
#######################################################
#                                                     #
#                        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   34 (   34),  selected   34 , name T0365TS464_2_2
# Molecule2: number of CA atoms  214 ( 1638),  selected  214 , name T0365.pdb
# PARAMETERS: T0365TS464_2_2.T0365.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      L       7           -
LGA    P       2      G       8           -
LGA    V       3      V       9           -
LGA    -       -      F      10           -
LGA    -       -      A      11           -
LGA    -       -      K      12           -
LGA    -       -      S      13           -
LGA    -       -      P      14           -
LGA    -       -      I      15           -
LGA    -       -      K      16           -
LGA    -       -      P      17           -
LGA    -       -      L      18           -
LGA    -       -      Q      19           -
LGA    -       -      E      20           -
LGA    -       -      H      21           -
LGA    -       -      M      22           -
LGA    -       -      D      23           -
LGA    -       -      K      24           -
LGA    -       -      V      25           -
LGA    -       -      Y      26           -
LGA    -       -      D      27           -
LGA    -       -      C      28           -
LGA    -       -      A      29           -
LGA    -       -      S      30           -
LGA    -       -      L      31           -
LGA    -       -      L      32           -
LGA    -       -      V      33           -
LGA    -       -      P      34           -
LGA    -       -      F      35           -
LGA    -       -      F      36           -
LGA    -       -      E      37           -
LGA    -       -      A      38           -
LGA    -       -      T      39           -
LGA    -       -      I      40           -
LGA    -       -      T      41           -
LGA    -       -      G      42           -
LGA    -       -      N      43           -
LGA    -       -      W      44           -
LGA    -       -      D      45           -
LGA    -       -      D      46           -
LGA    -       -      A      47           -
LGA    -       -      V      48           -
LGA    -       -      Q      49           -
LGA    -       -      I      50           -
LGA    -       -      R      51           -
LGA    -       -      K      52           -
LGA    -       -      Q      53           -
LGA    -       -      I      54           -
LGA    -       -      S      55           -
LGA    -       -      L      56           -
LGA    -       -      A      57           -
LGA    -       -      E      58           -
LGA    -       -      K      59           -
LGA    -       -      Q      60           -
LGA    -       -      G      61           -
LGA    -       -      D      62           -
LGA    -       -      S      63           -
LGA    -       -      L      64           -
LGA    -       -      K      65           -
LGA    -       -      R      66           -
LGA    -       -      E      67           -
LGA    -       -      I      68           -
LGA    -       -      R      69           -
LGA    -       -      L      70           -
LGA    -       -      T      71           -
LGA    -       -      L      72           -
LGA    -       -      F      77           -
LGA    -       -      M      78           -
LGA    -       -      P      79           -
LGA    -       -      V      80           -
LGA    -       -      E      81           -
LGA    -       -      R      82           -
LGA    -       -      T      83           -
LGA    -       -      D      84           -
LGA    -       -      L      85           -
LGA    -       -      L      86           -
LGA    -       -      E      87           -
LGA    -       -      L      88           -
LGA    -       -      L      89           -
LGA    -       -      T      90           -
LGA    -       -      Q      91           -
LGA    -       -      Q      92           -
LGA    -       -      D      93           -
LGA    -       -      K      94           -
LGA    -       -      I      95           -
LGA    -       -      A      96           -
LGA    -       -      N      97           -
LGA    -       -      K      98           -
LGA    -       -      A      99           -
LGA    -       -      K     100           -
LGA    -       -      D     101           -
LGA    -       -      I     102           -
