LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_490.5wLII_11346_167
Total number of 3D structures: 41
LGA calculations using distance cutoff DIST: 4.0 A

Residues superimposed below 2.00 A: GREEN
Residues superimposed below 4.00 A: YELLOW
Residues superimposed below 6.00 A: ORANGE
Residues superimposed below 8.00 A: BROWN
Residues superimposed above 8.00 A or not aligned: RED
Terminal residues not aligned: GREY

Structure Deviation Summary

Calculations based on one final LGA superposition
(Bar representation of 3D plots, TEXT)

Structures ordered by LGA_S - score
Structure
NS
NT
N(dist=4.0)
RMSD(N)
Seq_ID(N)
LGA_S
LGA_Q
PLOTS
1l0q_A
391
249
237
0.56
24.05
94.587
35.819
T P
3dm0_A
675
249
231
1.60
13.85
85.225
13.555
T P
3frx_B
313
249
230
1.56
14.35
85.067
13.892
T P
2h6n_B
305
249
230
1.68
10.43
84.963
12.890
T P
2h9m_A
304
249
230
1.66
10.43
84.957
13.084
T P
2gnq_A
316
249
230
1.67
10.43
84.820
12.967
T P
2cnx_A
306
249
228
1.66
10.53
84.686
12.988
T P
2co0_A
304
249
230
1.71
10.43
84.607
12.673
T P
2h9l_A
321
249
229
1.67
10.48
84.566
12.947
T P
2g99_A
304
249
229
1.67
10.48
84.522
12.955
T P
1gxr_A
335
249
225
1.60
12.44
84.174
13.272
T P
3fm0_A
328
249
229
1.73
12.66
84.119
12.502
T P
3emh_A
300
249
229
1.69
10.48
84.115
12.763
T P
2g9a_A
310
249
228
1.65
10.53
84.103
13.047
T P
2h14_A
303
249
229
1.70
10.48
83.987
12.723
T P
3bws_A
407
249
227
1.83
13.66
83.558
11.763
T P
1erj_C
357
249
226
1.56
8.85
83.356
13.595
T P
1vyh_C
310
249
226
1.72
7.96
82.852
12.449
T P
3cfv_B
393
249
225
1.78
13.78
81.813
11.942
T P
2bcj_B
339
249
229
1.89
10.92
81.602
11.484
T P
3cfs_B
383
249
224
1.80
13.84
81.419
11.815
T P
1tbg_A
340
249
225
1.77
10.67
81.313
12.064
T P
3c99_A
380
249
226
1.83
14.16
81.300
11.701
T P
1nr0_A
610
249
224
1.82
12.95
81.109
11.666
T P
2hes_X
308
249
221
1.75
11.76
80.904
11.970
T P
1a0r_B
339
249
225
1.80
9.78
80.874
11.843
T P
2pm6_D
288
249
224
1.83
11.16
80.795
11.593
T P
1got_B
339
249
228
1.94
11.40
80.698
11.162
T P
2pm7_D
288
249
224
1.85
9.82
80.578
11.478
T P
2pbi_D
354
249
228
1.92
13.60
79.824
11.299
T P
1p22_A
402
249
218
1.70
10.09
79.377
12.099
T P
3bg1_A
285
249
217
1.84
10.14
78.428
11.175
T P
2pm9_B
280
249
224
1.95
11.16
74.438
10.925
T P
2ovr_B
442
249
205
1.99
11.22
71.435
9.786
T P
2pm9_A
384
249
224
1.95
11.16
69.859
10.929
T P
1nex_B
444
249
201
2.00
11.94
69.099
9.587
T P
3ei4_B
368
249
215
1.91
10.70
67.116
10.709
T P
2b4e_A
386
249
207
2.24
10.14
59.758
8.836
T P
2zkq_a
306
249
199
2.55
8.04
59.643
7.516
T P
2aq5_A
395
249
206
2.23
9.22
59.544
8.833
T P
1r5m_A
351
249
205
2.27
7.32
56.482
8.643
T P

NS : Total number of residues in Structure (rotated structure)
NT : Total number of residues in TARGET (frame of reference)
N : Total number of residues superimposed under 4.0 Angstrom distance cutoff
RMSD : RMS deviation calculated on all N residues superimposed under 4.0 Angstrom distance cutoff
Seq_Id : Sequence Identity. Percent of identical residues from the total of N aligned.
LGA_S : Structure similarity score calculated by internal LGA procedure (see LGA paper for details)
LGA_Q : Score (how tight is the superposition) calculated by the formula: Q = 0.1*N/(0.1+RMSD)
PLOTS : T - Flat text file (output from LGA program, rotated structure)
PLOTS : P - Plot of superimposed structures (3D plot colored as bars)

Citing LGA:
Zemla A., "LGA - a Method for Finding 3D Similarities in Protein Structures", Nucleic Acids Research, 2003, Vol. 31, No. 13, pp. 3370-3374. [MEDLINE]