
#######################################################
#                                                     #
#                        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   21 (   21),  selected   21 , name T0321TS464_5_2-D2
# Molecule2: number of CA atoms  148 ( 1130),  selected  148 , name T0321_D2.pdb
# PARAMETERS: T0321TS464_5_2-D2.T0321_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      V      97           -
LGA    -       -      I      98           -
LGA    -       -      F      99           -
LGA    -       -      S     100           -
LGA    -       -      D     101           -
LGA    -       -      A     102           -
LGA    -       -      N     110           -
LGA    N     110      D     111          1.438
LGA    D     111      P     112          1.859
LGA    P     112      F     113          3.051
LGA    F     113      I     114           -
LGA    -       -      M     115           -
LGA    -       -      S     116           -
LGA    -       -      Q     117           -
LGA    -       -      N     118           -
LGA    -       -      E     119           -
LGA    -       -      V     120           -
LGA    -       -      K     121           -
LGA    -       -      G     122           -
LGA    -       -      K     123           -
LGA    -       -      K     124           -
LGA    -       -      V     125           -
LGA    -       -      G     126           -
LGA    -       -      V     127           -
LGA    I     114      V     128          3.362
LGA    M     115      G     129          0.306
LGA    -       -      H     130           -
LGA    -       -      F     131           -
LGA    -       -      P     132           -
LGA    -       -      H     133           -
LGA    -       -      L     134           -
LGA    -       -      E     135           -
LGA    -       -      S     136           -
LGA    -       -      L     137           -
LGA    -       -      L     138           -
LGA    -       -      E     139           -
LGA    -       -      P     140           -
LGA    -       -      I     141           -
LGA    -       -      C     142           -
LGA    -       -      D     143           -
LGA    -       -      L     144           -
LGA    -       -      S     145           -
LGA    -       -      I     146           -
LGA    -       -      L     147           -
LGA    S     116      E     148          2.892
LGA    -       -      W     149           -
LGA    -       -      S     150           -
LGA    -       -      P     151           -
LGA    -       -      E     152           -
LGA    -       -      E     153           -
LGA    -       -      G     154           -
LGA    -       -      D     155           -
LGA    -       -      Y     156           -
LGA    -       -      P     157           -
LGA    -       -      L     158           -
LGA    -       -      P     159           -
LGA    -       -      A     160           -
LGA    -       -      S     161           -
LGA    -       -      E     162           -
LGA    -       -      F     163           -
LGA    -       -      I     164           -
LGA    -       -      L     165           -
LGA    -       -      P     166           -
LGA    -       -      E     167           -
LGA    -       -      C     168           -
LGA    -       -      D     169           -
LGA    -       -      Y     170           -
LGA    -       -      V     171           -
LGA    -       -      Y     172           -
LGA    -       -      I     173           -
LGA    -       -      T     174           -
LGA    -       -      C     175           -
LGA    -       -      A     176           -
LGA    -       -      S     177           -
LGA    -       -      V     178           -
LGA    -       -      V     179           -
LGA    -       -      D     180           -
LGA    -       -      K     181           -
LGA    -       -      T     182           -
LGA    -       -      L     183           -
LGA    T     203      P     184          1.668
LGA    P     204      R     185          1.407
LGA    L     205      L     186          1.393
LGA    A     206      L     187          1.147
LGA    P     207      E     188          0.453
LGA    V     208      L     189          0.651
LGA    L     209      S     190          1.029
LGA    F     210      R     191          1.083
LGA    E     211      -       -           -
LGA    H     212      -       -           -
LGA    G     213      N     192          2.502
LGA    L     214      A     193          1.147
LGA    Q     215      R     194          3.550
LGA    E     216      R     195          3.950
LGA    -       -      I     196           -
LGA    -       -      T     197           -
LGA    -       -      L     198           -
LGA    -       -      V     199           -
