
#######################################################
#                                                     #
#                        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   13 (  104),  selected   13 , name T0299TS490_1_2-D1
# Molecule2: number of CA atoms   91 (  726),  selected   91 , name T0299_D1.pdb
# PARAMETERS: T0299TS490_1_2-D1.T0299_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      T       2           -
LGA    -       -      R       3           -
LGA    -       -      Y       4           -
LGA    -       -      A       5           -
LGA    -       -      L       6           -
LGA    -       -      L       7           -
LGA    -       -      V       8           -
LGA    -       -      R       9           -
LGA    -       -      G      10           -
LGA    -       -      I      11           -
LGA    -       -      N      12           -
LGA    -       -      V      13           -
LGA    -       -      G      14           -
LGA    -       -      G      15           -
LGA    -       -      K      16           -
LGA    -       -      N      17           -
LGA    -       -      K      18           -
LGA    -       -      V      19           -
LGA    -       -      V      20           -
LGA    -       -      M      21           -
LGA    -       -      A      22           -
LGA    -       -      E      23           -
LGA    -       -      L      24           -
LGA    -       -      R      25           -
LGA    -       -      Q      26           -
LGA    -       -      E      27           -
LGA    -       -      L      28           -
LGA    -       -      T      29           -
LGA    -       -      N      30           -
LGA    -       -      L      31           -
LGA    -       -      G      32           -
LGA    -       -      L      33           -
LGA    -       -      E      34           -
LGA    -       -      K      35           -
LGA    -       -      V      36           -
LGA    -       -      E      37           -
LGA    -       -      S      38           -
LGA    -       -      Y      39           -
LGA    -       -      I      40           -
LGA    -       -      N      41           -
LGA    -       -      S      42           -
LGA    -       -      G      43           -
LGA    -       -      N      44           -
LGA    -       -      I      45           -
LGA    -       -      F      46           -
LGA    -       -      F      47           -
LGA    -       -      T      48           -
LGA    -       -      S      49           -
LGA    -       -      I      50           -
LGA    -       -      D      51           -
LGA    -       -      S      52           -
LGA    -       -      K      53           -
LGA    -       -      A      54           -
LGA    A     168      Q      55          1.325
LGA    K     169      L      56          0.629
LGA    T     170      V      57          0.505
LGA    F     171      E      58          0.279
LGA    D     172      K      59          0.318
LGA    K     173      L      60          1.045
LGA    I     174      E      61          1.165
LGA    G     175      T      62          0.583
LGA    Q     176      F      63          0.504
LGA    M     177      F      64          1.040
LGA    L     178      A      65          2.476
LGA    K     179      -       -           -
LGA    K     180      V      66          1.165
LGA    -       -      H      67           -
LGA    -       -      Y      68           -
LGA    -       -      P      69           -
