
#######################################################
#                                                     #
#                        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   19 (  153),  selected   19 , name T0381TS319_2-D2
# Molecule2: number of CA atoms  176 ( 1314),  selected  176 , name T0381_D2.pdb
# PARAMETERS: T0381TS319_2-D2.T0381_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      L      90           -
LGA    -       -      S      91           -
LGA    -       -      L      92           -
LGA    -       -      P      93           -
LGA    -       -      E      94           -
LGA    -       -      V      95           -
LGA    -       -      A      96           -
LGA    -       -      Q      97           -
LGA    -       -      P      98           -
LGA    -       -      H      99           -
LGA    -       -      L     100           -
LGA    -       -      E     101           -
LGA    -       -      K     102           -
LGA    -       -      L     103           -
LGA    -       -      S     104           -
LGA    -       -      H     105           -
LGA    -       -      K     106           -
LGA    -       -      V     107           -
LGA    -       -      H     108           -
LGA    -       -      E     109           -
LGA    -       -      S     110           -
LGA    -       -      S     111           -
LGA    -       -      S     112           -
LGA    -       -      V     113           -
LGA    -       -      S     114           -
LGA    -       -      I     115           -
LGA    -       -      L     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      A     119           -
LGA    -       -      D     120           -
LGA    -       -      I     121           -
LGA    -       -      V     122           -
LGA    -       -      Y     123           -
LGA    -       -      V     124           -
LGA    -       -      A     125           -
LGA    -       -      R     126           -
LGA    -       -      V     127           -
LGA    -       -      P     128           -
LGA    -       -      V     129           -
LGA    -       -      S     130           -
LGA    -       -      R     131           -
LGA    -       -      I     132           -
LGA    -       -      M     133           -
LGA    -       -      T     134           -
LGA    -       -      V     135           -
LGA    -       -      G     136           -
LGA    -       -      I     137           -
LGA    -       -      T     138           -
LGA    -       -      I     139           -
LGA    -       -      G     140           -
LGA    -       -      T     141           -
LGA    -       -      R     142           -
LGA    -       -      L     143           -
LGA    -       -      P     144           -
LGA    -       -      A     145           -
LGA    -       -      Y     146           -
LGA    -       -      A     147           -
LGA    -       -      T     148           -
LGA    -       -      S     149           -
LGA    -       -      M     150           -
LGA    -       -      G     151           -
LGA    -       -      R     152           -
LGA    -       -      V     153           -
LGA    -       -      L     154           -
LGA    -       -      L     155           -
LGA    -       -      A     156           -
LGA    -       -      G     157           -
LGA    -       -      L     158           -
LGA    -       -      P     159           -
LGA    -       -      D     160           -
LGA    -       -      D     161           -
LGA    -       -      E     162           -
LGA    -       -      L     163           -
