
#######################################################
#                                                     #
#                        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   33 (   33),  selected   33 , name T0320TS464_4_2
# Molecule2: number of CA atoms  287 ( 2364),  selected  287 , name T0320.pdb
# PARAMETERS: T0320TS464_4_2.T0320.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    I      27      M       1           -
LGA    A      28      Q       2           -
LGA    S      29      L       3           -
LGA    T      30      S       4           -
LGA    -       -      K       5           -
LGA    -       -      A       6           -
LGA    Q      31      A       7           #
LGA    -       -      E       8           -
LGA    -       -      M       9           -
LGA    -       -      C      10           -
LGA    -       -      Y      11           -
LGA    -       -      E      12           -
LGA    -       -      I      13           -
LGA    -       -      T      14           -
LGA    -       -      N      15           -
LGA    -       -      S      16           -
LGA    -       -      Y      17           -
LGA    -       -      L      18           -
LGA    -       -      H      19           -
LGA    -       -      I      20           -
LGA    -       -      D      21           -
LGA    -       -      Q      22           -
LGA    -       -      K      23           -
LGA    -       -      S      24           -
LGA    -       -      Q      25           -
LGA    -       -      I      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      S      29           -
LGA    -       -      T      30           -
LGA    -       -      Q      31           -
LGA    -       -      E      32           -
LGA    -       -      A      33           -
LGA    -       -      I      34           -
LGA    -       -      R      35           -
LGA    -       -      L      36           -
LGA    -       -      T      37           -
LGA    E      32      R      38          4.019
LGA    A      33      K      39           -
LGA    I      34      Y      40           -
LGA    R      35      L      41          3.939
LGA    L      36      L      42          3.421
LGA    T      37      -       -           -
LGA    R      38      S      43           #
LGA    K      39      E      44          4.129
LGA    Y      40      I      45          1.751
LGA    L      41      F      46          4.264
LGA    -       -      V      47           -
LGA    -       -      R      48           -
LGA    L      42      W      49          1.150
LGA    S      43      S      50          1.980
LGA    E      44      P      51          3.107
LGA    I      45      L      52          3.648
LGA    F      46      N      53           #
LGA    V      47      G      54           -
LGA    I     161      -       -           -
LGA    V     162      E      55          0.714
LGA    I     163      I      56          0.382
LGA    G     164      S      57          0.609
LGA    I     165      F      58          1.110
LGA    R     166      S      59          2.158
LGA    H     167      Y      60          3.280
LGA    -       -      N      61           -
LGA    -       -      G      62           -
LGA    -       -      G      63           -
LGA    -       -      K      64           -
LGA    -       -      D      65           -
LGA    -       -      C      66           -
LGA    -       -      Q      67           -
LGA    -       -      V      68           -
LGA    -       -      L      69           -
LGA    -       -      L      70           -
LGA    -       -      L      71           -
LGA    -       -      L      72           -
LGA    -       -      Y      73           -
LGA    -       -      L      74           -
LGA    -       -      S      75           -
LGA    -       -      C      76           -
LGA    -       -      L      77           -
LGA    -       -      W      78           -
LGA    -       -      E      79           -
LGA    -       -      Y      80           -
LGA    -       -      F      81           -
LGA    -       -      F      82           -
LGA    -       -      I      83           -
LGA    -       -      K      84           -
LGA    -       -      A      85           -
LGA    -       -      Q      86           -
LGA    -       -      N      87           -
LGA    -       -      S      88           -
LGA    -       -      F      97           -
LGA    -       -      P      98           -
LGA    -       -      M      99           -
LGA    -       -      Q     100           -
LGA    -       -      R     101           -
LGA    -       -      L     102           -
LGA    -       -      P     103           -
LGA    -       -      T     104           -
LGA    -       -      V     105           -
LGA    -       -      F     106           -
LGA    -       -      I     107           -
LGA    -       -      D     108           -
LGA    -       -      Q     109           -
LGA    -       -      E     110           -
LGA    -       -      E     111           -
LGA    -       -      T     112           -
LGA    -       -      F     113           -
LGA    -       -      P     114           -
LGA    -       -      T     115           -
LGA    -       -      L     116           -
LGA    -       -      E     117           -
LGA    -       -      N     118           -
LGA    -       -      F     119           -
LGA    -       -      V     120           -
LGA    -       -      L     121           -
