LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_272.5wLII_11233_46
Total number of 3D structures: 39
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
1erj_C
357
288
226
0.77
17.70
77.365
26.041
T P
3dm0_A
675
288
217
1.37
15.67
72.650
14.728
T P
1vyh_C
310
288
217
1.33
15.21
72.644
15.227
T P
1got_B
339
288
217
1.36
11.98
71.858
14.832
T P
2bcj_B
339
288
217
1.37
12.44
71.575
14.769
T P
3fm0_A
328
288
219
1.51
12.79
71.552
13.587
T P
2pbi_D
354
288
214
1.25
10.75
71.540
15.880
T P
3frx_B
313
288
216
1.35
10.65
71.304
14.907
T P
1tbg_A
340
288
214
1.40
11.68
71.012
14.242
T P
2gnq_A
316
288
217
1.46
12.90
70.925
13.917
T P
2g9a_A
310
288
217
1.50
12.44
70.841
13.604
T P
2h9l_A
321
288
215
1.42
13.02
70.830
14.181
T P
3emh_A
300
288
218
1.52
12.84
70.672
13.475
T P
2g99_A
304
288
214
1.36
12.62
70.648
14.619
T P
2h14_A
303
288
217
1.50
13.36
70.602
13.570
T P
2h9m_A
304
288
215
1.45
12.56
70.544
13.838
T P
2co0_A
304
288
215
1.47
13.49
70.498
13.691
T P
3cfs_B
383
288
216
1.53
9.26
70.469
13.266
T P
2h6n_B
305
288
216
1.46
12.96
70.469
13.813
T P
1gxr_A
335
288
214
1.45
16.36
70.189
13.837
T P
2cnx_A
306
288
213
1.42
12.68
70.121
13.982
T P
3c99_A
380
288
214
1.51
10.28
70.108
13.262
T P
3cfv_B
393
288
217
1.67
8.29
69.585
12.281
T P
3bg1_A
285
288
212
1.57
8.96
69.405
12.685
T P
2hes_X
308
288
211
1.46
11.37
69.371
13.490
T P
1a0r_B
339
288
212
1.47
12.74
69.294
13.463
T P
2pm7_D
288
288
210
1.47
8.10
69.294
13.349
T P
2pm6_D
288
288
210
1.49
8.10
69.262
13.196
T P
2pm9_B
280
288
210
1.53
8.57
69.026
12.894
T P
1p22_A
402
288
207
1.43
11.11
68.394
13.515
T P
1nr0_A
610
288
208
1.69
12.02
67.078
11.652
T P
3ei4_B
368
288
207
1.77
11.11
66.300
11.051
T P
1nex_B
444
288
206
1.70
17.48
65.959
11.441
T P
2ovr_B
442
288
207
1.70
11.59
65.489
11.529
T P
1r5m_A
351
288
200
1.99
13.00
60.275
9.588
T P
2aq5_A
395
288
209
2.03
11.48
59.903
9.823
T P
2pm9_A
384
288
209
1.75
10.05
59.340
11.298
T P
2b4e_A
386
288
207
2.08
10.63
54.644
9.478
T P
2zkq_a
306
288
181
2.28
9.39
50.855
7.607
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]