LGA    -       -      F      70           -
LGA    -       -      I      71           -
LGA    -       -      Q      72           -
LGA    -       -      S      73           -
LGA    -       -      F      74           -
LGA    -       -      S      75           -
LGA    -       -      L      76           -
LGA    -       -      L      77           -
LGA    -       -      S      78           -
LGA    -       -      A     168           -
LGA    -       -      K     169           -
LGA    -       -      T     170           -
LGA    -       -      F     171           -
LGA    -       -      D     172           -
LGA    -       -      K     173           -
LGA    -       -      I     174           -
LGA    -       -      G     175           -
LGA    -       -      Q     176           -
LGA    -       -      M     177           -
LGA    -       -      L     178           -
LGA    -       -      K     179           -
LGA    -       -      K     180           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   13   91    5.0     12    1.09     0.00     12.854     1.010

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.479886 * X  +  -0.790741 * Y  +  -0.380051 * Z  +  10.103848
  Y_new =   0.829348 * X  +  -0.550164 * Y  +   0.097475 * Z  +  17.078260
  Z_new =  -0.286168 * X  +  -0.268418 * Y  +   0.919815 * Z  + -29.899387 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.283932    2.857660  [ DEG:   -16.2681    163.7319 ]
  Theta =   0.290225    2.851368  [ DEG:    16.6287    163.3714 ]
  Phi   =   2.095355   -1.046238  [ DEG:   120.0550    -59.9450 ]
 
# 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: T0299TS490_1_2-D1                             
REMARK     2: T0299_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0299TS490_1_2-D1.T0299_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   13   91   5.0   12   1.09    0.00  12.854
REMARK  ---------------------------------------------------------- 
MOLECULE T0299TS490_1_2-D1
REMARK PARENT number 2
PFRMAT     TS
TARGET     T0299
PARENT     1zzmA
ATOM    659  N   ALA   168     -15.789  48.535   7.934  1.00   .37       1SG 660
ATOM    660  CA  ALA   168     -15.160  47.533   8.748  1.00   .37       1SG 661
ATOM    661  CB  ALA   168     -16.099  46.350   9.033  1.00   .37       1SG 662
ATOM    662  C   ALA   168     -13.976  46.973   8.018  1.00   .37       1SG 663
ATOM    663  O   ALA   168     -13.475  45.909   8.376  1.00   .37       1SG 664
ATOM    664  N   LYS   169     -13.483  47.672   6.983  1.00   .72       1SG 665
ATOM    665  CA  LYS   169     -12.458  47.115   6.145  1.00   .72       1SG 666
ATOM    666  CB  LYS   169     -12.045  48.075   5.016  1.00   .72       1SG 667
ATOM    667  CG  LYS   169     -11.336  49.331   5.525  1.00   .72       1SG 668
ATOM    668  CD  LYS   169     -12.173  50.157   6.505  1.00   .72       1SG 669
ATOM    669  CE  LYS   169     -11.440  51.381   7.060  1.00   .72       1SG 670
ATOM    670  NZ  LYS   169     -11.345  52.428   6.018  1.00   .72       1SG 671
ATOM    671  C   LYS   169     -11.217  46.797   6.920  1.00   .72       1SG 672
ATOM    672  O   LYS   169     -10.642  45.719   6.764  1.00   .72       1SG 673
ATOM    673  N   THR   170     -10.779  47.716   7.795  1.00   .70       1SG 674
ATOM    674  CA  THR   170      -9.521  47.545   8.460  1.00   .70       1SG 675
ATOM    675  CB  THR   170      -9.148  48.725   9.313  1.00   .70       1SG 676
ATOM    676  OG1 THR   170      -7.806  48.600   9.757  1.00   .70       1SG 677
