
#######################################################
#                                                     #
#                        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    5 (   38),  selected    5 , name T0318TS389_4-D1
# Molecule2: number of CA atoms  154 ( 1200),  selected  154 , name T0318_D1.pdb
# PARAMETERS: T0318TS389_4-D1.T0318_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      T       2           -
LGA    -       -      Q       3           -
LGA    -       -      V       4           -
LGA    -       -      L       5           -
LGA    -       -      V       6           -
LGA    -       -      R       7           -
LGA    -       -      N       8           -
LGA    -       -      G       9           -
LGA    -       -      I      10           -
LGA    -       -      Q      11           -
LGA    -       -      A      12           -
LGA    -       -      V      13           -
LGA    -       -      G      14           -
LGA    -       -      D      15           -
LGA    -       -      G      16           -
LGA    -       -      L      17           -
LGA    -       -      T      18           -
LGA    -       -      S      19           -
LGA    -       -      L      20           -
LGA    -       -      I      21           -
LGA    -       -      I      22           -
LGA    -       -      V      23           -
LGA    -       -      G      24           -
LGA    -       -      K      25           -
LGA    -       -      K      26           -
LGA    -       -      S      27           -
LGA    -       -      V      28           -
LGA    -       -      L      29           -
LGA    -       -      K      30           -
LGA    -       -      N      31           -
LGA    -       -      V      32           -
LGA    -       -      T      33           -
LGA    -       -      F      34           -
LGA    -       -      E      35           -
LGA    -       -      G      36           -
LGA    -       -      K      37           -
LGA    -       -      F      38           -
LGA    -       -      K      39           -
LGA    -       -      E      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      Q      43           -
LGA    -       -      K      44           -
LGA    -       -      F      45           -
LGA    -       -      V      46           -
LGA    -       -      T      47           -
LGA    -       -      D      48           -
LGA    -       -      G      49           -
LGA    -       -      D      50           -
LGA    -       -      S      51           -
LGA    -       -      W      52           -
LGA    -       -      N      53           -
LGA    -       -      S      54           -
LGA    -       -      M      55           -
LGA    -       -      I      56           -
LGA    -       -      S      57           -
LGA    -       -      R      58           -
LGA    -       -      I      59           -
LGA    -       -      P      60           -
LGA    -       -      A      61           -
LGA    -       -      S      62           -
LGA    -       -      G      63           -
LGA    -       -      R      64           -
LGA    -       -      H      65           -
LGA    -       -      P      66           -
LGA    -       -      L      67           -
LGA    -       -      H      68           -
LGA    -       -      Y      69           -
LGA    -       -      E      70           -
LGA    -       -      L      71           -
LGA    -       -      A      72           -
LGA    -       -      H      73           -
LGA    -       -      L      74           -
LGA    -       -      I      75           -
LGA    -       -      T      76           -
LGA    -       -      V      77           -
LGA    -       -      P      78           -
LGA    -       -      D      79           -
LGA    -       -      A      80           -
LGA    -       -      S      81           -
LGA    -       -      S      82           -
LGA    -       -      R      83           -
LGA    -       -      G      84           -
LGA    V     151      N      85          0.452
LGA    C     152      T      86          0.423
LGA    D     153      P      87          0.191
LGA    K     154      T      88          0.295
LGA    L     155      N      89          0.321
LGA    -       -      A      90           -
LGA    -       -      H      91           -
LGA    -       -      S      92           -
LGA    -       -      I      93           -
LGA    -       -      Y      94           -
LGA    -       -      K      95           -
LGA    -       -      E      96           -
LGA    -       -      L      97           -
LGA    -       -      K      98           -
LGA    -       -      P      99           -
LGA    -       -      I     100           -
LGA    -       -      N     101           -
LGA    -       -      Y     102           -
LGA    -       -      P     103           -
LGA    -       -      E     104           -
LGA    -       -      D     105           -
LGA    -       -      T     106           -
LGA    -       -      K     107           -
LGA    -       -      N     108           -
LGA    -       -      V     109           -
LGA    -       -      H     110           -
LGA    -       -      F     111           -
LGA    -       -      V     112           -
LGA    -       -      L     113           -
LGA    -       -      F     114           -
LGA    -       -      A     115           -
