
#######################################################
#                                                     #
#                        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   43 (   43),  selected   43 , name T0319TS464_4_2
# Molecule2: number of CA atoms  135 ( 1055),  selected  135 , name T0319.pdb
# PARAMETERS: T0319TS464_4_2.T0319.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    P      57      M       1           -
LGA    A      58      K       2           -
LGA    V      59      -       -           -
LGA    L      60      -       -           -
LGA    T      61      -       -           -
LGA    V      62      -       -           -
LGA    A      63      -       -           -
LGA    A      64      -       -           -
LGA    E      65      F       3          4.532
LGA    L      66      L       4          5.179
LGA    G      67      T       5          4.084
LGA    N      68      T       6          3.086
LGA    -       -      N       7           -
LGA    N      69      F       8          4.121
LGA    A      70      L       9          1.340
LGA    L      71      K      10          3.818
LGA    P      72      C      11          2.186
LGA    A      91      S      12           -
LGA    -       -      V      13           -
LGA    -       -      K      14           -
LGA    -       -      A      15           -
LGA    -       -      C      16           -
LGA    -       -      D      17           -
LGA    -       -      T      18           -
LGA    -       -      S      19           -
LGA    -       -      N      20           -
LGA    -       -      D      21           -
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      P      24           -
LGA    I      92      L      25           #
LGA    L      93      Q      26          3.665
LGA    N      94      -       -           -
LGA    D      95      Y      27          4.139
LGA    L      96      D      28          3.014
LGA    H      97      G      29          3.754
LGA    T      98      S      30          3.687
LGA    L      99      K      31          2.384
LGA    L     100      C      32          1.886
LGA    L     101      Q      33          2.306
LGA    Q     102      L      34           #
LGA    -       -      V      35           -
LGA    -       -      Q      36           -
LGA    -       -      D      37           -
LGA    -       -      E      38           -
LGA    -       -      S      39           -
LGA    -       -      I      40           -
LGA    -       -      E      41           -
LGA    -       -      F      42           -
LGA    -       -      N      43           -
LGA    -       -      P      44           -
LGA    -       -      E      45           -
LGA    -       -      F      46           -
LGA    -       -      L      47           -
LGA    -       -      L      48           -
LGA    -       -      N      49           -
LGA    -       -      I      50           -
LGA    -       -      V      51           -
LGA    -       -      D      52           -
LGA    -       -      R      53           -
LGA    -       -      V      54           -
LGA    -       -      D      55           -
LGA    -       -      W      56           -
LGA    -       -      P      57           -
LGA    -       -      A      58           -
LGA    -       -      V      59           -
LGA    -       -      L      60           -
LGA    -       -      T      61           -
LGA    -       -      V      62           -
LGA    -       -      A      63           -
LGA    -       -      A      64           -
LGA    -       -      E      65           -
LGA    -       -      L      66           -
LGA    -       -      G      67           -
LGA    -       -      N      68           -
LGA    -       -      N      69           -
LGA    -       -      A      70           -
LGA    -       -      L      71           -
LGA    -       -      P      72           -
LGA    -       -      P      73           -
LGA    -       -      T      74           -
LGA    -       -      K      75           -
LGA    -       -      P      76           -
LGA    -       -      S      77           -
LGA    -       -      F      78           -
LGA    -       -      P      79           -
LGA    -       -      S      80           -
LGA    -       -      S      81           -
LGA    -       -      I      82           -
LGA    -       -      Q      83           -
LGA    -       -      E      84           -
LGA    -       -      L      85           -
LGA    -       -      T      86           -
LGA    -       -      D      87           -
LGA    -       -      D      88           -
LGA    -       -      D      89           -
LGA    -       -      M      90           -
LGA    -       -      A      91           -
LGA    -       -      I      92           -
LGA    -       -      L      93           -
LGA    -       -      N      94           -
LGA    -       -      D      95           -
LGA    -       -      L      96           -
LGA    -       -      H      97           -
LGA    -       -      T      98           -
LGA    -       -      L      99           -
LGA    -       -      L     100           -
LGA    -       -      L     101           -
LGA    -       -      Q     102           -
LGA    -       -      T     103           -
LGA    -       -      S     104           -
LGA    R     113      I     105           #
LGA    N     114      A     106          3.672
LGA    C     115      E     107          5.025