LGA    -       -      D     164           -
LGA    -       -      A     165           -
LGA    -       -      Y     166           -
LGA    -       -      L     167           -
LGA    -       -      E     168           -
LGA    -       -      K     169           -
LGA    -       -      L     170           -
LGA    -       -      D     171           -
LGA    -       -      I     172           -
LGA    -       -      Q     173           -
LGA    -       -      R     174           -
LGA    -       -      L     175           -
LGA    -       -      T     176           -
LGA    -       -      E     177           -
LGA    -       -      R     178           -
LGA    -       -      T     179           -
LGA    -       -      I     180           -
LGA    -       -      T     181           -
LGA    -       -      A     182           -
LGA    -       -      R     183           -
LGA    -       -      D     184           -
LGA    -       -      E     185           -
LGA    -       -      L     186           -
LGA    -       -      K     187           -
LGA    -       -      A     188           -
LGA    -       -      A     189           -
LGA    -       -      I     190           -
LGA    -       -      L     191           -
LGA    -       -      A     192           -
LGA    -       -      V     193           -
LGA    -       -      R     194           -
LGA    -       -      A     195           -
LGA    -       -      D     196           -
LGA    -       -      G     197           -
LGA    -       -      I     198           -
LGA    -       -      C     199           -
LGA    -       -      V     200           -
LGA    -       -      L     201           -
LGA    -       -      D     202           -
LGA    -       -      Q     203           -
LGA    -       -      E     204           -
LGA    -       -      L     205           -
LGA    -       -      E     206           -
LGA    -       -      A     207           -
LGA    -       -      G     208           -
LGA    -       -      L     209           -
LGA    -       -      R     210           -
LGA    -       -      S     211           -
LGA    -       -      M     212           -
LGA    -       -      A     213           -
LGA    -       -      A     214           -
LGA    -       -      P     215           -
LGA    -       -      I     216           -
LGA    -       -      R     217           -
LGA    -       -      G     218           -
LGA    -       -      A     219           -
LGA    -       -      S     220           -
LGA    -       -      G     221           -
LGA    -       -      L     222           -
LGA    -       -      T     223           -
LGA    -       -      V     224           -
LGA    -       -      A     225           -
LGA    -       -      A     226           -
LGA    -       -      V     227           -
LGA    -       -      N     228           -
LGA    -       -      I     229           -
LGA    -       -      S     230           -
LGA    -       -      T     231           -
LGA    -       -      P     232           -
LGA    -       -      A     233           -
LGA    -       -      A     234           -
LGA    -       -      R     235           -
LGA    -       -      Y     236           -
LGA    -       -      S     237           -
LGA    -       -      L     238           -
LGA    L      90      E     239          4.046
LGA    S      91      D     240          1.485
LGA    L      92      L     241          1.685
LGA    P      93      H     242          0.660
LGA    E      94      S     243          2.738
LGA    -       -      D     244           -