LGA    -       -      E     122           -
LGA    -       -      T     123           -
LGA    -       -      S     124           -
LGA    -       -      E     125           -
LGA    -       -      R     126           -
LGA    -       -      Y     127           -
LGA    -       -      C     128           -
LGA    -       -      L     129           -
LGA    -       -      S     130           -
LGA    -       -      L     131           -
LGA    -       -      Y     132           -
LGA    -       -      E     133           -
LGA    -       -      S     134           -
LGA    -       -      Q     135           -
LGA    -       -      R     136           -
LGA    -       -      V     142           -
LGA    -       -      N     143           -
LGA    -       -      M     144           -
LGA    -       -      A     145           -
LGA    -       -      D     146           -
LGA    -       -      A     147           -
LGA    -       -      F     148           -
LGA    -       -      R     149           -
LGA    -       -      D     150           -
LGA    -       -      F     151           -
LGA    -       -      I     152           -
LGA    -       -      K     153           -
LGA    -       -      I     154           -
LGA    -       -      Y     155           -
LGA    -       -      P     156           -
LGA    -       -      E     157           -
LGA    -       -      T     158           -
LGA    -       -      E     159           -
LGA    -       -      A     160           -
LGA    -       -      I     161           -
LGA    -       -      V     162           -
LGA    -       -      I     163           -
LGA    -       -      G     164           -
LGA    -       -      I     165           -
LGA    -       -      R     166           -
LGA    -       -      H     167           -
LGA    -       -      T     168           -
LGA    -       -      D     169           -
LGA    -       -      P     170           -
LGA    -       -      F     171           -
LGA    -       -      G     172           -
LGA    -       -      E     173           -
LGA    -       -      A     174           -
LGA    -       -      L     175           -
LGA    -       -      K     176           -
LGA    I     272      P     177          1.171
LGA    -       -      I     178           -
LGA    -       -      Q     179           -
LGA    -       -      R     180           -
LGA    -       -      T     181           -
LGA    -       -      D     182           -
LGA    -       -      S     183           -
LGA    -       -      N     184           -
LGA    -       -      W     185           -
LGA    -       -      P     186           -
LGA    -       -      D     187           -
LGA    -       -      F     188           -
LGA    -       -      M     189           -
LGA    -       -      R     190           -
LGA    -       -      L     191           -
LGA    -       -      Q     192           -
LGA    S     273      P     193          4.139
LGA    V     274      L     194          2.663
LGA    V     275      L     195          2.758
LGA    -       -      H     196           -
LGA    D     276      W     197          2.160
LGA    -       -      D     198           -
LGA    -       -      L     199           -
LGA    -       -      T     200           -
LGA    -       -      N     201           -
LGA    -       -      I     202           -
LGA    -       -      W     203           -
LGA    -       -      S     204           -
LGA    -       -      F     205           -
LGA    -       -      L     206           -
LGA    -       -      L     207           -
LGA    -       -      Y     208           -
LGA    -       -      S     209           -
LGA    -       -      N     210           -
LGA    -       -      E     211           -
LGA    -       -      P     212           -
LGA    -       -      I     213           -
LGA    -       -      C     214           -
LGA    -       -      G     215           -
LGA    -       -      L     216           -
LGA    -       -      Y     217           -
LGA    -       -      G     218           -
LGA    -       -      K     219           -
LGA    -       -      G     220           -
LGA    -       -      F     221           -
LGA    -       -      T     222           -
LGA    -       -      S     223           -
LGA    -       -      I     224           -
LGA    -       -      G     225           -
LGA    -       -      G     226           -
LGA    -       -      I     227           -
LGA    -       -      N     228           -
LGA    -       -      N     229           -
LGA    -       -      S     230           -
LGA    -       -      L     231           -
LGA    -       -      P     232           -
LGA    -       -      N     233           -
LGA    -       -      P     234           -
LGA    -       -      H     235           -
LGA    -       -      L     236           -
LGA    -       -      R     237           -
LGA    -       -      K     238           -
LGA    -       -      D     239           -
LGA    -       -      S     240           -
LGA    -       -      N     241           -
LGA    -       -      N     242           -
LGA    -       -      P     243           -
LGA    -       -      A     244           -
LGA    -       -      L     245           -
LGA    -       -      H     246           -
LGA    -       -      F     247           -
LGA    -       -      E     248           -
LGA    -       -      W     249           -
LGA    -       -      E     250           -