LGA    -       -      S     103           -
LGA    -       -      G     104           -
LGA    -       -      R     105           -
LGA    -       -      V     106           -
LGA    -       -      I     107           -
LGA    -       -      G     108           -
LGA    -       -      R     109           -
LGA    -       -      Q     110           -
LGA    -       -      L     111           -
LGA    -       -      L     112           -
LGA    -       -      I     113           -
LGA    -       -      P     114           -
LGA    -       -      Q     115           -
LGA    -       -      A     116           -
LGA    -       -      L     117           -
LGA    -       -      Q     118           -
LGA    -       -      V     119           -
LGA    N       4      P     120          5.829
LGA    S       5      F     121           #
LGA    I       6      -       -           -
LGA    L       7      -       -           -
LGA    G       8      -       -           -
LGA    V       9      I     122          3.687
LGA    F      10      A     123          3.459
LGA    A      11      Y     124          2.274
LGA    K      12      L     125          2.076
LGA    S      13      Q     126          2.330
LGA    P      14      R     127          1.967
LGA    I      15      C     128          0.609
LGA    K      16      I     129          0.141
LGA    P      17      D     130          1.263
LGA    L      18      A     131          1.923
LGA    Q      19      V     132          1.025
LGA    E      20      G     133          1.413
LGA    H      21      L     134          2.758
LGA    M      22      A     135          2.196
LGA    D      23      Q     136          0.676
LGA    K      24      Q     137          1.459
LGA    V      25      V     138          1.862
LGA    Y      26      I     139          1.880
LGA    D      27      N     140          1.909
LGA    C      28      E     141          1.277
LGA    A      29      L     142          1.711
LGA    -       -      D     143           -
LGA    -       -      D     144           -
LGA    -       -      L     145           -
LGA    -       -      L     146           -
LGA    -       -      E     147           -
LGA    -       -      A     148           -
LGA    -       -      R     151           -
LGA    -       -      G     152           -
LGA    -       -      R     153           -
LGA    -       -      E     154           -
LGA    -       -      V     155           -
LGA    -       -      D     156           -
LGA    -       -      F     157           -
LGA    -       -      V     158           -
LGA    -       -      A     159           -
LGA    -       -      K     160           -
LGA    -       -      M     161           -
LGA    -       -      I     162           -
LGA    -       -      N     163           -
LGA    -       -      E     164           -
LGA    -       -      L     165           -
LGA    -       -      D     166           -
LGA    -       -      I     167           -
LGA    -       -      I     168           -
LGA    -       -      E     169           -
LGA    -       -      E     170           -
LGA    -       -      D     171           -
LGA    -       -      T     172           -
LGA    -       -      D     173           -
LGA    -       -      D     174           -
LGA    -       -      L     175           -
LGA    -       -      Q     176           -
LGA    -       -      I     177           -
LGA    -       -      Q     178           -
LGA    -       -      L     179           -
LGA    -       -      R     180           -
LGA    -       -      R     181           -
LGA    -       -      Q     182           -
LGA    -       -      L     183           -
LGA    -       -      F     184           -
LGA    -       -      A     185           -
LGA    -       -      L     186           -
LGA    -       -      E     187           -
LGA    -       -      S     188           -
LGA    -       -      E     189           -
LGA    -       -      L     190           -
LGA    -       -      N     191           -
LGA    -       -      P     192           -
LGA    -       -      V     193           -
LGA    -       -      D     194           -
LGA    -       -      V     195           -
LGA    -       -      M     196           -
LGA    -       -      F     197           -
LGA    -       -      L     198           -
LGA    -       -      Y     199           -
LGA    -       -      K     200           -
LGA    -       -      T     201           -