LGA    V      95      L     245          0.919
LGA    A      96      I     246          1.417
LGA    Q      97      P     247          2.220
LGA    P      98      S     248          1.320
LGA    H      99      L     249          0.792
LGA    L     100      R     250          1.673
LGA    E     101      V     251          1.097
LGA    K     102      T     252          0.442
LGA    L     103      A     253          0.938
LGA    S     104      T     254          0.868
LGA    H     105      D     255          0.884
LGA    K     106      I     256          1.137
LGA    V     107      E     257          1.268
LGA    H     108      Q     258          2.240
LGA    -       -      D     259           -
LGA    -       -      L     260           -
LGA    -       -      A     261           -
LGA    -       -      T     262           -
LGA    -       -      V     263           -
LGA    -       -      N     264           -
LGA    -       -      R     265           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   19  176    5.0     19    1.69     5.26     10.053     1.064

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.395515 * X  +  -0.790553 * Y  +   0.467540 * Z  + -14.277658
  Y_new =   0.730991 * X  +  -0.037252 * Y  +  -0.681370 * Z  +  -3.742126
  Z_new =   0.556076 * X  +   0.611259 * Y  +   0.563154 * Z  +  14.949739 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.826337   -2.315256  [ DEG:    47.3456   -132.6544 ]
  Theta =  -0.589657   -2.551936  [ DEG:   -33.7849   -146.2151 ]
  Phi   =   1.074838   -2.066755  [ DEG:    61.5837   -118.4163 ]
 
# 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: T0381TS319_2-D2                               
REMARK     2: T0381_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS319_2-D2.T0381_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   19  176   5.0   19   1.69    5.26  10.053
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS319_2-D2
PFRMAT TS
TARGET T0381
MODEL 2
PARENT N/A
ATOM    564  N   LEU    90      -9.628  17.805  42.509  1.00120.55       1SG 565
ATOM    565  CA  LEU    90      -9.386  19.158  42.099  1.00120.55       1SG 566
ATOM    566  CB  LEU    90      -9.983  20.177  43.094  1.00120.55       1SG 567
ATOM    567  CG  LEU    90      -9.846  21.652  42.662  1.00120.55       1SG 568
ATOM    568  CD2 LEU    90     -10.207  22.609  43.811  1.00120.55       1SG 569
ATOM    569  CD1 LEU    90     -10.658  21.943  41.388  1.00120.55       1SG 570
ATOM    570  C   LEU    90      -7.915  19.422  41.994  1.00120.55       1SG 571
ATOM    571  O   LEU    90      -7.464  20.077  41.055  1.00120.55       1SG 572
ATOM    572  N   SER    91      -7.120  18.914  42.950  1.00 71.73       1SG 573
ATOM    573  CA  SER    91      -5.724  19.238  42.950  1.00 71.73       1SG 574
ATOM    574  CB  SER    91      -4.975  18.740  44.197  1.00 71.73       1SG 575
ATOM    575  OG  SER    91      -4.964  17.322  44.229  1.00 71.73       1SG 576
ATOM    576  C   SER    91      -5.058  18.658  41.746  1.00 71.73       1SG 577
ATOM    577  O   SER    91      -4.090  19.223  41.238  1.00 71.73       1SG 578
ATOM    578  N   LEU    92      -5.561  17.518  41.240  1.00103.41       1SG 579
ATOM    579  CA  LEU    92      -4.887  16.913  40.132  1.00103.41       1SG 580
ATOM    580  CB  LEU    92      -5.533  15.556  39.746  1.00103.41       1SG 581
ATOM    581  CG  LEU    92      -4.784  14.675  38.719  1.00103.41       1SG 582
ATOM    582  CD2 LEU    92      -4.293  15.450  37.485  1.00103.41       1SG 583
ATOM    583  CD1 LEU    92      -5.637  13.453  38.344  1.00103.41       1SG 584
