
#######################################################
#                                                     #
#                        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    6 (   42),  selected    6 , name T0320TS074_5-D1
# Molecule2: number of CA atoms  214 ( 1760),  selected  214 , name T0320_D1.pdb
# PARAMETERS: T0320TS074_5-D1.T0320_D1.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    -       -      R      35           -
LGA    -       -      L      36           -
LGA    -       -      T      37           -
LGA    -       -      R      38           -
LGA    -       -      K      39           -
LGA    -       -      Y      40           -
LGA    -       -      L      41           -
LGA    -       -      L      42           -
LGA    -       -      S      43           -
LGA    -       -      E      44           -
LGA    -       -      I      45           -
LGA    -       -      F      46           -
LGA    -       -      V      47           -
LGA    -       -      R      48           -
LGA    -       -      W      49           -
LGA    -       -      S      50           -
LGA    -       -      P      51           -
LGA    -       -      L      52           -
LGA    -       -      N      53           -
LGA    -       -      G      54           -
LGA    -       -      E      55           -
LGA    -       -      I      56           -
LGA    -       -      S      57           -
LGA    -       -      F      58           -
LGA    -       -      S      59           -
LGA    -       -      Y      60           -
LGA    -       -      N      61           -
LGA    -       -      G      62           -
LGA    -       -      G      63           -
LGA    -       -      K      64           -
LGA    -       -      D      65           -
LGA    -       -      C      66           -
LGA    -       -      Q      67           -
LGA    -       -      V      68           -
LGA    -       -      L      69           -
LGA    -       -      L      70           -
LGA    -       -      L      71           -
LGA    -       -      L      72           -
LGA    -       -      Y      73           -
LGA    -       -      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    T     222      R     101          1.120
LGA    S     223      L     102          0.569
LGA    I     224      P     103          0.527
LGA    G     225      T     104          1.580
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    G     226      L     129          1.255
LGA    I     227      S     130          0.932
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    -       -      L     194           -
LGA    -       -      L     195           -
LGA    -       -      H     196           -
LGA    -       -      W     197           -
LGA    -       -      D     198           -
LGA    -       -      L     199           -
LGA    -       -      T     200           -
LGA    -       -      N     201           -
LGA    -       -      I     202           -
LGA    -       -      W     203           -
LGA    -       -      S     204           -
LGA    -       -      F     205           -
LGA    -       -      L     206           -
LGA    -       -      L     207           -
LGA    -       -      Y     208           -
LGA    -       -      S     209           -
LGA    -       -      N     210           -
LGA    -       -      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           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    6  214    5.0      6    1.06     0.00      2.767     0.515

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.871750 * X  +   0.489401 * Y  +   0.023186 * Z  +  20.766972
  Y_new =   0.244914 * X  +  -0.476264 * Y  +   0.844506 * Z  +  45.663727
  Z_new =   0.424345 * X  +  -0.730520 * Y  +  -0.535045 * Z  +  33.107056 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.202949    0.938644  [ DEG:  -126.2197     53.7803 ]
  Theta =  -0.438238   -2.703355  [ DEG:   -25.1092   -154.8908 ]
  Phi   =   0.273885   -2.867708  [ DEG:    15.6924   -164.3076 ]
 
# 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: T0320TS074_5-D1                               
REMARK     2: T0320_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS074_5-D1.T0320_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    6  214   5.0    6   1.06    0.00   2.767
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS074_5-D1
PFRMAT TS
TARGET T0320
MODEL  5
PARENT N/A
ATOM      1  N   THR   222      13.468  41.147  29.660  1.00  1.00
ATOM      2  CA  THR   222      13.711  40.018  28.768  1.00  1.00
ATOM      3  C   THR   222      14.700  39.048  29.393  1.00  1.00
ATOM      4  O   THR   222      15.532  39.433  30.212  1.00  1.00
ATOM      5  CB  THR   222      14.154  40.436  27.328  1.00  1.00
ATOM      6  OG1 THR   222      14.276  39.223  26.402  1.00  1.00
ATOM      7  CG2 THR   222      15.470  41.170  27.372  1.00  1.00
ATOM      8  N   SER   223      14.578  37.782  29.010  1.00  1.00
ATOM      9  CA  SER   223      15.459  36.715  29.481  1.00  1.00
ATOM     10  C   SER   223      16.888  36.918  29.008  1.00  1.00
ATOM     11  O   SER   223      17.132  37.643  28.033  1.00  1.00
ATOM     12  HN  SER   223      13.873  37.475  28.372  1.00  1.00
ATOM     13  CB  SER   223      14.969  35.364  28.962  1.00  1.00
ATOM     14  OG  SER   223      13.695  35.062  29.525  1.00  1.00
ATOM     15  N   ILE   224      17.816  36.254  29.706  1.00  1.00
ATOM     16  CA  ILE   224      19.238  36.189  29.314  1.00  1.00
ATOM     17  C   ILE   224      19.395  35.636  27.894  1.00  1.00
ATOM     18  O   ILE   224      20.218  36.117  27.130  1.00  1.00
ATOM     19  HN  ILE   224      17.603  35.755  30.546  1.00  1.00
ATOM     20  CB  ILE   224      20.035  35.322  30.294  1.00  1.00
ATOM     21  CG1 ILE   224      19.936  35.806  31.751  1.00  1.00
ATOM     22  CG2 ILE   224      21.467  35.223  29.755  1.00  1.00
ATOM     23  CD1 ILE   224      20.464  37.233  31.921  1.00  1.00
ATOM     24  N   GLY   225      18.586  34.626  27.572  1.00  1.00
ATOM     25  CA  GLY   225      18.509  34.017  26.251  1.00  1.00
ATOM     26  C   GLY   225      18.304  35.075  25.157  1.00  1.00
ATOM     27  O   GLY   225      19.060  35.134  24.181  1.00  1.00
ATOM     28  HN  GLY   225      17.967  34.220  28.244  1.00  1.00
ATOM     29  N   GLY   226      17.277  35.907  25.353  1.00  1.00
ATOM     30  CA  GLY   226      16.920  36.975  24.424  1.00  1.00
ATOM     31  C   GLY   226      17.963  38.079  24.356  1.00  1.00
ATOM     32  O   GLY   226      18.200  38.643  23.292  1.00  1.00
ATOM     33  HN  GLY   226      16.683  35.850  26.156  1.00  1.00
ATOM     34  N   ILE   227      18.571  38.407  25.492  1.00  1.00
ATOM     35  CA  ILE   227      19.643  39.395  25.516  1.00  1.00
ATOM     36  C   ILE   227      20.823  38.968  24.647  1.00  1.00
ATOM     37  O   ILE   227      21.330  39.783  23.868  1.00  1.00
ATOM     38  HN  ILE   227      18.355  38.019  26.388  1.00  1.00
ATOM     39  CB  ILE   227      20.093  39.732  26.964  1.00  1.00
ATOM     40  CG1 ILE   227      18.897  40.230  27.791  1.00  1.00
ATOM     41  CG2 ILE   227      21.278  40.687  26.839  1.00  1.00
ATOM     42  CD1 ILE   227      18.320  41.531  27.093  1.00  1.00
TER
END
