
#######################################################
#                                                     #
#                        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   24 (  160),  selected   24 , name T0306TS319_5
# Molecule2: number of CA atoms   95 (  694),  selected   95 , name T0306.pdb
# PARAMETERS: T0306TS319_5.T0306.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      K       2           -
LGA    -       -      L       3           -
LGA    -       -      A       4           -
LGA    C      40      V       5           #
LGA    A      41      -       -           -
LGA    V      42      -       -           -
LGA    A      43      V       6          3.687
LGA    I      44      T       7          2.281
LGA    D      45      G       8          2.276
LGA    N      46      Q       9          1.909
LGA    I      47      I      10          2.499
LGA    G      48      V      11          0.501
LGA    A      49      C      12          1.475
LGA    G      50      T      13          1.699
LGA    T      51      V      14          1.815
LGA    G      52      R      15          2.333
LGA    E      53      H      16          1.452
LGA    W      54      H      17          2.748
LGA    V      55      G      18          4.307
LGA    L      56      L      19          2.511
LGA    L      57      A      20          4.781
LGA    -       -      H      21           -
LGA    -       -      D      22           -
LGA    -       -      K      23           -
LGA    -       -      L      24           -
LGA    -       -      L      25           -
LGA    -       -      M      26           -
LGA    -       -      V      27           -
LGA    -       -      E      28           -
LGA    -       -      M      29           -
LGA    -       -      I      30           -
LGA    -       -      D      31           -
LGA    -       -      P      32           -
LGA    -       -      Q      33           -
LGA    -       -      G      34           -
LGA    -       -      N      35           -
LGA    -       -      P      36           -
LGA    -       -      D      37           -
LGA    -       -      G      38           -
LGA    -       -      Q      39           -
LGA    -       -      C      40           -
LGA    -       -      A      41           -
LGA    -       -      V      42           -
LGA    -       -      A      43           -
LGA    -       -      I      44           -
LGA    -       -      D      45           -
LGA    -       -      N      46           -
LGA    -       -      I      47           -
LGA    -       -      G      48           -
LGA    -       -      A      49           -
LGA    -       -      G      50           -
LGA    -       -      T      51           -
LGA    -       -      G      52           -
LGA    -       -      E      53           -
LGA    -       -      W      54           -
LGA    -       -      V      55           -
LGA    -       -      L      56           -
LGA    -       -      L      57           -
LGA    -       -      V      58           -
LGA    -       -      S      59           -
LGA    -       -      G      60           -
LGA    -       -      S      61           -
LGA    -       -      S      62           -
LGA    -       -      A      63           -
LGA    -       -      R      64           -
LGA    -       -      Q      65           -
LGA    -       -      A      66           -
LGA    V      58      H      67           #
LGA    S      59      K      68           #
LGA    G      60      -       -           -
LGA    S      61      -       -           -
LGA    S      62      S      69          2.476
LGA    A      63      E      70          2.683
LGA    -       -      T      71           -
LGA    -       -      S      72           -
