
#######################################################
#                                                     #
#                        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   87 (   87),  selected   87 , name T0358TS393_1
# Molecule2: number of CA atoms   66 ( 1047),  selected   66 , name T0358.pdb
# PARAMETERS: T0358TS393_1.T0358.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      G      10           -
LGA    T       2      P      11           -
LGA    Q       3      F      12           -
LGA    S       4      T      13           -
LGA    V       5      R      14           -
LGA    L       6      R      15           -
LGA    L       7      Q      16           -
LGA    P       8      A      17           -
LGA    P       9      Q      18           -
LGA    G      10      A      19           -
LGA    P      11      V      20           -
LGA    F      12      T      21           -
LGA    T      13      T      22           -
LGA    R      14      T      23           -
LGA    R      15      -       -           -
LGA    Q      16      -       -           -
LGA    A      17      -       -           -
LGA    Q      18      -       -           -
LGA    A      19      -       -           -
LGA    V      20      -       -           -
LGA    T      21      -       -           -
LGA    T      22      -       -           -
LGA    T      23      -       -           -
LGA    Y      24      Y      24           #
LGA    S      25      S      25           #
LGA    N      26      N      26          2.224
LGA    I      27      I      27          2.977
LGA    T      28      T      28          2.458
LGA    L      29      L      29          2.596
LGA    E      30      E      30          0.838
LGA    D      31      D      31          4.359
LGA    D      32      D      32          4.071
LGA    Q      33      -       -           -
LGA    G      34      -       -           -
LGA    S      35      Q      33          4.603
LGA    -       -      G      34           -
LGA    -       -      S      35           -
LGA    -       -      H      36           -
LGA    H      36      F      37          3.320
LGA    F      37      R      38          1.194
LGA    R      38      L      39          2.065
LGA    L      39      V      40          4.457
LGA    V      40      V      41          0.345
LGA    V      41      R      42          1.318
LGA    R      42      D      43          1.588
LGA    D      43      T      44          4.510
LGA    T      44      E      45          1.730
LGA    E      45      G      46           #
LGA    G      46      -       -           -
LGA    R      47      R      47          2.740
LGA    M      48      M      48          2.236
LGA    V      49      V      49          5.353
LGA    W      50      W      50          4.975
LGA    R      51      R      51          2.799
LGA    A      52      A      52          2.697
LGA    W      53      W      53           #
LGA    N      54      N      54          4.713
LGA    -       -      F      55           -
LGA    F      55      E      56          1.256
LGA    E      56      P      57          1.632
LGA    P      57      D      58           #
LGA    D      58      -       -           -
LGA    A      59      -       -           -
LGA    G      60      -       -           -
LGA    E      61      -       -           -
LGA    G      62      A      59          4.518
LGA    L      63      G      60          2.777
LGA    N      64      -       -           -
LGA    R      65      E      61          4.795
LGA    Y      66      G      62          3.202
LGA    I      67      L      63          3.100
LGA    -       -      N      64           -
LGA    -       -      R      65           -
LGA    R      68      Y      66          3.527
LGA    T      69      I      67           #
LGA    S      70      R      68          3.906
LGA    G      71      T      69           #
LGA    I      72      S      70           -
LGA    R      73      G      71           -
LGA    T      74      I      72           -
LGA    D      75      R      73           -
LGA    T      76      T      74           -
LGA    A      77      D      75           -