ATOM    677  CG2 THR   170     -10.105  48.812  10.515  1.00   .70       1SG 678
ATOM    678  C   THR   170      -9.516  46.320   9.317  1.00   .70       1SG 679
ATOM    679  O   THR   170      -8.553  45.552   9.299  1.00   .70       1SG 680
ATOM    680  N   PHE   171     -10.592  46.063  10.078  1.00   .46       1SG 681
ATOM    681  CA  PHE   171     -10.486  44.945  10.965  1.00   .46       1SG 682
ATOM    682  CB  PHE   171     -11.083  45.253  12.341  1.00   .46       1SG 683
ATOM    683  CG  PHE   171     -12.351  45.983  12.093  1.00   .46       1SG 684
ATOM    684  CD1 PHE   171     -13.526  45.332  11.805  1.00   .46       1SG 685
ATOM    685  CD2 PHE   171     -12.339  47.358  12.149  1.00   .46       1SG 686
ATOM    686  CE1 PHE   171     -14.674  46.058  11.590  1.00   .46       1SG 687
ATOM    687  CE2 PHE   171     -13.485  48.085  11.934  1.00   .46       1SG 688
ATOM    688  CZ  PHE   171     -14.658  47.429  11.651  1.00   .46       1SG 689
ATOM    689  C   PHE   171     -11.106  43.718  10.390  1.00   .46       1SG 690
ATOM    690  O   PHE   171     -10.963  42.632  10.950  1.00   .46       1SG 691
ATOM    691  N   ASP   172     -11.794  43.819   9.246  1.00   .42       1SG 692
ATOM    692  CA  ASP   172     -12.202  42.578   8.674  1.00   .42       1SG 693
ATOM    693  CB  ASP   172     -13.279  42.713   7.588  1.00   .42       1SG 694
ATOM    694  CG  ASP   172     -14.568  42.990   8.353  1.00   .42       1SG 695
ATOM    695  OD1 ASP   172     -14.516  43.796   9.319  1.00   .42       1SG 696
ATOM    696  OD2 ASP   172     -15.619  42.396   7.993  1.00   .42       1SG 697
ATOM    697  C   ASP   172     -10.949  41.983   8.130  1.00   .42       1SG 698
ATOM    698  O   ASP   172     -10.753  40.768   8.135  1.00   .42       1SG 699
ATOM    699  N   LYS   173     -10.049  42.869   7.665  1.00   .63       1SG 700
ATOM    700  CA  LYS   173      -8.788  42.470   7.119  1.00   .63       1SG 701
ATOM    701  CB  LYS   173      -7.962  43.667   6.600  1.00   .63       1SG 702
ATOM    702  CG  LYS   173      -6.661  43.309   5.866  1.00   .63       1SG 703
ATOM    703  CD  LYS   173      -5.589  42.644   6.736  1.00   .63       1SG 704
ATOM    704  CE  LYS   173      -4.368  42.157   5.955  1.00   .63       1SG 705
ATOM    705  NZ  LYS   173      -3.394  41.533   6.879  1.00   .63       1SG 706
ATOM    706  C   LYS   173      -7.998  41.799   8.194  1.00   .63       1SG 707
ATOM    707  O   LYS   173      -7.361  40.772   7.959  1.00   .63       1SG 708
ATOM    708  N   ILE   174      -8.029  42.352   9.418  1.00   .61       1SG 709
ATOM    709  CA  ILE   174      -7.196  41.810  10.449  1.00   .61       1SG 710
ATOM    710  CB  ILE   174      -7.253  42.574  11.745  1.00   .61       1SG 711
ATOM    711  CG2 ILE   174      -8.639  42.373  12.375  1.00   .61       1SG 712
ATOM    712  CG1 ILE   174      -6.102  42.139  12.667  1.00   .61       1SG 713
ATOM    713  CD1 ILE   174      -4.718  42.524  12.143  1.00   .61       1SG 714
ATOM    714  C   ILE   174      -7.584  40.396  10.728  1.00   .61       1SG 715
ATOM    715  O   ILE   174      -6.720  39.546  10.925  1.00   .61       1SG 716
ATOM    716  N   GLY   175      -8.894  40.086  10.734  1.00   .47       1SG 717
ATOM    717  CA  GLY   175      -9.226  38.751  11.128  1.00   .47       1SG 718
ATOM    718  C   GLY   175      -9.500  37.867   9.959  1.00   .47       1SG 719
ATOM    719  O   GLY   175      -9.723  36.672  10.147  1.00   .47       1SG 720