ATOM    584  C   LEU    92      -4.919  17.890  38.987  1.00103.41       1SG 585
ATOM    585  O   LEU    92      -3.860  18.197  38.439  1.00103.41       1SG 586
ATOM    586  N   PRO    93      -6.047  18.437  38.595  1.00161.47       1SG 587
ATOM    587  CA  PRO    93      -5.941  19.397  37.542  1.00161.47       1SG 588
ATOM    588  CD  PRO    93      -7.238  17.629  38.388  1.00161.47       1SG 589
ATOM    589  CB  PRO    93      -7.338  19.576  36.958  1.00161.47       1SG 590
ATOM    590  CG  PRO    93      -7.956  18.187  37.148  1.00161.47       1SG 591
ATOM    591  C   PRO    93      -5.263  20.669  37.915  1.00161.47       1SG 592
ATOM    592  O   PRO    93      -4.721  21.323  37.027  1.00161.47       1SG 593
ATOM    593  N   GLU    94      -5.288  21.048  39.205  1.00 42.31       1SG 594
ATOM    594  CA  GLU    94      -4.703  22.297  39.584  1.00 42.31       1SG 595
ATOM    595  CB  GLU    94      -4.850  22.584  41.085  1.00 42.31       1SG 596
ATOM    596  CG  GLU    94      -6.281  22.870  41.534  1.00 42.31       1SG 597
ATOM    597  CD  GLU    94      -6.256  22.986  43.051  1.00 42.31       1SG 598
ATOM    598  OE1 GLU    94      -5.611  22.119  43.696  1.00 42.31       1SG 599
ATOM    599  OE2 GLU    94      -6.891  23.932  43.590  1.00 42.31       1SG 600
ATOM    600  C   GLU    94      -3.237  22.266  39.318  1.00 42.31       1SG 601
ATOM    601  O   GLU    94      -2.679  23.184  38.725  1.00 42.31       1SG 602
ATOM    602  N   VAL    95      -2.545  21.203  39.743  1.00 39.45       1SG 603
ATOM    603  CA  VAL    95      -1.131  21.235  39.551  1.00 39.45       1SG 604
ATOM    604  CB  VAL    95      -0.445  20.060  40.185  1.00 39.45       1SG 605
ATOM    605  CG1 VAL    95       1.035  20.055  39.769  1.00 39.45       1SG 606
ATOM    606  CG2 VAL    95      -0.656  20.148  41.707  1.00 39.45       1SG 607
ATOM    607  C   VAL    95      -0.829  21.216  38.093  1.00 39.45       1SG 608
ATOM    608  O   VAL    95      -0.055  22.031  37.592  1.00 39.45       1SG 609
ATOM    609  N   ALA    96      -1.477  20.293  37.367  1.00 43.05       1SG 610
ATOM    610  CA  ALA    96      -1.113  20.086  36.001  1.00 43.05       1SG 611
ATOM    611  CB  ALA    96      -1.876  18.920  35.358  1.00 43.05       1SG 612
ATOM    612  C   ALA    96      -1.368  21.287  35.146  1.00 43.05       1SG 613
ATOM    613  O   ALA    96      -0.489  21.699  34.392  1.00 43.05       1SG 614
ATOM    614  N   GLN    97      -2.563  21.900  35.252  1.00119.84       1SG 615
ATOM    615  CA  GLN    97      -2.898  22.929  34.313  1.00119.84       1SG 616
ATOM    616  CB  GLN    97      -4.394  23.312  34.367  1.00119.84       1SG 617
ATOM    617  CG  GLN    97      -4.866  24.225  33.232  1.00119.84       1SG 618
ATOM    618  CD  GLN    97      -4.895  25.665  33.723  1.00119.84       1SG 619
ATOM    619  OE1 GLN    97      -5.548  25.987  34.715  1.00119.84       1SG 620
ATOM    620  NE2 GLN    97      -4.181  26.563  32.993  1.00119.84       1SG 621
ATOM    621  C   GLN    97      -2.017  24.135  34.467  1.00119.84       1SG 622
ATOM    622  O   GLN    97      -1.473  24.606  33.473  1.00119.84       1SG 623
ATOM    623  N   PRO    98      -1.826  24.662  35.651  1.00130.38       1SG 624
ATOM    624  CA  PRO    98      -0.938  25.786  35.729  1.00130.38       1SG 625
ATOM    625  CD  PRO    98      -2.971  24.883  36.516  1.00130.38       1SG 626
ATOM    626  CB  PRO    98      -1.182  26.433  37.087  1.00130.38       1SG 627
ATOM    627  CG  PRO    98      -2.682  26.178  37.301  1.00130.38       1SG 628