LGA    T      78      -       -           -
LGA    R      79      -       -           -
LGA    L      80      -       -           -
LGA    E      81      -       -           -
LGA    H      82      -       -           -
LGA    H      83      -       -           -
LGA    H      84      -       -           -
LGA    H      85      -       -           -
LGA    H      86      -       -           -
LGA    H      87      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   87   66    5.0     33    3.28    45.45     29.017     0.977

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.768610 * X  +   0.114572 * Y  +   0.629374 * Z  +   0.447751
  Y_new =   0.450685 * X  +   0.601243 * Y  +  -0.659841 * Z  +   1.876630
  Z_new =  -0.454006 * X  +   0.790810 * Y  +   0.410485 * Z  +   8.163253 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.092010   -2.049583  [ DEG:    62.5675   -117.4325 ]
  Theta =   0.471256    2.670336  [ DEG:    27.0010    152.9990 ]
  Phi   =   0.530333   -2.611260  [ DEG:    30.3858   -149.6142 ]
 
# 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: T0358TS393_1                                  
REMARK     2: T0358.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS393_1.T0358.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   87   66   5.0   33   3.28   45.45  29.017
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS393_1
PFRMAT TS
TARGET T0358
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      -0.014  -6.221  24.953  1.00 25.00           C
ATOM      2  CA  THR     2      -0.843  -4.969  21.446  1.00 25.00           C
ATOM      3  CA  GLN     3      -0.583  -4.821  17.660  1.00 25.00           C
ATOM      4  CA  SER     4      -2.734  -1.916  16.360  1.00 25.00           C
ATOM      5  CA  VAL     5      -3.601   0.443  13.487  1.00 25.00           C
ATOM      6  CA  LEU     6      -1.792   3.503  12.143  1.00 25.00           C
ATOM      7  CA  LEU     7      -4.173   6.378  11.716  1.00 25.00           C
ATOM      8  CA  PRO     8      -5.580   8.248  14.667  1.00 25.00           C
ATOM      9  CA  PRO     9      -4.501  11.037  17.022  1.00 25.00           C
ATOM     10  CA  GLY    10      -6.614  13.807  15.494  1.00 25.00           C
ATOM     11  CA  PRO    11      -9.612  11.561  15.218  1.00 25.00           C
ATOM     12  CA  PHE    12      -8.497  11.039  11.574  1.00 25.00           C
ATOM     13  CA  THR    13     -12.139   9.920  11.174  1.00 25.00           C
ATOM     14  CA  ARG    14     -10.591   7.423   8.690  1.00 25.00           C
ATOM     15  CA  ARG    15     -11.590   4.480  10.927  1.00 25.00           C
ATOM     16  CA  GLN    16     -12.252   2.319   7.834  1.00 25.00           C
ATOM     17  CA  ALA    17      -8.828   3.273   6.407  1.00 25.00           C
ATOM     18  CA  GLN    18      -7.161   2.361   9.732  1.00 25.00           C
ATOM     19  CA  ALA    19      -8.969  -1.015   9.741  1.00 25.00           C
ATOM     20  CA  VAL    20      -7.813  -1.672   6.150  1.00 25.00           C
ATOM     21  CA  THR    21      -4.211  -0.808   7.125  1.00 25.00           C
ATOM     22  CA  THR    22      -4.423  -3.192  10.114  1.00 25.00           C
ATOM     23  CA  THR    23      -5.756  -5.968   7.838  1.00 25.00           C
ATOM     24  CA  TYR    24      -2.887  -5.360   5.375  1.00 25.00           C
ATOM     25  CA  SER    25      -2.399  -7.515   2.313  1.00 25.00           C
ATOM     26  CA  ASN    26      -2.956  -6.054  -1.216  1.00 25.00           C
ATOM     27  CA  ILE    27      -0.259  -3.348  -0.874  1.00 25.00           C
ATOM     28  CA  THR    28      -2.578  -0.800  -2.348  1.00 25.00           C
ATOM     29  CA  LEU    29      -4.087   2.647  -3.149  1.00 25.00           C
ATOM     30  CA  GLU    30      -5.772   5.727  -4.608  1.00 25.00           C
ATOM     31  CA  ASP    31      -3.327   6.425  -7.438  1.00 25.00           C
ATOM     32  CA  ASP    32      -6.322   7.502  -9.414  1.00 25.00           C
ATOM     33  CA  GLN    33      -6.886  11.203  -9.977  1.00 25.00           C
ATOM     34  CA  GLY    34      -6.586  12.339  -6.331  1.00 25.00           C
ATOM     35  CA  SER    35      -3.609  11.031  -4.324  1.00 25.00           C