LGA    -       -      G     200           -
LGA    -       -      P     201           -
LGA    -       -      G     202           -
LGA    -       -      T     203           -
LGA    -       -      P     204           -
LGA    -       -      L     205           -
LGA    -       -      A     206           -
LGA    -       -      P     207           -
LGA    -       -      V     208           -
LGA    -       -      L     209           -
LGA    -       -      F     210           -
LGA    -       -      E     211           -
LGA    -       -      H     212           -
LGA    -       -      G     213           -
LGA    -       -      L     214           -
LGA    -       -      Q     215           -
LGA    -       -      E     216           -
LGA    -       -      L     217           -
LGA    -       -      S     218           -
LGA    -       -      G     219           -
LGA    -       -      F     220           -
LGA    -       -      M     221           -
LGA    -       -      V     222           -
LGA    -       -      K     223           -
LGA    -       -      D     224           -
LGA    -       -      N     225           -
LGA    -       -      A     226           -
LGA    -       -      R     227           -
LGA    -       -      A     228           -
LGA    -       -      F     229           -
LGA    -       -      R     230           -
LGA    -       -      I     231           -
LGA    -       -      V     232           -
LGA    -       -      A     233           -
LGA    -       -      G     234           -
LGA    -       -      A     235           -
LGA    -       -      E     236           -
LGA    -       -      K     237           -
LGA    -       -      V     238           -
LGA    -       -      K     239           -
LGA    -       -      I     240           -
LGA    -       -      Y     241           -
LGA    -       -      S     242           -
LGA    -       -      A     243           -
LGA    -       -      G     244           -
LGA    -       -      Q     245           -
LGA    -       -      K     246           -
LGA    -       -      V     247           -
LGA    -       -      T     248           -
LGA    -       -      I     249           -
LGA    -       -      K     250           -
LGA    -       -      K     251           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   21  148    5.0     18    2.12     5.56     10.608     0.809

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.187745 * X  +   0.788514 * Y  +  -0.585660 * Z  +  -5.331659
  Y_new =  -0.982207 * X  +   0.153545 * Y  +  -0.108138 * Z  + 115.934692
  Z_new =   0.004657 * X  +   0.595542 * Y  +   0.803311 * Z  +   0.866247 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.637948   -2.503645  [ DEG:    36.5517   -143.4483 ]
  Theta =  -0.004657   -3.136936  [ DEG:    -0.2668   -179.7332 ]
  Phi   =  -1.381928    1.759664  [ DEG:   -79.1787    100.8213 ]
 
# 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: T0321TS464_5_2-D2                             
REMARK     2: T0321_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS464_5_2-D2.T0321_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   21  148   5.0   18   2.12    5.56  10.608
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS464_5_2-D2
REMARK PARENT number 2
PFRMAT TS
TARGET T0321
PARENT N/A
ATOM     13  CA  ASN   110      11.952  47.991  77.323  1.00  0.00
ATOM     14  CA  ASP   111      11.296  45.706  74.338  1.00  0.00
ATOM     15  CA  PRO   112      13.787  45.201  71.502  1.00  0.00
ATOM     16  CA  PHE   113      12.437  46.900  68.376  1.00  0.00
ATOM     17  CA  ILE   114      13.038  46.040  64.704  1.00  0.00
ATOM     18  CA  MET   115      11.747  48.208  61.879  1.00  0.00
ATOM     19  CA  SER   116      11.635  47.934  58.095  1.00  0.00
ATOM     20  CA  THR   203       3.218  38.164  58.801  1.00  0.00
ATOM     21  CA  PRO   204       6.139  37.279  56.546  1.00  0.00
ATOM     22  CA  LEU   205       8.466  37.701  59.582  1.00  0.00
ATOM     23  CA  ALA   206       6.477  35.222  61.687  1.00  0.00
ATOM     24  CA  PRO   207       6.427  32.691  58.886  1.00  0.00
ATOM     25  CA  VAL   208      10.192  33.248  58.781  1.00  0.00
ATOM     26  CA  LEU   209      10.937  32.792  62.403  1.00  0.00
ATOM     27  CA  PHE   210       8.628  29.745  62.675  1.00  0.00
ATOM     28  CA  GLU   211      10.433  28.126  59.760  1.00  0.00
ATOM     29  CA  HIS   212      13.563  28.405  61.867  1.00  0.00
ATOM     30  CA  GLY   213      12.630  26.855  65.189  1.00  0.00
ATOM     31  CA  LEU   214      11.930  30.182  66.887  1.00  0.00
ATOM     32  CA  GLN   215       8.680  30.300  68.871  1.00  0.00
ATOM     33  CA  GLU   216       7.027  33.551  67.847  1.00  0.00
TER
END