ATOM    628  C   PRO    98       0.486  25.508  35.384  1.00130.38       1SG 629
ATOM    629  O   PRO    98       1.146  26.419  34.890  1.00130.38       1SG 630
ATOM    630  N   HIS    99       1.001  24.290  35.633  1.00 72.05       1SG 631
ATOM    631  CA  HIS    99       2.356  24.049  35.231  1.00 72.05       1SG 632
ATOM    632  ND1 HIS    99       3.005  23.009  38.334  1.00 72.05       1SG 633
ATOM    633  CG  HIS    99       3.639  23.034  37.112  1.00 72.05       1SG 634
ATOM    634  CB  HIS    99       2.982  22.761  35.790  1.00 72.05       1SG 635
ATOM    635  NE2 HIS    99       5.115  23.593  38.729  1.00 72.05       1SG 636
ATOM    636  CD2 HIS    99       4.929  23.391  37.373  1.00 72.05       1SG 637
ATOM    637  CE1 HIS    99       3.932  23.351  39.265  1.00 72.05       1SG 638
ATOM    638  C   HIS    99       2.403  24.067  33.743  1.00 72.05       1SG 639
ATOM    639  O   HIS    99       3.383  24.509  33.145  1.00 72.05       1SG 640
ATOM    640  N   LEU   100       1.315  23.605  33.107  1.00120.48       1SG 641
ATOM    641  CA  LEU   100       1.269  23.616  31.679  1.00120.48       1SG 642
ATOM    642  CB  LEU   100      -0.092  23.180  31.130  1.00120.48       1SG 643
ATOM    643  CG  LEU   100      -0.181  23.374  29.612  1.00120.48       1SG 644
ATOM    644  CD2 LEU   100      -1.635  23.318  29.127  1.00120.48       1SG 645
ATOM    645  CD1 LEU   100       0.763  22.406  28.885  1.00120.48       1SG 646
ATOM    646  C   LEU   100       1.438  25.033  31.244  1.00120.48       1SG 647
ATOM    647  O   LEU   100       2.147  25.319  30.281  1.00120.48       1SG 648
ATOM    648  N   GLU   101       0.787  25.961  31.967  1.00 66.45       1SG 649
ATOM    649  CA  GLU   101       0.838  27.351  31.634  1.00 66.45       1SG 650
ATOM    650  CB  GLU   101       0.014  28.217  32.600  1.00 66.45       1SG 651
ATOM    651  CG  GLU   101      -1.490  28.014  32.432  1.00 66.45       1SG 652
ATOM    652  CD  GLU   101      -1.881  28.653  31.108  1.00 66.45       1SG 653
ATOM    653  OE1 GLU   101      -1.974  29.907  31.072  1.00 66.45       1SG 654
ATOM    654  OE2 GLU   101      -2.082  27.900  30.117  1.00 66.45       1SG 655
ATOM    655  C   GLU   101       2.257  27.790  31.722  1.00 66.45       1SG 656
ATOM    656  O   GLU   101       2.720  28.583  30.906  1.00 66.45       1SG 657
ATOM    657  N   LYS   102       2.995  27.279  32.718  1.00112.87       1SG 658
ATOM    658  CA  LYS   102       4.359  27.680  32.870  1.00112.87       1SG 659
ATOM    659  CB  LYS   102       5.015  27.046  34.110  1.00112.87       1SG 660
ATOM    660  CG  LYS   102       6.282  27.774  34.569  1.00112.87       1SG 661
ATOM    661  CD  LYS   102       6.013  29.200  35.067  1.00112.87       1SG 662
ATOM    662  CE  LYS   102       5.246  29.267  36.391  1.00112.87       1SG 663
ATOM    663  NZ  LYS   102       6.188  29.190  37.529  1.00112.87       1SG 664
ATOM    664  C   LYS   102       5.098  27.259  31.634  1.00112.87       1SG 665
ATOM    665  O   LYS   102       5.912  28.008  31.096  1.00112.87       1SG 666
ATOM    666  N   LEU   103       4.796  26.050  31.126  1.00110.48       1SG 667
ATOM    667  CA  LEU   103       5.455  25.538  29.958  1.00110.48       1SG 668
ATOM    668  CB  LEU   103       4.952  24.127  29.584  1.00110.48       1SG 669
ATOM    669  CG  LEU   103       5.699  23.459  28.415  1.00110.48       1SG 670
ATOM    670  CD2 LEU   103       4.982  22.174  27.968  1.00110.48       1SG 671
ATOM    671  CD1 LEU   103       7.173  23.210  28.770  1.00110.48       1SG 672
ATOM    672  C   LEU   103       5.141  26.463  28.822  1.00110.48       1SG 673