LGA    -       -      P      73           -
LGA    -       -      V      74           -
LGA    -       -      D      75           -
LGA    -       -      L      76           -
LGA    -       -      C      77           -
LGA    -       -      V      78           -
LGA    -       -      I      79           -
LGA    -       -      G      80           -
LGA    -       -      I      81           -
LGA    -       -      V      82           -
LGA    -       -      D      83           -
LGA    -       -      E      84           -
LGA    -       -      V      85           -
LGA    -       -      V      86           -
LGA    -       -      S      87           -
LGA    -       -      G      88           -
LGA    -       -      G      89           -
LGA    -       -      Q      90           -
LGA    -       -      V      91           -
LGA    -       -      I      92           -
LGA    -       -      F      93           -
LGA    -       -      H      94           -
LGA    -       -      K      95           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   24   95    5.0     17    2.64    17.65     12.940     0.620

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.858110 * X  +   0.458068 * Y  +   0.231994 * Z  + -14.242470
  Y_new =   0.409362 * X  +  -0.883058 * Y  +   0.229415 * Z  + -21.041740
  Z_new =   0.309952 * X  +  -0.101894 * Y  +  -0.945276 * Z  + 158.008377 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.034214    0.107378  [ DEG:  -173.8477      6.1523 ]
  Theta =  -0.315142   -2.826451  [ DEG:   -18.0563   -161.9437 ]
  Phi   =   0.445120   -2.696472  [ DEG:    25.5035   -154.4965 ]
 
# 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: T0306TS319_5                                  
REMARK     2: T0306.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0306TS319_5.T0306.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   24   95   5.0   17   2.64   17.65  12.940
REMARK  ---------------------------------------------------------- 
MOLECULE T0306TS319_5
PFRMAT TS
TARGET T0306
MODEL 5
PARENT N/A
ATOM      1  N   CYS    40      43.245  26.313  73.189  1.00 14.22       1SG   2
ATOM      2  CA  CYS    40      42.560  26.274  74.502  1.00 14.22       1SG   3
ATOM      3  CB  CYS    40      41.423  27.306  74.561  1.00 14.22       1SG   4
ATOM      4  SG  CYS    40      42.022  29.022  74.568  1.00 14.22       1SG   5
ATOM      5  C   CYS    40      41.988  24.923  74.775  1.00 14.22       1SG   6
ATOM      6  O   CYS    40      42.382  23.938  74.154  1.00 14.22       1SG   7
ATOM      7  N   ALA    41      41.056  24.848  75.744  1.00 24.63       1SG   8
ATOM      8  CA  ALA    41      40.461  23.599  76.116  1.00 24.63       1SG   9
ATOM      9  CB  ALA    41      39.483  23.739  77.296  1.00 24.63       1SG  10
ATOM     10  C   ALA    41      39.674  23.057  74.966  1.00 24.63       1SG  11
ATOM     11  O   ALA    41      39.756  21.873  74.649  1.00 24.63       1SG  12
ATOM     12  N   VAL    42      38.910  23.939  74.298  1.00 86.59       1SG  13
ATOM     13  CA  VAL    42      37.995  23.566  73.257  1.00 86.59       1SG  14
ATOM     14  CB  VAL    42      37.178  24.728  72.770  1.00 86.59       1SG  15
ATOM     15  CG1 VAL    42      38.123  25.751  72.118  1.00 86.59       1SG  16
ATOM     16  CG2 VAL    42      36.081  24.199  71.832  1.00 86.59       1SG  17
ATOM     17  C   VAL    42      38.706  22.991  72.072  1.00 86.59       1SG  18
ATOM     18  O   VAL    42      38.224  22.049  71.446  1.00 86.59       1SG  19
ATOM     19  N   ALA    43      39.877  23.540  71.718  1.00 31.41       1SG  20
ATOM     20  CA  ALA    43      40.507  23.103  70.507  1.00 31.41       1SG  21
ATOM     21  CB  ALA    43      41.808  23.871  70.207  1.00 31.41       1SG  22