LGA    G     116      -       -           -
LGA    H     117      -       -           -
LGA    I     118      -       -           -
LGA    Y     119      -       -           -
LGA    Y     120      -       -           -
LGA    P     126      G     108          3.643
LGA    N     127      E     109          3.034
LGA    L     128      M     110          1.842
LGA    L     129      K     111          1.296
LGA    L     130      C     112          3.633
LGA    P     131      R     113          2.426
LGA    P     132      N     114          0.568
LGA    -       -      C     115           -
LGA    -       -      G     116           -
LGA    -       -      H     117           -
LGA    -       -      I     118           -
LGA    -       -      Y     119           -
LGA    -       -      Y     120           -
LGA    -       -      I     121           -
LGA    -       -      K     122           -
LGA    -       -      N     123           -
LGA    -       -      G     124           -
LGA    -       -      I     125           -
LGA    -       -      P     126           -
LGA    -       -      N     127           -
LGA    -       -      L     128           -
LGA    -       -      L     129           -
LGA    -       -      L     130           -
LGA    -       -      P     131           -
LGA    -       -      P     132           -
LGA    -       -      H     133           -
LGA    -       -      L     134           -
LGA    -       -      V     135           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   43  135    5.0     25    3.34     4.00     10.680     0.726

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.994788 * X  +   0.084186 * Y  +  -0.057526 * Z  +  56.708885
  Y_new =  -0.012363 * X  +   0.460441 * Y  +   0.887604 * Z  + -85.556839
  Z_new =   0.101211 * X  +   0.883689 * Y  +  -0.457000 * Z  +  16.109083 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.048070   -1.093523  [ DEG:   117.3458    -62.6542 ]
  Theta =  -0.101385   -3.040208  [ DEG:    -5.8089   -174.1911 ]
  Phi   =  -3.129166    0.012427  [ DEG:  -179.2880      0.7120 ]
 
# 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: T0319TS464_4_2                                
REMARK     2: T0319.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0319TS464_4_2.T0319.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   43  135   5.0   25   3.34    4.00  10.680
REMARK  ---------------------------------------------------------- 
MOLECULE T0319TS464_4_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0319
PARENT N/A
ATOM      1  CA  PRO    57      10.989  -7.718   9.985  1.00  0.00
ATOM      2  CA  ALA    58      13.231  -6.925   7.031  1.00  0.00
ATOM      3  CA  VAL    59      12.111  -3.475   8.226  1.00  0.00
ATOM      4  CA  LEU    60      13.065  -4.200  11.808  1.00  0.00
ATOM      5  CA  THR    61      16.575  -5.189  10.682  1.00  0.00
ATOM      6  CA  VAL    62      16.853  -2.210   8.325  1.00  0.00
ATOM      7  CA  ALA    63      15.941   0.226  11.062  1.00  0.00
ATOM      8  CA  ALA    64      18.156  -1.265  13.726  1.00  0.00
ATOM      9  CA  GLU    65      21.029  -1.200  11.234  1.00  0.00
ATOM     10  CA  LEU    66      20.627   2.607  10.999  1.00  0.00
ATOM     11  CA  GLY    67      20.700   2.598  14.768  1.00  0.00
ATOM     12  CA  ASN    68      16.999   3.373  14.840  1.00  0.00
ATOM     13  CA  ASN    69      13.861   1.269  15.347  1.00  0.00
ATOM     14  CA  ALA    70      10.694   0.068  13.541  1.00  0.00
ATOM     15  CA  LEU    71       8.431   2.183  15.763  1.00  0.00
ATOM     16  CA  PRO    72       5.318   0.563  14.249  1.00  0.00
ATOM     17  CA  ALA    91      14.386   3.371  -0.921  1.00  0.00
ATOM     18  CA  ILE    92      12.146   4.525   1.922  1.00  0.00
ATOM     19  CA  LEU    93      14.763   3.257   4.399  1.00  0.00
ATOM     20  CA  ASN    94      17.442   5.172   2.478  1.00  0.00
ATOM     21  CA  ASP    95      15.277   8.331   2.645  1.00  0.00
ATOM     22  CA  LEU    96      14.892   7.958   6.423  1.00  0.00
ATOM     23  CA  HIS    97      18.692   7.676   6.601  1.00  0.00
ATOM     24  CA  THR    98      19.018  10.867   4.524  1.00  0.00
ATOM     25  CA  LEU    99      16.750  12.687   6.983  1.00  0.00
ATOM     26  CA  LEU   100      18.630  11.386  10.004  1.00  0.00
ATOM     27  CA  LEU   101      21.883  12.528   8.346  1.00  0.00
ATOM     28  CA  GLN   102      20.510  16.104   8.338  1.00  0.00
ATOM     29  CA  ARG   113      17.446  16.993  14.058  1.00  0.00
ATOM     30  CA  ASN   114      17.213  13.282  14.809  1.00  0.00
ATOM     31  CA  CYS   115      15.437  10.165  13.485  1.00  0.00
ATOM     32  CA  GLY   116      12.648   9.010  15.840  1.00  0.00
ATOM     33  CA  HIS   117      12.035   5.863  13.813  1.00  0.00
ATOM     34  CA  ILE   118      10.955   4.031  10.641  1.00  0.00
ATOM     35  CA  TYR   119       7.282   3.221   9.945  1.00  0.00
ATOM     36  CA  TYR   120       6.451   0.234   7.728  1.00  0.00
ATOM     37  CA  PRO   126      12.948  14.404  13.037  1.00  0.00
ATOM     38  CA  ASN   127      10.102  12.404  11.442  1.00  0.00
ATOM     39  CA  LEU   128      10.112  10.128   8.390  1.00  0.00
ATOM     40  CA  LEU   129       7.128   8.287   6.926  1.00  0.00
ATOM     41  CA  LEU   130       8.155   5.096   5.155  1.00  0.00
ATOM     42  CA  PRO   131       4.528   4.705   4.126  1.00  0.00
ATOM     43  CA  PRO   132       2.357   1.576   4.324  1.00  0.00
TER
END