ATOM    720  N   GLN   176      -9.464  38.364   8.710  1.00   .69       1SG 721
ATOM    721  CA  GLN   176      -9.833  37.379   7.741  1.00   .69       1SG 722
ATOM    722  CB  GLN   176     -10.785  37.908   6.651  1.00   .69       1SG 723
ATOM    723  CG  GLN   176     -10.192  38.934   5.692  1.00   .69       1SG 724
ATOM    724  CD  GLN   176      -9.694  38.171   4.475  1.00   .69       1SG 725
ATOM    725  OE1 GLN   176      -9.224  38.765   3.507  1.00   .69       1SG 726
ATOM    726  NE2 GLN   176      -9.813  36.817   4.510  1.00   .69       1SG 727
ATOM    727  C   GLN   176      -8.612  36.837   7.112  1.00   .69       1SG 728
ATOM    728  O   GLN   176      -8.353  35.637   7.127  1.00   .69       1SG 729
ATOM    729  N   MET   177      -7.794  37.722   6.561  1.00   .89       1SG 730
ATOM    730  CA  MET   177      -6.611  37.215   5.973  1.00   .89       1SG 731
ATOM    731  CB  MET   177      -5.929  38.256   5.118  1.00   .89       1SG 732
ATOM    732  CG  MET   177      -6.073  39.681   5.652  1.00   .89       1SG 733
ATOM    733  SD  MET   177      -7.605  40.487   5.116  1.00   .89       1SG 734
ATOM    734  CE  MET   177      -6.962  41.077   3.525  1.00   .89       1SG 735
ATOM    735  C   MET   177      -5.666  36.845   7.053  1.00   .89       1SG 736
ATOM    736  O   MET   177      -5.614  35.696   7.490  1.00   .89       1SG 737
ATOM    737  N   LEU   178      -4.898  37.870   7.466  1.00   .81       1SG 738
ATOM    738  CA  LEU   178      -3.838  37.876   8.424  1.00   .81       1SG 739
ATOM    739  CB  LEU   178      -3.767  39.212   9.196  1.00   .81       1SG 740
ATOM    740  CG  LEU   178      -2.644  39.329  10.253  1.00   .81       1SG 741
ATOM    741  CD2 LEU   178      -1.270  39.039   9.627  1.00   .81       1SG 742
ATOM    742  CD1 LEU   178      -2.915  38.488  11.512  1.00   .81       1SG 743
ATOM    743  C   LEU   178      -3.964  36.746   9.391  1.00   .81       1SG 744
ATOM    744  O   LEU   178      -2.993  36.033   9.635  1.00   .81       1SG 745
ATOM    745  N   LYS   179      -5.170  36.512   9.938  1.00   .67       1SG 746
ATOM    746  CA  LYS   179      -5.250  35.478  10.925  1.00   .67       1SG 747
ATOM    747  CB  LYS   179      -6.095  35.883  12.151  1.00   .67       1SG 748
ATOM    748  CG  LYS   179      -7.460  36.494  11.822  1.00   .67       1SG 749
ATOM    749  CD  LYS   179      -8.394  36.586  13.031  1.00   .67       1SG 750
ATOM    750  CE  LYS   179      -7.944  37.605  14.081  1.00   .67       1SG 751
ATOM    751  NZ  LYS   179      -8.902  37.625  15.210  1.00   .67       1SG 752
ATOM    752  C   LYS   179      -5.815  34.234  10.316  1.00   .67       1SG 753
ATOM    753  O   LYS   179      -5.069  33.438   9.746  1.00   .67       1SG 754
ATOM    754  N   LYS   180      -7.145  34.045  10.465  1.00   .55       1SG 755
ATOM    755  CA  LYS   180      -7.939  32.932  10.018  1.00   .55       1SG 756
ATOM    756  CB  LYS   180      -9.392  33.330   9.710  1.00   .55       1SG 757
ATOM    757  CG  LYS   180     -10.095  33.898  10.945  1.00   .55       1SG 758
ATOM    758  CD  LYS   180     -10.043  32.957  12.152  1.00   .55       1SG 759
ATOM    759  CE  LYS   180     -10.495  33.608  13.460  1.00   .55       1SG 760
ATOM    760  NZ  LYS   180     -10.269  32.680  14.592  1.00   .55       1SG 761
ATOM    761  C   LYS   180      -7.349  32.269   8.815  1.00   .55       1SG 762
ATOM    762  O   LYS   180      -7.319  31.040   8.741  1.00   .55       1SG 763
TER
END