ATOM     22  C   ALA    43      40.838  21.644  70.563  1.00 31.41       1SG  23
ATOM     23  O   ALA    43      40.572  20.910  69.611  1.00 31.41       1SG  24
ATOM     24  N   ILE    44      41.411  21.167  71.680  1.00 44.92       1SG  25
ATOM     25  CA  ILE    44      41.841  19.800  71.696  1.00 44.92       1SG  26
ATOM     26  CB  ILE    44      42.648  19.421  72.897  1.00 44.92       1SG  27
ATOM     27  CG2 ILE    44      42.823  17.895  72.866  1.00 44.92       1SG  28
ATOM     28  CG1 ILE    44      43.982  20.183  72.920  1.00 44.92       1SG  29
ATOM     29  CD1 ILE    44      44.760  20.003  74.222  1.00 44.92       1SG  30
ATOM     30  C   ILE    44      40.698  18.841  71.644  1.00 44.92       1SG  31
ATOM     31  O   ILE    44      40.721  17.907  70.844  1.00 44.92       1SG  32
ATOM     32  N   ASP    45      39.655  19.041  72.474  1.00 96.59       1SG  33
ATOM     33  CA  ASP    45      38.643  18.024  72.518  1.00 96.59       1SG  34
ATOM     34  CB  ASP    45      37.707  18.091  73.747  1.00 96.59       1SG  35
ATOM     35  CG  ASP    45      36.867  19.357  73.721  1.00 96.59       1SG  36
ATOM     36  OD1 ASP    45      37.229  20.291  72.963  1.00 96.59       1SG  37
ATOM     37  OD2 ASP    45      35.851  19.405  74.465  1.00 96.59       1SG  38
ATOM     38  C   ASP    45      37.812  18.067  71.279  1.00 96.59       1SG  39
ATOM     39  O   ASP    45      37.596  19.128  70.696  1.00 96.59       1SG  40
ATOM     40  N   ASN    46      37.346  16.880  70.833  1.00 55.88       1SG  41
ATOM     41  CA  ASN    46      36.481  16.793  69.694  1.00 55.88       1SG  42
ATOM     42  CB  ASN    46      36.187  15.341  69.267  1.00 55.88       1SG  43
ATOM     43  CG  ASN    46      35.256  15.342  68.059  1.00 55.88       1SG  44
ATOM     44  OD1 ASN    46      34.101  14.931  68.168  1.00 55.88       1SG  45
ATOM     45  ND2 ASN    46      35.751  15.813  66.884  1.00 55.88       1SG  46
ATOM     46  C   ASN    46      35.204  17.404  70.135  1.00 55.88       1SG  47
ATOM     47  O   ASN    46      34.747  17.160  71.250  1.00 55.88       1SG  48
ATOM     48  N   ILE    47      34.589  18.229  69.273  1.00114.90       1SG  49
ATOM     49  CA  ILE    47      33.401  18.856  69.742  1.00114.90       1SG  50
ATOM     50  CB  ILE    47      33.002  20.064  68.950  1.00114.90       1SG  51
ATOM     51  CG2 ILE    47      31.607  20.502  69.420  1.00114.90       1SG  52
ATOM     52  CG1 ILE    47      34.065  21.160  69.118  1.00114.90       1SG  53
ATOM     53  CD1 ILE    47      34.237  21.600  70.571  1.00114.90       1SG  54
ATOM     54  C   ILE    47      32.308  17.859  69.682  1.00114.90       1SG  55
ATOM     55  O   ILE    47      32.005  17.289  68.635  1.00114.90       1SG  56
ATOM     56  N   GLY    48      31.700  17.627  70.851  1.00111.03       1SG  57
ATOM     57  CA  GLY    48      30.590  16.747  70.976  1.00111.03       1SG  58
ATOM     58  C   GLY    48      29.444  17.682  71.006  1.00111.03       1SG  59
ATOM     59  O   GLY    48      29.093  18.282  69.991  1.00111.03       1SG  60
ATOM     60  N   ALA    49      28.845  17.829  72.198  1.00226.57       1SG  61
ATOM     61  CA  ALA    49      27.746  18.724  72.356  1.00226.57       1SG  62
ATOM     62  CB  ALA    49      28.141  20.196  72.173  1.00226.57       1SG  63
ATOM     63  C   ALA    49      26.710  18.385  71.338  1.00226.57       1SG  64
ATOM     64  O   ALA    49      26.199  19.263  70.645  1.00226.57       1SG  65
ATOM     65  N   GLY    50      26.388  17.084  71.226  1.00 44.72       1SG  66
ATOM     66  CA  GLY    50      25.382  16.632  70.314  1.00 44.72       1SG  67
ATOM     67  C   GLY    50      24.100  17.260  70.745  1.00 44.72       1SG  68