LGA    -       -      E     116           -
LGA    -       -      Y     117           -
LGA    -       -      P     118           -
LGA    -       -      D     119           -
LGA    -       -      V     120           -
LGA    -       -      L     121           -
LGA    -       -      S     122           -
LGA    -       -      H     123           -
LGA    -       -      V     124           -
LGA    -       -      A     125           -
LGA    -       -      A     126           -
LGA    -       -      I     127           -
LGA    -       -      A     128           -
LGA    -       -      R     129           -
LGA    -       -      T     130           -
LGA    -       -      F     131           -
LGA    -       -      C     132           -
LGA    -       -      K     133           -
LGA    -       -      F     134           -
LGA    -       -      S     135           -
LGA    -       -      M     136           -
LGA    -       -      K     137           -
LGA    -       -      T     138           -
LGA    -       -      S     139           -
LGA    -       -      G     140           -
LGA    -       -      I     141           -
LGA    -       -      R     142           -
LGA    -       -      E     143           -
LGA    -       -      L     144           -
LGA    -       -      N     145           -
LGA    -       -      V     146           -
LGA    -       -      N     147           -
LGA    -       -      I     148           -
LGA    -       -      D     149           -
LGA    -       -      V     150           -
LGA    -       -      V     151           -
LGA    -       -      C     152           -
LGA    -       -      D     153           -
LGA    -       -      K     154           -
LGA    -       -      L     155           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    5  154    5.0      5    0.35     0.00      3.247     1.114

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.190591 * X  +  -0.894129 * Y  +  -0.405227 * Z  +  17.478975
  Y_new =   0.198714 * X  +   0.369108 * Y  +  -0.907894 * Z  +  39.318375
  Z_new =   0.961347 * X  +  -0.253561 * Y  +   0.107327 * Z  +  40.137932 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.170385    1.971208  [ DEG:   -67.0581    112.9419 ]
  Theta =  -1.291853   -1.849740  [ DEG:   -74.0177   -105.9823 ]
  Phi   =   2.335334   -0.806259  [ DEG:   133.8048    -46.1952 ]
 
# 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: T0318TS389_4-D1                               
REMARK     2: T0318_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0318TS389_4-D1.T0318_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    5  154   5.0    5   0.35    0.00   3.247
REMARK  ---------------------------------------------------------- 
MOLECULE T0318TS389_4-D1
PFRMAT TS
TARGET T0318
MODEL  4
PARENT N/A
ATOM      2  N   VAL   151      11.509  40.996  33.361  1.00  0.00
ATOM      3  CA  VAL   151      12.936  41.335  33.364  1.00  0.00
ATOM      4  CB  VAL   151      13.524  41.289  34.786  1.00  0.00
ATOM      5  CG1 VAL   151      15.022  41.547  34.751  1.00  0.00
ATOM      6  CG2 VAL   151      12.875  42.348  35.665  1.00  0.00
ATOM      7  O   VAL   151      13.606  39.133  32.713  1.00  0.00
ATOM      8  C   VAL   151      13.687  40.334  32.495  1.00  0.00
ATOM      9  N   CYS   152      14.433  40.825  31.490  1.00  0.00
ATOM     10  CA  CYS   152      15.111  39.850  30.617  1.00  0.00
ATOM     11  CB  CYS   152      15.701  40.548  29.389  1.00  0.00
ATOM     12  SG  CYS   152      16.553  39.444  28.240  1.00  0.00
ATOM     13  O   CYS   152      17.205  39.773  31.800  1.00  0.00
ATOM     14  C   CYS   152      16.250  39.147  31.356  1.00  0.00
ATOM     15  N   ASP   153      16.143  37.824  31.482  1.00  0.00
ATOM     16  CA  ASP   153      17.170  37.047  32.147  1.00  0.00
ATOM     17  CB  ASP   153      16.890  35.550  31.995  1.00  0.00
ATOM     18  CG  ASP   153      15.721  35.086  32.841  1.00  0.00
ATOM     19  OD1 ASP   153      15.273  35.863  33.710  1.00  0.00
ATOM     20  OD2 ASP   153      15.255  33.946  32.637  1.00  0.00
ATOM     21  O   ASP   153      19.519  37.449  32.295  1.00  0.00
ATOM     22  C   ASP   153      18.535  37.326  31.568  1.00  0.00
ATOM     23  N   LYS   154      18.649  37.445  30.241  1.00  0.00
ATOM     24  CA  LYS   154      19.956  37.632  29.619  1.00  0.00
ATOM     25  CB  LYS   154      19.817  37.733  28.099  1.00  0.00
ATOM     26  CG  LYS   154      19.435  36.425  27.422  1.00  0.00
ATOM     27  CD  LYS   154      19.317  36.597  25.916  1.00  0.00
ATOM     28  CE  LYS   154      18.911  35.297  25.242  1.00  0.00
ATOM     29  NZ  LYS   154      18.759  35.456  23.771  1.00  0.00
ATOM     30  O   LYS   154      21.819  39.006  30.284  1.00  0.00
ATOM     31  C   LYS   154      20.591  38.912  30.140  1.00  0.00
ATOM     32  N   LEU   155      19.781  39.947  30.390  1.00  0.00
ATOM     33  CA  LEU   155      20.356  41.217  30.863  1.00  0.00
ATOM     34  CB  LEU   155      19.291  42.314  30.876  1.00  0.00
ATOM     35  CG  LEU   155      18.790  42.789  29.510  1.00  0.00
ATOM     36  CD1 LEU   155      17.617  43.744  29.670  1.00  0.00
ATOM     37  CD2 LEU   155      19.894  43.515  28.755  1.00  0.00
ATOM     38  O   LEU   155      21.924  41.643  32.626  1.00  0.00
ATOM     39  C   LEU   155      20.910  41.072  32.281  1.00  0.00
TER
END
