
#######################################################
#                                                     #
#                        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   23 (   23),  selected   23 , name T0321TS464_2_2-D2
# Molecule2: number of CA atoms  148 ( 1130),  selected  148 , name T0321_D2.pdb
# PARAMETERS: T0321TS464_2_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          0.751
LGA    D     111      P     112          1.698
LGA    P     112      F     113          2.550
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    I     114      V     127          3.338
LGA    M     115      V     128          3.484
LGA    S     116      G     129          3.379
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    -       -      E     148           -
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          2.467
LGA    P     204      R     185          1.062
LGA    L     205      L     186          1.226
LGA    A     206      L     187          1.302
LGA    P     207      E     188          0.958
LGA    V     208      L     189          1.409
LGA    L     209      S     190          1.885
LGA    F     210      R     191          1.599
LGA    E     211      -       -           -
LGA    H     212      N     192          2.172
LGA    G     213      A     193          4.433
LGA    L     214      R     194          3.078
LGA    Q     215      R     195          2.579
LGA    E     216      I     196          2.897
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    L     217      Q     215          3.107
LGA    S     218      E     216          1.955
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)   23  148    5.0     21    2.45     4.76     11.046     0.822

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.371906 * X  +  -0.925831 * Y  +  -0.067250 * Z  +  56.968857
  Y_new =  -0.797357 * X  +   0.355712 * Y  +  -0.487536 * Z  +  97.159309
  Z_new =   0.475297 * X  +  -0.127695 * Y  +  -0.870509 * Z  +  94.123322 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.995941    0.145651  [ DEG:  -171.6548      8.3452 ]
  Theta =  -0.495302   -2.646291  [ DEG:   -28.3787   -151.6213 ]
  Phi   =  -2.007224    1.134369  [ DEG:  -115.0055     64.9945 ]
 
# 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_2_2-D2                             
REMARK     2: T0321_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS464_2_2-D2.T0321_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   23  148   5.0   21   2.45    4.76  11.046
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS464_2_2-D2
REMARK PARENT number 2
PFRMAT TS
TARGET T0321
PARENT N/A
ATOM     22  CA  ASN   110      10.208  48.095  78.030  1.00  0.00
ATOM     23  CA  ASP   111       9.725  45.804  75.017  1.00  0.00
ATOM     24  CA  PRO   112      12.543  44.859  72.636  1.00  0.00
ATOM     25  CA  PHE   113      11.961  46.599  69.303  1.00  0.00
ATOM     26  CA  ILE   114      13.016  45.524  65.794  1.00  0.00
ATOM     27  CA  MET   115      12.507  47.734  62.760  1.00  0.00
ATOM     28  CA  SER   116      12.965  47.329  59.013  1.00  0.00
ATOM     29  CA  THR   203       3.669  38.998  58.918  1.00  0.00
ATOM     30  CA  PRO   204       5.790  37.240  56.308  1.00  0.00
ATOM     31  CA  LEU   205       8.752  37.418  58.759  1.00  0.00
ATOM     32  CA  ALA   206       6.797  35.689  61.537  1.00  0.00
ATOM     33  CA  PRO   207       5.626  32.969  59.194  1.00  0.00
ATOM     34  CA  VAL   208       9.417  32.517  59.367  1.00  0.00
ATOM     35  CA  LEU   209       9.340  32.323  63.185  1.00  0.00
ATOM     36  CA  PHE   210       6.780  29.517  63.043  1.00  0.00
ATOM     37  CA  GLU   211       9.014  27.415  60.746  1.00  0.00
ATOM     38  CA  HIS   212      12.153  28.084  62.796  1.00  0.00
ATOM     39  CA  GLY   213      10.540  27.218  66.150  1.00  0.00
ATOM     40  CA  LEU   214      11.540  30.672  67.424  1.00  0.00
ATOM     41  CA  GLN   215      10.476  31.349  71.018  1.00  0.00
ATOM     42  CA  GLU   216       8.829  34.745  70.533  1.00  0.00
ATOM     43  CA  LEU   217       6.462  36.442  72.967  1.00  0.00
ATOM     44  CA  SER   218       4.438  38.921  70.932  1.00  0.00
TER
END