LGA    -       -      I     202           -
LGA    -       -      E     203           -
LGA    -       -      W     204           -
LGA    -       -      V     205           -
LGA    -       -      G     206           -
LGA    -       -      G     207           -
LGA    -       -      L     208           -
LGA    -       -      A     209           -
LGA    -       -      D     210           -
LGA    -       -      L     211           -
LGA    -       -      A     212           -
LGA    A     159      E     213          2.550
LGA    K     160      R     214          1.840
LGA    M     161      V     215          0.733
LGA    I     162      G     216          1.137
LGA    N     163      S     217          1.723
LGA    -       -      R     218           -
LGA    -       -      L     219           -
LGA    -       -      E     220           -
LGA    -       -      L     221           -
LGA    -       -      M     222           -
LGA    -       -      L     223           -
LGA    -       -      A     224           -
LGA    -       -      R     225           -
LGA    -       -      V     226           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   34  214    5.0     27    2.21     3.70     10.978     1.169

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.433621 * X  +   0.343805 * Y  +   0.832929 * Z  +  13.285529
  Y_new =   0.755735 * X  +  -0.642173 * Y  +  -0.128366 * Z  +  18.569553
  Z_new =   0.490752 * X  +   0.685136 * Y  +  -0.538285 * Z  +  51.777966 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.236733   -0.904860  [ DEG:   128.1553    -51.8446 ]
  Theta =  -0.512952   -2.628640  [ DEG:   -29.3900   -150.6100 ]
  Phi   =   1.049885   -2.091708  [ DEG:    60.1540   -119.8460 ]
 
# 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: T0365TS464_2_2                                
REMARK     2: T0365.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0365TS464_2_2.T0365.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   34  214   5.0   27   2.21    3.70  10.978
REMARK  ---------------------------------------------------------- 
MOLECULE T0365TS464_2_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0365
PARENT N/A
ATOM      1  CA  MET     1      30.558  36.928  51.733  1.00  0.00
ATOM      2  CA  PRO     2      27.261  37.721  50.051  1.00  0.00
ATOM      3  CA  VAL     3      26.397  34.013  49.662  1.00  0.00
ATOM      4  CA  ASN     4      26.718  33.406  53.441  1.00  0.00
ATOM      5  CA  SER     5      24.534  36.462  54.038  1.00  0.00
ATOM      6  CA  ILE     6      21.619  35.778  51.701  1.00  0.00
ATOM      7  CA  LEU     7      21.546  32.023  52.481  1.00  0.00
ATOM      8  CA  GLY     8      23.083  31.792  55.941  1.00  0.00
ATOM      9  CA  VAL     9      25.789  29.348  54.843  1.00  0.00
ATOM     10  CA  PHE    10      29.206  28.330  56.157  1.00  0.00
ATOM     11  CA  ALA    11      32.111  29.833  54.203  1.00  0.00
ATOM     12  CA  LYS    12      32.848  26.372  52.695  1.00  0.00
ATOM     13  CA  SER    13      29.267  25.760  51.380  1.00  0.00
ATOM     14  CA  PRO    14      29.504  29.197  49.704  1.00  0.00
ATOM     15  CA  ILE    15      31.989  29.108  46.794  1.00  0.00
ATOM     16  CA  LYS    16      30.451  25.733  45.901  1.00  0.00
ATOM     17  CA  PRO    17      27.247  27.525  44.834  1.00  0.00
ATOM     18  CA  LEU    18      29.273  29.496  42.297  1.00  0.00
ATOM     19  CA  GLN    19      30.990  26.252  41.241  1.00  0.00
ATOM     20  CA  GLU    20      27.786  24.516  40.125  1.00  0.00
ATOM     21  CA  HIS    21      26.583  27.511  38.096  1.00  0.00
ATOM     22  CA  MET    22      30.082  28.091  36.680  1.00  0.00
ATOM     23  CA  ASP    23      30.176  24.550  35.262  1.00  0.00
ATOM     24  CA  LYS    24      26.740  25.032  33.695  1.00  0.00
ATOM     25  CA  VAL    25      27.761  28.288  31.979  1.00  0.00
ATOM     26  CA  TYR    26      31.153  26.858  30.970  1.00  0.00
ATOM     27  CA  ASP    27      29.457  24.015  29.081  1.00  0.00
ATOM     28  CA  CYS    28      27.183  26.491  27.263  1.00  0.00
ATOM     29  CA  ALA    29      30.235  28.382  25.977  1.00  0.00
ATOM     30  CA  ALA   159      39.599  32.690  38.499  1.00  0.00
ATOM     31  CA  LYS   160      39.240  28.907  37.918  1.00  0.00
ATOM     32  CA  MET   161      37.428  27.386  34.925  1.00  0.00
ATOM     33  CA  ILE   162      37.241  30.638  32.935  1.00  0.00
ATOM     34  CA  ASN   163      40.897  31.433  33.724  1.00  0.00
TER
END