ATOM    673  O   LEU   103       6.013  26.812  28.030  1.00110.48       1SG 674
ATOM    674  N   SER   104       3.871  26.895  28.719  1.00 27.70       1SG 675
ATOM    675  CA  SER   104       3.456  27.770  27.657  1.00 27.70       1SG 676
ATOM    676  CB  SER   104       1.938  27.993  27.630  1.00 27.70       1SG 677
ATOM    677  OG  SER   104       1.264  26.763  27.421  1.00 27.70       1SG 678
ATOM    678  C   SER   104       4.069  29.119  27.861  1.00 27.70       1SG 679
ATOM    679  O   SER   104       4.256  29.884  26.918  1.00 27.70       1SG 680
ATOM    680  N   HIS   105       4.409  29.445  29.116  1.00 60.15       1SG 681
ATOM    681  CA  HIS   105       4.905  30.754  29.415  1.00 60.15       1SG 682
ATOM    682  ND1 HIS   105       4.952  33.304  31.685  1.00 60.15       1SG 683
ATOM    683  CG  HIS   105       5.771  32.279  31.264  1.00 60.15       1SG 684
ATOM    684  CB  HIS   105       5.283  30.910  30.895  1.00 60.15       1SG 685
ATOM    685  NE2 HIS   105       7.030  34.096  31.712  1.00 60.15       1SG 686
ATOM    686  CD2 HIS   105       7.037  32.780  31.286  1.00 60.15       1SG 687
ATOM    687  CE1 HIS   105       5.757  34.368  31.940  1.00 60.15       1SG 688
ATOM    688  C   HIS   105       6.142  30.976  28.621  1.00 60.15       1SG 689
ATOM    689  O   HIS   105       6.312  32.022  27.996  1.00 60.15       1SG 690
ATOM    690  N   LYS   106       7.042  29.978  28.602  1.00111.42       1SG 691
ATOM    691  CA  LYS   106       8.271  30.172  27.901  1.00111.42       1SG 692
ATOM    692  CB  LYS   106       9.292  29.031  28.113  1.00111.42       1SG 693
ATOM    693  CG  LYS   106       9.007  27.710  27.406  1.00111.42       1SG 694
ATOM    694  CD  LYS   106       9.336  27.720  25.914  1.00111.42       1SG 695
ATOM    695  CE  LYS   106       9.419  26.311  25.322  1.00111.42       1SG 696
ATOM    696  NZ  LYS   106       9.698  26.390  23.873  1.00111.42       1SG 697
ATOM    697  C   LYS   106       7.989  30.351  26.447  1.00111.42       1SG 698
ATOM    698  O   LYS   106       8.566  31.241  25.822  1.00111.42       1SG 699
ATOM    699  N   VAL   107       7.073  29.550  25.860  1.00 90.84       1SG 700
ATOM    700  CA  VAL   107       6.857  29.739  24.451  1.00 90.84       1SG 701
ATOM    701  CB  VAL   107       5.888  28.781  23.798  1.00 90.84       1SG 702
ATOM    702  CG1 VAL   107       6.418  27.346  23.949  1.00 90.84       1SG 703
ATOM    703  CG2 VAL   107       4.466  28.991  24.338  1.00 90.84       1SG 704
ATOM    704  C   VAL   107       6.345  31.128  24.234  1.00 90.84       1SG 705
ATOM    705  O   VAL   107       6.832  31.846  23.361  1.00 90.84       1SG 706
ATOM    706  N   HIS   108       5.362  31.569  25.042  1.00 85.97       1SG 707
ATOM    707  CA  HIS   108       4.872  32.903  24.866  1.00 85.97       1SG 708
ATOM    708  ND1 HIS   108       2.526  31.236  22.744  1.00 85.97       1SG 709
ATOM    709  CG  HIS   108       3.219  32.401  22.986  1.00 85.97       1SG 710
ATOM    710  CB  HIS   108       3.425  32.983  24.355  1.00 85.97       1SG 711
ATOM    711  NE2 HIS   108       3.178  32.008  20.764  1.00 85.97       1SG 712
ATOM    712  CD2 HIS   108       3.614  32.858  21.766  1.00 85.97       1SG 713
ATOM    713  CE1 HIS   108       2.532  31.047  21.400  1.00 85.97       1SG 714
ATOM    714  C   HIS   108       4.869  33.551  26.239  1.00 85.97       1SG 715
ATOM    715  O   HIS   108       5.697  34.471  26.468  1.00 85.97       1SG 716
ATOM    716  OXT HIS   108       4.045  33.121  27.089  1.00 85.97       1SG 717
TER
END