ATOM     68  O   GLY    50      23.254  17.610  69.925  1.00 44.72       1SG  69
ATOM     69  N   THR    51      23.923  17.402  72.071  1.00 95.05       1SG  70
ATOM     70  CA  THR    51      22.731  17.986  72.609  1.00 95.05       1SG  71
ATOM     71  CB  THR    51      22.674  17.885  74.106  1.00 95.05       1SG  72
ATOM     72  OG1 THR    51      23.748  18.616  74.681  1.00 95.05       1SG  73
ATOM     73  CG2 THR    51      22.776  16.402  74.509  1.00 95.05       1SG  74
ATOM     74  C   THR    51      22.743  19.445  72.255  1.00 95.05       1SG  75
ATOM     75  O   THR    51      23.799  20.013  71.987  1.00 95.05       1SG  76
ATOM     76  N   GLY    52      21.556  20.095  72.236  1.00 22.18       1SG  77
ATOM     77  CA  GLY    52      21.487  21.497  71.918  1.00 22.18       1SG  78
ATOM     78  C   GLY    52      21.119  21.677  70.472  1.00 22.18       1SG  79
ATOM     79  O   GLY    52      20.906  20.711  69.743  1.00 22.18       1SG  80
ATOM     80  N   GLU    53      21.030  22.954  70.031  1.00 63.91       1SG  81
ATOM     81  CA  GLU    53      20.639  23.314  68.693  1.00 63.91       1SG  82
ATOM     82  CB  GLU    53      20.268  24.802  68.523  1.00 63.91       1SG  83
ATOM     83  CG  GLU    53      18.885  25.195  69.051  1.00 63.91       1SG  84
ATOM     84  CD  GLU    53      17.904  25.069  67.893  1.00 63.91       1SG  85
ATOM     85  OE1 GLU    53      18.373  24.855  66.742  1.00 63.91       1SG  86
ATOM     86  OE2 GLU    53      16.673  25.183  68.138  1.00 63.91       1SG  87
ATOM     87  C   GLU    53      21.775  23.045  67.758  1.00 63.91       1SG  88
ATOM     88  O   GLU    53      22.923  22.894  68.174  1.00 63.91       1SG  89
ATOM     89  N   TRP    54      21.455  22.950  66.448  1.00137.52       1SG  90
ATOM     90  CA  TRP    54      22.455  22.686  65.455  1.00137.52       1SG  91
ATOM     91  CB  TRP    54      21.894  21.932  64.233  1.00137.52       1SG  92
ATOM     92  CG  TRP    54      20.659  22.535  63.610  1.00137.52       1SG  93
ATOM     93  CD2 TRP    54      20.637  23.270  62.377  1.00137.52       1SG  94
ATOM     94  CD1 TRP    54      19.365  22.454  64.031  1.00137.52       1SG  95
ATOM     95  NE1 TRP    54      18.543  23.120  63.156  1.00137.52       1SG  96
ATOM     96  CE2 TRP    54      19.310  23.618  62.127  1.00137.52       1SG  97
ATOM     97  CE3 TRP    54      21.638  23.612  61.517  1.00137.52       1SG  98
ATOM     98  CZ2 TRP    54      18.959  24.323  61.009  1.00137.52       1SG  99
ATOM     99  CZ3 TRP    54      21.280  24.330  60.398  1.00137.52       1SG 100
ATOM    100  CH2 TRP    54      19.970  24.681  60.148  1.00137.52       1SG 101
ATOM    101  C   TRP    54      23.121  23.967  65.049  1.00137.52       1SG 102
ATOM    102  O   TRP    54      22.492  24.890  64.537  1.00137.52       1SG 103
ATOM    103  N   VAL    55      24.435  24.031  65.349  1.00 54.95       1SG 104
ATOM    104  CA  VAL    55      25.366  25.095  65.094  1.00 54.95       1SG 105
ATOM    105  CB  VAL    55      26.644  24.908  65.859  1.00 54.95       1SG 106
ATOM    106  CG1 VAL    55      27.607  26.060  65.525  1.00 54.95       1SG 107
ATOM    107  CG2 VAL    55      26.299  24.784  67.351  1.00 54.95       1SG 108
ATOM    108  C   VAL    55      25.751  25.169  63.646  1.00 54.95       1SG 109
ATOM    109  O   VAL    55      25.929  26.253  63.098  1.00 54.95       1SG 110
ATOM    110  N   LEU    56      25.867  23.996  62.993  1.00117.75       1SG 111
ATOM    111  CA  LEU    56      26.447  23.841  61.688  1.00117.75       1SG 112
ATOM    112  CB  LEU    56      26.416  22.389  61.198  1.00117.75       1SG 113
ATOM    113  CG  LEU    56      27.002  21.390  62.213  1.00117.75       1SG 114
ATOM    114  CD2 LEU    56      26.082  21.208  63.431  1.00117.75       1SG 115
