     269           -
LGA    -       -      M     270           -
LGA    -       -      L     271           -
LGA    -       -      H     272           -
LGA    -       -      S     273           -
LGA    -       -      M     274           -
LGA    -       -      V     275           -
LGA    -       -      F     276           -
LGA    -       -      G     277           -
LGA    -       -      D     278           -
LGA    -       -      G     279           -
LGA    -       -      A     280           -
LGA    -       -      G     281           -
LGA    -       -      N     282           -
LGA    -       -      H     283           -
LGA    -       -      D     284           -
LGA    -       -      H     285           -
LGA    -       -      L     286           -
LGA    F     174      M     287           #
LGA    K     175      H     288           -
LGA    -       -      F     289           -
LGA    G     176      T     290          5.902
LGA    G     177      S     291          2.440
LGA    S     178      A     292          3.639
LGA    Y     179      L     293           -
LGA    I     180      T     294           -
LGA    H     181      G     295           -
LGA    V     182      S     296           -
LGA    -       -      S     297           -
LGA    -       -      F     298           -
LGA    -       -      F     299           -
LGA    -       -      A     300           -
LGA    -       -      P     301           -
LGA    -       -      S     302           -
LGA    -       -      L     303           -
LGA    -       -      D     304           -
LGA    -       -      F     305           -
LGA    -       -      L     306           -
LGA    -       -      M     307           -
LGA    -       -      Q     308           -
LGA    -       -      F     309           -
LGA    -       -      D     310           -
LGA    -       -      N     311           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   30  307    5.0     15    3.29     0.00      3.244     0.442

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.777269 * X  +  -0.469399 * Y  +   0.418948 * Z  +  39.849083
  Y_new =  -0.445571 * X  +  -0.059449 * Y  +  -0.893270 * Z  +  74.465210
  Z_new =   0.444206 * X  +  -0.880983 * Y  +  -0.162943 * Z  + 110.113258 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.753685    1.387907  [ DEG:  -100.4788     79.5212 ]
  Theta =  -0.460288   -2.681305  [ DEG:   -26.3726   -153.6274 ]
  Phi   =  -2.621073    0.520520  [ DEG:  -150.1764     29.8236 ]
 
# 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: T0328TS464_2_2                                
REMARK     2: T0328.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0328TS464_2_2.T0328.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   30  307   5.0   15   3.29    0.00   3.244
REMARK  ---------------------------------------------------------- 
MOLECULE T0328TS464_2_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0328
PARENT N/A
ATOM      1  CA  GLY    17       5.898  48.157  33.677  1.00  0.00
ATOM      2  CA  ASN    18       7.673  45.070  35.023  1.00  0.00
ATOM      3  CA  LEU    19      10.358  42.828  33.510  1.00  0.00
ATOM      4  CA  HIS    20      10.804  39.082  33.746  1.00  0.00
ATOM      5  CA  SER    21      14.003  37.117  33.013  1.00  0.00
ATOM      6  CA  ALA    95      23.514  36.363  47.047  1.00  0.00
ATOM      7  CA  PRO    96      24.484  33.577  44.669  1.00  0.00
ATOM      8  CA  ALA    97      26.557  33.245  41.521  1.00  0.00
ATOM      9  CA  ILE    98      24.161  32.707  38.554  1.00  0.00
ATOM     10  CA  GLU    99      25.360  31.171  35.302  1.00  0.00
ATOM     11  CA  LEU   146      17.942  44.855  29.702  1.00  0.00
ATOM     12  CA  THR   147      20.873  45.362  32.074  1.00  0.00
ATOM     13  CA  GLY   148      19.224  44.465  35.399  1.00  0.00
ATOM     14  CA  PHE   149      21.084  43.584  38.591  1.00  0.00
ATOM     15  CA  VAL   150      20.352  40.255  40.219  1.00  0.00
ATOM     16  CA  ASP   151      18.918  39.872  43.692  1.00  0.00
ATOM     17  CA  GLY   152      18.931  36.105  43.428  1.00  0.00
ATOM     18  CA  GLU   170      24.702  30.932  27.633  1.00  0.00
ATOM     19  CA  ASP   171      28.277  31.499  28.884  1.00  0.00
ATOM     20  CA  PRO   172      27.112  33.886  31.578  1.00  0.00
ATOM     21  CA  GLU   173      28.626  34.125  35.084  1.00  0.00
ATOM     22  CA  PHE   174      27.059  36.822  37.285  1.00  0.00
ATOM     23  CA  LYS   175      28.523  37.429  40.765  1.00  0.00
ATOM     24  CA  GLY   176      26.290  37.896  43.776  1.00  0.00
ATOM     25  CA  GLY   177      24.450  41.284  43.767  1.00  0.00
ATOM     26  CA  SER   178      25.879  42.563  40.491  1.00  0.00
ATOM     27  CA  TYR   179      25.229  43.262  36.799  1.00  0.00
ATOM     28  CA  ILE   180      26.796  42.452  33.404  1.00  0.00
ATOM     29  CA  HIS   181      25.970  43.615  29.870  1.00  0.00
ATOM     30  CA  VAL   182      25.653  41.056  27.064  1.00  0.00
TER
END