LGA    -       -      I     251           -
LGA    -       -      I     252           -
LGA    -       -      H     253           -
LGA    -       -      A     254           -
LGA    -       -      F     255           -
LGA    -       -      G     256           -
LGA    -       -      K     257           -
LGA    -       -      D     258           -
LGA    -       -      R     263           -
LGA    -       -      S     264           -
LGA    -       -      S     265           -
LGA    -       -      A     266           -
LGA    -       -      I     267           -
LGA    -       -      N     268           -
LGA    -       -      T     269           -
LGA    -       -      S     270           -
LGA    -       -      P     271           -
LGA    -       -      I     272           -
LGA    -       -      S     273           -
LGA    -       -      V     274           -
LGA    -       -      V     275           -
LGA    -       -      D     276           -
LGA    -       -      K     277           -
LGA    -       -      E     278           -
LGA    -       -      R     279           -
LGA    -       -      F     280           -
LGA    -       -      S     281           -
LGA    -       -      K     282           -
LGA    -       -      Y     283           -
LGA    -       -      H     284           -
LGA    -       -      D     285           -
LGA    -       -      N     286           -
LGA    -       -      Y     287           -
LGA    -       -      Y     288           -
LGA    -       -      P     289           -
LGA    -       -      G     290           -
LGA    -       -      W     291           -
LGA    -       -      Y     292           -
LGA    -       -      L     293           -
LGA    -       -      V     294           -
LGA    -       -      D     295           -
LGA    -       -      D     296           -
LGA    -       -      T     297           -
LGA    -       -      L     298           -
LGA    -       -      E     299           -
LGA    -       -      R     300           -
LGA    -       -      A     301           -
LGA    -       -      G     302           -
LGA    -       -      R     303           -
LGA    -       -      I     304           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   33  287    5.0     21    2.81    14.29      4.960     0.722

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.078265 * X  +   0.987277 * Y  +  -0.138418 * Z  + -69.189270
  Y_new =   0.226759 * X  +  -0.152834 * Y  +  -0.961885 * Z  +   2.389335
  Z_new =  -0.970801 * X  +   0.043894 * Y  +  -0.235836 * Z  +  80.248589 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.957577   -0.184016  [ DEG:   169.4566    -10.5433 ]
  Theta =   1.328548    1.813045  [ DEG:    76.1202    103.8798 ]
  Phi   =   1.238454   -1.903139  [ DEG:    70.9582   -109.0418 ]
 
# 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: T0320TS464_4_2                                
REMARK     2: T0320.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0320TS464_4_2.T0320.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   33  287   5.0   21   2.81   14.29   4.960
REMARK  ---------------------------------------------------------- 
MOLECULE T0320TS464_4_2
REMARK PARENT number 2
PFRMAT TS
TARGET T0320
PARENT N/A
ATOM      1  CA  ILE    27       9.611  20.594  18.352  1.00  0.00
ATOM      2  CA  ALA    28      10.161  21.458  21.993  1.00  0.00
ATOM      3  CA  SER    29       7.850  23.711  23.984  1.00  0.00
ATOM      4  CA  THR    30       9.812  26.594  25.525  1.00  0.00
ATOM      5  CA  GLN    31       7.029  27.762  27.876  1.00  0.00
ATOM      6  CA  GLU    32       7.311  24.311  29.429  1.00  0.00
ATOM      7  CA  ALA    33      11.047  24.592  30.316  1.00  0.00
ATOM      8  CA  ILE    34      10.449  27.964  31.958  1.00  0.00
ATOM      9  CA  ARG    35       7.858  26.698  34.502  1.00  0.00
ATOM     10  CA  LEU    36       9.927  23.607  35.391  1.00  0.00
ATOM     11  CA  THR    37      13.026  25.796  35.689  1.00  0.00
ATOM     12  CA  ARG    38      11.347  28.022  38.241  1.00  0.00
ATOM     13  CA  LYS    39       9.954  25.068  40.122  1.00  0.00
ATOM     14  CA  TYR    40      13.524  23.715  40.096  1.00  0.00
ATOM     15  CA  LEU    41      14.721  26.714  42.106  1.00  0.00
ATOM     16  CA  LEU    42      15.993  29.237  39.550  1.00  0.00
ATOM     17  CA  SER    43      15.432  32.750  40.967  1.00  0.00
ATOM     18  CA  GLU    44      15.362  34.236  37.438  1.00  0.00
ATOM     19  CA  ILE    45      15.191  32.719  33.982  1.00  0.00
ATOM     20  CA  PHE    46      16.290  34.759  30.956  1.00  0.00
ATOM     21  CA  VAL    47      15.505  33.122  27.642  1.00  0.00
ATOM     22  CA  ILE   161      20.351  31.930  40.995  1.00  0.00
ATOM     23  CA  VAL   162      20.225  32.963  37.344  1.00  0.00
ATOM     24  CA  ILE   163      19.242  30.441  34.671  1.00  0.00
ATOM     25  CA  GLY   164      20.003  31.310  31.051  1.00  0.00
ATOM     26  CA  ILE   165      17.781  29.426  28.670  1.00  0.00
ATOM     27  CA  ARG   166      19.139  28.992  25.146  1.00  0.00
ATOM     28  CA  HIS   167      16.429  27.531  22.879  1.00  0.00
ATOM     29  CA  ILE   272      16.045  17.267  34.490  1.00  0.00
ATOM     30  CA  SER   273      16.122  16.027  30.881  1.00  0.00
ATOM     31  CA  VAL   274      13.700  15.870  27.949  1.00  0.00
ATOM     32  CA  VAL   275      14.042  13.576  24.948  1.00  0.00
ATOM     33  CA  ASP   276      11.866  14.702  22.041  1.00  0.00
TER
END
