
#######################################################
#                                                     #
#                        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    5 (   41),  selected    5 , name T0316TS276_1-D3
# Molecule2: number of CA atoms   90 (  711),  selected   90 , name T0316_D3.pdb
# PARAMETERS: T0316TS276_1-D3.T0316_D3.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M     284           -
LGA    -       -      S     285           -
LGA    -       -      T     286           -
LGA    -       -      S     287           -
LGA    -       -      L     288           -
LGA    -       -      E     289           -
LGA    -       -      A     290           -
LGA    -       -      S     291           -
LGA    -       -      Q     292           -
LGA    -       -      V     293           -
LGA    -       -      H     294           -
LGA    -       -      F     295           -
LGA    -       -      T     296           -
LGA    -       -      R     297           -
LGA    -       -      E     298           -
LGA    -       -      M     299           -
LGA    -       -      P     300           -
LGA    -       -      E     301           -
LGA    -       -      E     302           -
LGA    -       -      F     303           -
LGA    -       -      T     304           -
LGA    -       -      L     305           -
LGA    -       -      E     306           -
LGA    -       -      C     307           -
LGA    -       -      T     308           -
LGA    -       -      A     309           -
LGA    -       -      K     310           -
LGA    -       -      F     311           -
LGA    -       -      R     312           -
LGA    M     284      Y     313          0.776
LGA    S     285      R     314          0.223
LGA    T     286      Q     315          0.299
LGA    S     287      P     316          0.278
LGA    L     288      D     317          0.509
LGA    -       -      S     318           -
LGA    -       -      K     319           -
LGA    -       -      V     320           -
LGA    -       -      T     321           -
LGA    -       -      V     322           -
LGA    -       -      H     323           -
LGA    -       -      V     324           -
LGA    -       -      K     325           -
LGA    -       -      G     326           -
LGA    -       -      E     327           -
LGA    -       -      K     328           -
LGA    -       -      T     329           -
LGA    -       -      E     330           -
LGA    -       -      V     331           -
LGA    -       -      I     332           -
LGA    -       -      F     333           -
LGA    -       -      A     334           -
LGA    -       -      E     335           -
LGA    -       -      P     336           -
LGA    -       -      Q     337           -
LGA    -       -      R     338           -
LGA    -       -      A     339           -
LGA    -       -      I     340           -
LGA    -       -      T     341           -
LGA    -       -      P     342           -
LGA    -       -      G     343           -
LGA    -       -      Q     344           -
LGA    -       -      A     345           -
LGA    -       -      V     346           -
LGA    -       -      V     347           -
LGA    -       -      F     348           -
LGA    -       -      Y     349           -
LGA    -       -      D     350           -
LGA    -       -      G     351           -
LGA    -       -      E     352           -
LGA    -       -      E     353           -
LGA    -       -      C     354           -
LGA    -       -      L     355           -
LGA    -       -      G     356           -
LGA    -       -      G     357           -
LGA    -       -      G     358           -
LGA    -       -      L     359           -
LGA    -       -      I     360           -
LGA    -       -      D     361           -
LGA    -       -      N     362           -
LGA    -       -      A     363           -
LGA    -       -      Y     364           -
LGA    -       -      R     365           -
LGA    -       -      D     366           -
LGA    -       -      G     367           -
LGA    -       -      Q     368           -
LGA    -       -      V     369           -
LGA    -       -      C     370           -
LGA    -       -      Q     371           -
LGA    -       -      Y     372           -
