
#######################################################
#                                                     #
#                        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   14 (  121),  selected   14 , name T0347TS105_5_2-D1
# Molecule2: number of CA atoms   89 (  730),  selected   89 , name T0347_D1.pdb
# PARAMETERS: T0347TS105_5_2-D1.T0347_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      P       7           -
LGA    -       -      R       8           -
LGA    -       -      L       9           -
LGA    -       -      S      10           -
LGA    -       -      R      11           -
LGA    -       -      I      12           -
LGA    -       -      A      13           -
LGA    -       -      I      14           -
LGA    -       -      D      15           -
LGA    -       -      K      16           -
LGA    -       -      L      17           -
LGA    -       -      R      18           -
LGA    -       -      P      19           -
LGA    -       -      T      20           -
LGA    -       -      Q      21           -
LGA    -       -      I      22           -
LGA    -       -      A      23           -
LGA    -       -      V      24           -
LGA    G      95      G      25          1.182
LGA    K      96      F      26          0.507
LGA    D      97      R      27          0.245
LGA    E      98      E      28          0.395
LGA    F      99      V      29          0.317
LGA    W     100      E      30          0.510
LGA    S     101      L      31          0.727
LGA    V     102      K      32          0.445
LGA    M     103      R      33          0.546
LGA    D     104      K      34          1.357
LGA    H     105      E      35          1.059
LGA    R     106      W      36          1.176
LGA    N     107      R      37          2.874
LGA    -       -      H      51           -
LGA    -       -      I      52           -
LGA    -       -      V      53           -
LGA    -       -      P      54           -
LGA    -       -      V      55           -
LGA    -       -      V      56           -
LGA    -       -      A      57           -
LGA    -       -      G      58           -
LGA    -       -      P      59           -
LGA    -       -      K      60           -
LGA    -       -      D      61           -
LGA    -       -      R      62           -
LGA    -       -      A      63           -
LGA    -       -      Y      64           -
LGA    -       -      L      65           -
LGA    -       -      I      66           -
LGA    -       -      D      67           -
LGA    -       -      H      68           -
LGA    -       -      H      69           -
LGA    -       -      H      70           -
LGA    -       -      L      71           -
LGA    -       -      V      72           -
LGA    -       -      L      73           -
LGA    -       -      A      74           -
LGA    -       -      L      75           -
LGA    -       -      S      76           -
LGA    -       -      K      77           -
LGA    L     108      E      78          4.670
LGA    -       -      G      79           -
LGA    -       -      V      80           -
LGA    -       -      E      81           -
LGA    -       -      H      82           -
LGA    -       -      V      83           -
LGA    -       -      L      84           -
LGA    -       -      T      85           -
LGA    -       -      S      86           -
LGA    -       -      E      87           -
LGA    -       -      V      88           -
LGA    -       -      A      89           -
LGA    -       -      K      90           -
LGA    -       -      F      91           -
LGA    -       -      S      92           -
LGA    -       -      H      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      K      96           -