ATOM    115  CD1 LEU    56      28.450  21.743  62.579  1.00117.75       1SG 116
ATOM    116  C   LEU    56      25.751  24.635  60.635  1.00117.75       1SG 117
ATOM    117  O   LEU    56      24.536  24.844  60.659  1.00117.75       1SG 118
ATOM    118  N   LEU    57      26.556  25.115  59.668  1.00161.51       1SG 119
ATOM    119  CA  LEU    57      26.018  25.810  58.543  1.00161.51       1SG 120
ATOM    120  CB  LEU    57      27.019  26.769  57.866  1.00161.51       1SG 121
ATOM    121  CG  LEU    57      28.317  26.118  57.337  1.00161.51       1SG 122
ATOM    122  CD2 LEU    57      29.406  27.180  57.125  1.00161.51       1SG 123
ATOM    123  CD1 LEU    57      28.089  25.249  56.086  1.00161.51       1SG 124
ATOM    124  C   LEU    57      25.592  24.760  57.572  1.00161.51       1SG 125
ATOM    125  O   LEU    57      26.183  23.685  57.500  1.00161.51       1SG 126
ATOM    126  N   VAL    58      24.540  25.051  56.799  1.00201.53       1SG 127
ATOM    127  CA  VAL    58      23.990  24.066  55.923  1.00201.53       1SG 128
ATOM    128  CB  VAL    58      22.504  23.940  56.143  1.00201.53       1SG 129
ATOM    129  CG1 VAL    58      21.867  22.940  55.167  1.00201.53       1SG 130
ATOM    130  CG2 VAL    58      22.316  23.537  57.615  1.00201.53       1SG 131
ATOM    131  C   VAL    58      24.294  24.532  54.540  1.00201.53       1SG 132
ATOM    132  O   VAL    58      24.809  25.635  54.362  1.00201.53       1SG 133
ATOM    133  N   SER    59      24.033  23.682  53.528  1.00187.28       1SG 134
ATOM    134  CA  SER    59      24.279  24.084  52.180  1.00187.28       1SG 135
ATOM    135  CB  SER    59      23.762  23.071  51.152  1.00187.28       1SG 136
ATOM    136  OG  SER    59      23.984  23.561  49.839  1.00187.28       1SG 137
ATOM    137  C   SER    59      23.491  25.333  51.997  1.00187.28       1SG 138
ATOM    138  O   SER    59      23.923  26.254  51.307  1.00187.28       1SG 139
ATOM    139  N   GLY    60      22.312  25.400  52.644  1.00 43.96       1SG 140
ATOM    140  CA  GLY    60      21.544  26.603  52.567  1.00 43.96       1SG 141
ATOM    141  C   GLY    60      22.366  27.651  53.238  1.00 43.96       1SG 142
ATOM    142  O   GLY    60      22.896  27.437  54.328  1.00 43.96       1SG 143
ATOM    143  N   SER    61      22.475  28.827  52.591  1.00 30.25       1SG 144
ATOM    144  CA  SER    61      23.291  29.875  53.121  1.00 30.25       1SG 145
ATOM    145  CB  SER    61      23.585  30.992  52.110  1.00 30.25       1SG 146
ATOM    146  OG  SER    61      22.383  31.673  51.785  1.00 30.25       1SG 147
ATOM    147  C   SER    61      22.569  30.498  54.259  1.00 30.25       1SG 148
ATOM    148  O   SER    61      21.340  30.537  54.295  1.00 30.25       1SG 149
ATOM    149  N   SER    62      23.345  31.000  55.232  1.00 82.22       1SG 150
ATOM    150  CA  SER    62      22.766  31.652  56.358  1.00 82.22       1SG 151
ATOM    151  CB  SER    62      23.215  31.039  57.696  1.00 82.22       1SG 152
ATOM    152  OG  SER    62      22.886  29.658  57.731  1.00 82.22       1SG 153
ATOM    153  C   SER    62      23.299  33.040  56.291  1.00 82.22       1SG 154
ATOM    154  O   SER    62      24.473  33.242  55.985  1.00 82.22       1SG 155
ATOM    155  N   ALA    63      22.437  34.037  56.544  1.00  9.09       1SG 156
ATOM    156  CA  ALA    63      22.902  35.388  56.486  1.00  9.09       1SG 157
ATOM    157  CB  ALA    63      21.798  36.391  56.120  1.00  9.09       1SG 158
ATOM    158  C   ALA    63      23.419  35.750  57.874  1.00  9.09       1SG 159
ATOM    159  O   ALA    63      24.296  36.651  57.958  1.00  9.09       1SG 160
ATOM    160  OXT ALA    63      22.944  35.139  58.868  1.00  9.09       1SG 161
TER
END