ATOM     36  CA  HIS    36      -2.688   9.072  -1.126  1.00 25.00           C
ATOM     37  CA  PHE    37      -0.422   6.011  -1.286  1.00 25.00           C
ATOM     38  CA  ARG    38      -0.402   2.686   0.565  1.00 25.00           C
ATOM     39  CA  LEU    39      -1.683   0.469   3.351  1.00 25.00           C
ATOM     40  CA  VAL    40      -4.096  -2.256   2.197  1.00 25.00           C
ATOM     41  CA  VAL    41      -7.180  -3.944   0.783  1.00 25.00           C
ATOM     42  CA  ARG    42      -9.249  -6.358   2.901  1.00 25.00           C
ATOM     43  CA  ASP    43     -12.650  -8.163   2.876  1.00 25.00           C
ATOM     44  CA  THR    44     -13.729  -9.994  -0.322  1.00 25.00           C
ATOM     45  CA  GLU    45     -16.636  -7.730  -1.305  1.00 25.00           C
ATOM     46  CA  GLY    46     -17.935  -6.132   1.940  1.00 25.00           C
ATOM     47  CA  ARG    47     -14.918  -3.818   1.852  1.00 25.00           C
ATOM     48  CA  MET    48     -11.637  -1.929   2.288  1.00 25.00           C
ATOM     49  CA  VAL    49      -8.869   0.618   1.960  1.00 25.00           C
ATOM     50  CA  TRP    50      -5.900   2.925   1.821  1.00 25.00           C
ATOM     51  CA  ARG    51      -3.843   5.990   2.685  1.00 25.00           C
ATOM     52  CA  ALA    52      -2.646   4.632   5.994  1.00 25.00           C
ATOM     53  CA  TRP    53       0.798   6.204   6.657  1.00 25.00           C
ATOM     54  CA  ASN    54       1.043   8.416   3.531  1.00 25.00           C
ATOM     55  CA  PHE    55       4.460  10.084   3.656  1.00 25.00           C
ATOM     56  CA  GLU    56       7.853   8.960   5.036  1.00 25.00           C
ATOM     57  CA  PRO    57       9.037   7.145   1.902  1.00 25.00           C
ATOM     58  CA  ASP    58       7.024   9.007  -0.694  1.00 25.00           C
ATOM     59  CA  ALA    59       4.388   6.331   0.167  1.00 25.00           C
ATOM     60  CA  GLY    60       6.052   3.476  -1.705  1.00 25.00           C
ATOM     61  CA  GLU    61       5.608   0.083  -0.032  1.00 25.00           C
ATOM     62  CA  GLY    62       7.293   1.827   2.933  1.00 25.00           C
ATOM     63  CA  LEU    63       3.871   2.503   4.512  1.00 25.00           C
ATOM     64  CA  ASN    64       2.903  -1.174   4.047  1.00 25.00           C
ATOM     65  CA  ARG    65       6.190  -2.271   5.677  1.00 25.00           C
ATOM     66  CA  TYR    66       5.544   0.088   8.624  1.00 25.00           C
ATOM     67  CA  ILE    67       2.009  -1.332   9.018  1.00 25.00           C
ATOM     68  CA  ARG    68       3.411  -4.896   8.982  1.00 25.00           C
ATOM     69  CA  THR    69       5.987  -3.937  11.648  1.00 25.00           C
ATOM     70  CA  SER    70       6.700  -7.723  11.517  1.00 25.00           C
ATOM     71  CA  GLY    71      10.467  -7.550  10.965  1.00 25.00           C
ATOM     72  CA  ILE    72      10.402  -5.177  13.915  1.00 25.00           C
ATOM     73  CA  ARG    73      13.694  -6.838  14.794  1.00 25.00           C
ATOM     74  CA  THR    74      17.473  -7.086  14.621  1.00 25.00           C
ATOM     75  CA  ASP    75      19.689  -4.205  13.577  1.00 25.00           C
ATOM     76  CA  THR    76      21.412  -0.817  13.873  1.00 25.00           C
ATOM     77  CA  ALA    77      19.786  -0.373  17.252  1.00 25.00           C
ATOM     78  CA  THR    78      19.527  -1.012  21.043  1.00 25.00           C
ATOM     79  CA  ARG    79      21.323   2.203  21.937  1.00 25.00           C
ATOM     80  CA  LEU    80      23.240   3.293  25.083  1.00 25.00           C
ATOM     81  CA  GLU    81      19.943   5.033  26.027  1.00 25.00           C
ATOM     82  CA  HIS    82      17.726   4.775  29.067  1.00 25.00           C
ATOM     83  CA  HIS    83      14.982   7.063  27.683  1.00 25.00           C
ATOM     84  CA  HIS    84      12.061   9.436  27.447  1.00 25.00           C
ATOM     85  CA  HIS    85      13.151  11.479  24.451  1.00 25.00           C
ATOM     86  CA  HIS    86      10.242  13.681  23.317  1.00 25.00           C
ATOM     87  CA  HIS    87       7.826  11.865  25.640  1.00 25.00           C
TER
END