LGA    -       -      D      97           -
LGA    -       -      E      98           -
LGA    -       -      F      99           -
LGA    -       -      W     100           -
LGA    -       -      S     101           -
LGA    -       -      V     102           -
LGA    -       -      M     103           -
LGA    -       -      D     104           -
LGA    -       -      H     105           -
LGA    -       -      R     106           -
LGA    -       -      N     107           -
LGA    -       -      L     108           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   14   89    5.0     14    1.64    14.29     15.035     0.804

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.370401 * X  +  -0.455765 * Y  +   0.809371 * Z  +  24.938942
  Y_new =   0.738349 * X  +  -0.673162 * Y  +  -0.041166 * Z  +   3.836742
  Z_new =   0.563600 * X  +   0.582350 * Y  +   0.585853 * Z  +  -8.880090 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.782400   -2.359193  [ DEG:    44.8282   -135.1718 ]
  Theta =  -0.598737   -2.542856  [ DEG:   -34.3051   -145.6949 ]
  Phi   =   2.035772   -1.105820  [ DEG:   116.6412    -63.3588 ]
 
# 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: T0347TS105_5_2-D1                             
REMARK     2: T0347_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS105_5_2-D1.T0347_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   14   89   5.0   14   1.64   14.29  15.035
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS105_5_2-D1
REMARK PARENT number 2
PFRMAT TS
TARGET T0347
PARENT 1vz0_A
ATOM    768  N   GLY    95       9.333  53.753  -4.532  1.00 85.64       1SG 769
ATOM    769  CA  GLY    95       9.214  52.519  -5.247  1.00 85.64       1SG 770
ATOM    770  C   GLY    95       8.487  52.755  -6.530  1.00 85.64       1SG 771
ATOM    771  O   GLY    95       8.836  52.181  -7.559  1.00 85.64       1SG 772
ATOM    772  N   LYS    96       7.447  53.604  -6.505  1.00125.01       1SG 773
ATOM    773  CA  LYS    96       6.671  53.825  -7.688  1.00125.01       1SG 774
ATOM    774  CB  LYS    96       5.475  54.766  -7.455  1.00125.01       1SG 775
ATOM    775  CG  LYS    96       4.626  54.994  -8.708  1.00125.01       1SG 776
ATOM    776  CD  LYS    96       3.230  55.549  -8.415  1.00125.01       1SG 777
ATOM    777  CE  LYS    96       2.208  54.462  -8.069  1.00125.01       1SG 778
ATOM    778  NZ  LYS    96       2.000  53.575  -9.238  1.00125.01       1SG 779
ATOM    779  C   LYS    96       7.566  54.424  -8.722  1.00125.01       1SG 780
ATOM    780  O   LYS    96       7.497  54.078  -9.900  1.00125.01       1SG 781
ATOM    781  N   ASP    97       8.448  55.342  -8.294  1.00 38.53       1SG 782
ATOM    782  CA  ASP    97       9.339  56.003  -9.199  1.00 38.53       1SG 783
ATOM    783  CB  ASP    97      10.246  56.998  -8.461  1.00 38.53       1SG 784
ATOM    784  CG  ASP    97       9.336  58.012  -7.790  1.00 38.53       1SG 785
ATOM    785  OD1 ASP    97       8.194  58.194  -8.288  1.00 38.53       1SG 786
ATOM    786  OD2 ASP    97       9.760  58.610  -6.765  1.00 38.53       1SG 787
ATOM    787  C   ASP    97      10.240  54.970  -9.794  1.00 38.53       1SG 788
ATOM    788  O   ASP    97      10.467  54.938 -11.004  1.00 38.53       1SG 789
ATOM    789  N   GLU    98      10.766  54.076  -8.939  1.00 60.28       1SG 790
ATOM    790  CA  GLU    98      11.684  53.071  -9.380  1.00 60.28       1SG 791
ATOM    791  CB  GLU    98      12.218  52.213  -8.221  1.00 60.28       1SG 792
ATOM    792  CG  GLU    98      13.096  52.993  -7.239  1.00 60.28       1SG 793
ATOM    793  CD  GLU    98      14.406  53.315  -7.942  1.00 60.28       1SG 794
ATOM    794  OE1 GLU    98      14.553  52.904  -9.124  1.00 60.28       1SG 795
ATOM    795  OE2 GLU    98      15.278  53.972  -7.311  1.00 60.28       1SG 796