LGA    -       -      I     373           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)    5   90    5.0      5    0.46     0.00      5.556     0.886

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.791685 * X  +   0.161065 * Y  +   0.589316 * Z  +  14.129169
  Y_new =   0.353542 * X  +   0.907476 * Y  +   0.226925 * Z  + -38.200497
  Z_new =  -0.498241 * X  +   0.388001 * Y  +  -0.775378 * Z  +  49.300411 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.677623   -0.463969  [ DEG:   153.4165    -26.5835 ]
  Theta =   0.521569    2.620024  [ DEG:    29.8837    150.1163 ]
  Phi   =   2.721596   -0.419997  [ DEG:   155.9360    -24.0640 ]
 
# 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: T0316TS276_1-D3                               
REMARK     2: T0316_D3.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0316TS276_1-D3.T0316_D3.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:    5   90   5.0    5   0.46    0.00   5.556
REMARK  ---------------------------------------------------------- 
MOLECULE T0316TS276_1-D3
PFRMAT TS 
TARGET T0316
MODEL 1
PARENT 1K92_A
ATOM   5133  H   MET   284      24.677  22.986  -2.039  1.00  0.00               
ATOM   5135  N   MET   284      24.007  22.314  -2.008  1.00  0.00               
ATOM   5137  CA  MET   284      22.953  22.391  -0.964  1.00  0.00               
ATOM   5139  CB  MET   284      23.483  23.059   0.298  1.00  0.00               
ATOM   5141  C   MET   284      21.652  23.015  -1.445  1.00  0.00               
ATOM   5143  O   MET   284      20.574  22.745  -0.909  1.00  0.00               
ATOM   5145  CG  MET   284      22.521  23.020   1.471  1.00  0.00               
ATOM   5147  SD  MET   284      23.281  23.659   2.972  1.00  0.00               
ATOM   5149  CE  MET   284      24.379  22.301   3.384  1.00  0.00               
ATOM   5151  H   SER   285      22.596  23.955  -2.796  1.00  0.00               
ATOM   5153  N   SER   285      21.774  23.828  -2.437  1.00  0.00               
ATOM   5155  CA  SER   285      20.667  24.627  -2.945  1.00  0.00               
ATOM   5157  CB  SER   285      21.137  25.498  -4.114  1.00  0.00               
ATOM   5159  C   SER   285      19.513  23.761  -3.395  1.00  0.00               
ATOM   5161  O   SER   285      18.376  24.232  -3.485  1.00  0.00               
ATOM   5163  OG  SER   285      20.044  26.197  -4.686  1.00  0.00               
ATOM   5165  H   THR   286      20.640  22.162  -3.500  1.00  0.00               
ATOM   5167  N   THR   286      19.791  22.510  -3.692  1.00  0.00               
ATOM   5169  CA  THR   286      18.796  21.644  -4.282  1.00  0.00               
ATOM   5171  CB  THR   286      19.471  20.678  -5.271  1.00  0.00               
ATOM   5173  C   THR   286      18.109  20.831  -3.191  1.00  0.00               
ATOM   5175  O   THR   286      18.678  20.612  -2.120  1.00  0.00               
ATOM   5177  CG2 THR   286      18.433  19.826  -5.991  1.00  0.00               
ATOM   5179  OG1 THR   286      20.190  21.449  -6.239  1.00  0.00               
ATOM   5181  H   SER   287      16.541  20.453  -4.327  1.00  0.00               
ATOM   5183  N   SER   287      16.895  20.364  -3.466  1.00  0.00               
ATOM   5185  CA  SER   287      16.079  19.720  -2.441  1.00  0.00               
ATOM   5187  CB  SER   287      14.610  19.698  -2.865  1.00  0.00               
ATOM   5189  C   SER   287      16.540  18.305  -2.150  1.00  0.00               
ATOM   5191  O   SER   287      16.713  17.501  -3.065  1.00  0.00               
ATOM   5193  OG  SER   287      13.791  19.249  -1.799  1.00  0.00               
ATOM   5195  H   LEU   288      16.509  18.640  -0.207  1.00  0.00               
ATOM   5197  N   LEU   288      16.687  17.986  -0.867  1.00  0.00               
ATOM   5199  CA  LEU   288      17.055  16.641  -0.446  1.00  0.00               
ATOM   5201  CB  LEU   288      16.971  16.529   1.081  1.00  0.00               
ATOM   5203  C   LEU   288      16.140  15.600  -1.078  1.00  0.00               
ATOM   5205  O   LEU   288      15.053  15.361  -0.517  1.00  0.00               
ATOM   5207  OXT LEU   288      16.423  15.185  -2.221  1.00  0.00               
ATOM   5209  CG  LEU   288      17.353  15.174   1.691  1.00  0.00               
ATOM   5211  CD1 LEU   288      18.821  14.871   1.431  1.00  0.00               
ATOM   5213  CD2 LEU   288      17.057  15.162   3.182  1.00  0.00               
TER 
END
