
#######################################################
#                                                     #
#                        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 (   25),  selected    5 , name T0348TS102_2
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS102_2.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    -       -      A       3           -
LGA    -       -      K       4           -
LGA    -       -      F       5           -
LGA    -       -      L       6           -
LGA    -       -      E       7           -
LGA    -       -      I       8           -
LGA    -       -      L       9           -
LGA    -       -      V      10           -
LGA    -       -      C      11           -
LGA    -       -      P      12           -
LGA    -       -      L      13           -
LGA    -       -      C      14           -
LGA    -       -      K      15           -
LGA    -       -      G      16           -
LGA    -       -      P      17           -
LGA    -       -      L      18           -
LGA    -       -      V      19           -
LGA    -       -      F      20           -
LGA    -       -      D      21           -
LGA    -       -      K      22           -
LGA    -       -      S      23           -
LGA    -       -      K      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    -       -      L      27           -
LGA    -       -      I      28           -
LGA    -       -      C      29           -
LGA    -       -      K      30           -
LGA    -       -      G      31           -
LGA    H      64      D      32          1.039
LGA    H      65      R      33          1.031
LGA    H      66      L      34          0.978
LGA    H      67      A      35          0.602
LGA    H      68      F      36          0.427
LGA    -       -      P      37           -
LGA    -       -      I      38           -
LGA    -       -      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    -       -      M      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    -       -      E      47           -
LGA    -       -      S      48           -
LGA    -       -      E      49           -
LGA    -       -      A      50           -
LGA    -       -      R      51           -
LGA    -       -      E      52           -
LGA    -       -      L      53           -
LGA    -       -      A      54           -
LGA    -       -      P      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      E      58           -
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    -       -      E      62           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    5   61    5.0      5    0.85     0.00      8.197     0.524

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.358602 * X  +   0.751849 * Y  +   0.553288 * Z  +   9.120093
  Y_new =  -0.270605 * X  +   0.483533 * Y  +  -0.832448 * Z  +  38.361969
  Z_new =  -0.893408 * X  +  -0.448240 * Y  +   0.030059 * Z  + 114.260406 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.503837    1.637755  [ DEG:   -86.1635     93.8365 ]
  Theta =   1.104874    2.036718  [ DEG:    63.3046    116.6954 ]
  Phi   =  -2.495147    0.646446  [ DEG:  -142.9614     37.0386 ]
 
# 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: T0348TS102_2                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS102_2.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    5   61   5.0    5   0.85    0.00   8.197
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS102_2
PFRMAT TS
TARGET T0348
MODEL 2
PARENT 2aml_A
ATOM      1  N   HIS    64       9.968  21.490  64.512  1.00  1.00
ATOM      2  CA  HIS    64       9.206  20.636  63.542  1.00  1.00
ATOM      3  C   HIS    64       9.591  21.123  62.138  1.00  1.00
ATOM      4  O   HIS    64       9.393  22.296  61.800  1.00  1.00
ATOM      5  CB  HIS    64       7.672  20.770  63.716  1.00  1.00
ATOM      6  N   HIS    65      10.173  20.238  61.322  1.00  1.00
ATOM      7  CA  HIS    65      10.536  20.555  59.942  1.00  1.00
ATOM      8  C   HIS    65       9.257  20.641  59.127  1.00  1.00
ATOM      9  O   HIS    65       8.497  19.648  59.003  1.00  1.00
ATOM     10  CB  HIS    65      11.458  19.459  59.397  1.00  1.00
ATOM     11  N   HIS    66       8.990  21.847  58.629  1.00  1.00
ATOM     12  CA  HIS    66       7.912  22.051  57.665  1.00  1.00
ATOM     13  C   HIS    66       8.555  22.644  56.426  1.00  1.00
ATOM     14  O   HIS    66       9.028  23.780  56.461  1.00  1.00
ATOM     15  CB  HIS    66       6.813  22.977  58.210  1.00  1.00
ATOM     16  N   HIS    67       8.653  21.818  55.366  1.00  1.00
ATOM     17  CA  HIS    67       9.387  22.163  54.119  1.00  1.00
ATOM     18  C   HIS    67       9.044  23.568  53.566  1.00  1.00
ATOM     19  O   HIS    67       9.939  24.285  53.135  1.00  1.00
ATOM     20  CB  HIS    67       9.086  21.059  53.073  1.00  1.00
ATOM     21  N   HIS    68       7.768  23.944  53.605  1.00  1.00
ATOM     22  CA  HIS    68       7.360  25.217  53.021  1.00  1.00
ATOM     23  C   HIS    68       7.515  26.383  54.000  1.00  1.00
ATOM     24  O   HIS    68       7.341  27.525  53.597  1.00  1.00
ATOM     25  CB  HIS    68       5.943  25.134  52.451  1.00  1.00
TER
END