ATOM    796  C   GLU    98      10.975  52.157 -10.321  1.00 60.28       1SG 797
ATOM    797  O   GLU    98      11.529  51.743 -11.338  1.00 60.28       1SG 798
ATOM    798  N   PHE    99       9.713  51.825 -10.006  1.00 79.88       1SG 799
ATOM    799  CA  PHE    99       8.985  50.888 -10.805  1.00 79.88       1SG 800
ATOM    800  CB  PHE    99       7.606  50.543 -10.226  1.00 79.88       1SG 801
ATOM    801  CG  PHE    99       7.104  49.388 -11.022  1.00 79.88       1SG 802
ATOM    802  CD1 PHE    99       7.469  48.101 -10.691  1.00 79.88       1SG 803
ATOM    803  CD2 PHE    99       6.277  49.590 -12.103  1.00 79.88       1SG 804
ATOM    804  CE1 PHE    99       7.010  47.030 -11.422  1.00 79.88       1SG 805
ATOM    805  CE2 PHE    99       5.816  48.525 -12.840  1.00 79.88       1SG 806
ATOM    806  CZ  PHE    99       6.183  47.246 -12.498  1.00 79.88       1SG 807
ATOM    807  C   PHE    99       8.791  51.460 -12.173  1.00 79.88       1SG 808
ATOM    808  O   PHE    99       8.927  50.758 -13.173  1.00 79.88       1SG 809
ATOM    809  N   TRP   100       8.475  52.763 -12.253  1.00 68.95       1SG 810
ATOM    810  CA  TRP   100       8.226  53.381 -13.518  1.00 68.95       1SG 811
ATOM    811  CB  TRP   100       7.898  54.872 -13.387  1.00 68.95       1SG 812
ATOM    812  CG  TRP   100       6.602  55.132 -12.670  1.00 68.95       1SG 813
ATOM    813  CD2 TRP   100       5.475  54.248 -12.731  1.00 68.95       1SG 814
ATOM    814  CD1 TRP   100       6.253  56.149 -11.832  1.00 68.95       1SG 815
ATOM    815  NE1 TRP   100       4.960  55.975 -11.403  1.00 68.95       1SG 816
ATOM    816  CE2 TRP   100       4.472  54.803 -11.940  1.00 68.95       1SG 817
ATOM    817  CE3 TRP   100       5.296  53.061 -13.378  1.00 68.95       1SG 818
ATOM    818  CZ2 TRP   100       3.266  54.182 -11.793  1.00 68.95       1SG 819
ATOM    819  CZ3 TRP   100       4.073  52.442 -13.243  1.00 68.95       1SG 820
ATOM    820  CH2 TRP   100       3.076  52.995 -12.465  1.00 68.95       1SG 821
ATOM    821  C   TRP   100       9.457  53.270 -14.358  1.00 68.95       1SG 822
ATOM    822  O   TRP   100       9.389  52.911 -15.533  1.00 68.95       1SG 823
ATOM    823  N   SER   101      10.628  53.563 -13.767  1.00 67.85       1SG 824
ATOM    824  CA  SER   101      11.849  53.521 -14.513  1.00 67.85       1SG 825
ATOM    825  CB  SER   101      13.073  53.921 -13.670  1.00 67.85       1SG 826
ATOM    826  OG  SER   101      14.253  53.860 -14.456  1.00 67.85       1SG 827
ATOM    827  C   SER   101      12.058  52.117 -14.983  1.00 67.85       1SG 828
ATOM    828  O   SER   101      12.517  51.887 -16.101  1.00 67.85       1SG 829
ATOM    829  N   VAL   102      11.712  51.133 -14.138  1.00 35.12       1SG 830
ATOM    830  CA  VAL   102      11.916  49.761 -14.497  1.00 35.12       1SG 831
ATOM    831  CB  VAL   102      11.502  48.803 -13.419  1.00 35.12       1SG 832
ATOM    832  CG1 VAL   102      11.665  47.374 -13.962  1.00 35.12       1SG 833
ATOM    833  CG2 VAL   102      12.325  49.088 -12.152  1.00 35.12       1SG 834
ATOM    834  C   VAL   102      11.086  49.432 -15.695  1.00 35.12       1SG 835
ATOM    835  O   VAL   102      11.566  48.799 -16.634  1.00 35.12       1SG 836
ATOM    836  N   MET   103       9.816  49.877 -15.706  1.00121.66       1SG 837
ATOM    837  CA  MET   103       8.919  49.509 -16.763  1.00121.66       1SG 838
ATOM    838  CB  MET   103       7.502  50.084 -16.589  1.00121.66       1SG 839
ATOM    839  CG  MET   103       6.610  49.316 -15.609  1.00121.66       1SG 840
ATOM    840  SD  MET   103       6.125  47.673 -16.228  1.00121.66       1SG 841
ATOM    841  CE  MET   103       4.565  47.507 -15.310  1.00121.66       1SG 842
ATOM    842  C   MET   103       9.416  49.994 -18.082  1.00121.66       1SG 843
ATOM    843  O   MET   103       9.399  49.244 -19.057  1.00121.66       1SG 844
ATOM    844  N   ASP   104       9.882  51.253 -18.168  1.00109.83       1SG 845
ATOM    845  CA  ASP   104      10.260  51.696 -19.475  1.00109.83       1SG 846
ATOM    846  CB  ASP   104      10.654  53.184 -19.555  1.00109.83       1SG 847
ATOM    847  CG  ASP   104      11.872  53.438 -18.685  1.00109.83       1SG 848
ATOM    848  OD1 ASP   104      13.013  53.276 -19.194  1.00109.83       1SG 849
ATOM    849  OD2 ASP   104      11.674  53.826 -17.503  1.00109.83       1SG 850
ATOM    850  C   ASP   104      11.403  50.874 -19.970  1.00109.83       1SG 851
ATOM    851  O   ASP   104      11.360  50.348 -21.081  1.00109.83       1SG 852
ATOM    852  N   HIS   105      12.449  50.702 -19.145  1.00 42.22       1SG 853
ATOM    853  CA  HIS   105      13.576  49.972 -19.639  1.00 42.22       1SG 854
ATOM    854  ND1 HIS   105      16.322  51.845 -19.284  1.00 42.22       1SG 855
ATOM    855  CG  HIS   105      15.389  51.283 -18.440  1.00 42.22       1SG 856
ATOM    856  CB  HIS   105      14.761  49.940 -18.659  1.00 42.22       1SG 857
ATOM    857  NE2 HIS   105      16.003  53.298 -17.632  1.00 42.22       1SG 858
ATOM    858  CD2 HIS   105      15.207  52.184 -17.436  1.00 42.22       1SG 859
ATOM    859  CE1 HIS   105      16.654  53.049 -18.754  1.00 42.22       1SG 860
ATOM    860  C   HIS   105      13.200  48.551 -19.908  1.00 42.22       1SG 861
ATOM    861  O   HIS   105      13.436  48.037 -21.000  1.00 42.22       1SG 862
ATOM    862  N   ARG   106      12.582  47.874 -18.921  1.00165.12       1SG 863
ATOM    863  CA  ARG   106      12.353  46.472 -19.104  1.00165.12       1SG 864
ATOM    864  CB  ARG   106      11.682  45.834 -17.875  1.00165.12       1SG 865
ATOM    865  CG  ARG   106      11.427  44.331 -17.994  1.00165.12       1SG 866
ATOM    866  CD  ARG   106      10.893  43.719 -16.696  1.00165.12       1SG 867
ATOM    867  NE  ARG   106       9.524  44.266 -16.468  1.00165.12       1SG 868
ATOM    868  CZ  ARG   106       9.028  44.381 -15.201  1.00165.12       1SG 869
ATOM    869  NH1 ARG   106       9.788  44.006 -14.131  1.00165.12       1SG 870
ATOM    870  NH2 ARG   106       7.773  44.880 -15.003  1.00165.12       1SG 871
ATOM    871  C   ARG   106      11.470  46.238 -20.280  1.00165.12       1SG 872
ATOM    872  O   ARG   106      11.918  45.714 -21.297  1.00165.12       1SG 873
ATOM    873  N   ASN   107      10.202  46.686 -20.193  1.00188.69       1SG 874
ATOM    874  CA  ASN   107       9.292  46.496 -21.281  1.00188.69       1SG 875
ATOM    875  CB  ASN   107       8.694  45.080 -21.360  1.00188.69       1SG 876
ATOM    876  CG  ASN   107       9.770  44.098 -21.800  1.00188.69       1SG 877
ATOM    877  OD1 ASN   107      10.166  43.218 -21.039  1.00188.69       1SG 878
ATOM    878  ND2 ASN   107      10.263  44.257 -23.058  1.00188.69       1SG 879
ATOM    879  C   ASN   107       8.141  47.404 -21.039  1.00188.69       1SG 880
ATOM    880  O   ASN   107       7.349  47.178 -20.128  1.00188.69       1SG 881
ATOM    881  N   LEU   108       8.001  48.465 -21.851  1.00211.13       1SG 882
ATOM    882  CA  LEU   108       6.848  49.264 -21.609  1.00211.13       1SG 883
ATOM    883  CB  LEU   108       7.140  50.663 -21.046  1.00211.13       1SG 884
ATOM    884  CG  LEU   108       5.848  51.477 -20.851  1.00211.13       1SG 885
ATOM    885  CD1 LEU   108       5.384  52.173 -22.141  1.00211.13       1SG 886
ATOM    886  CD2 LEU   108       4.740  50.566 -20.294  1.00211.13       1SG 887
ATOM    887  C   LEU   108       6.098  49.427 -22.876  1.00211.13       1SG 888
ATOM    888  O   LEU   108       6.486  50.213 -23.736  1.00211.13       1SG 889
TER
END
