LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_313.5wLII_11238_106
Total number of 3D structures: 48
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
2ivd_A
449
463
418
0.95
16.27
87.949
39.876
T P
1sez_A
465
463
394
1.88
13.96
66.297
19.947
T P
2iid_A
483
463
306
2.19
12.42
44.419
13.357
T P
1reo_A
484
463
307
2.17
11.73
44.166
13.545
T P
2bxr_A
445
463
307
2.26
12.05
43.302
12.995
T P
2b9w_A
423
463
310
2.22
10.65
42.780
13.383
T P
2z5y_A
513
463
307
2.41
11.07
42.765
12.222
T P
2z5x_A
513
463
307
2.44
11.40
42.463
12.068
T P
2c72_A
499
463
293
2.37
13.65
40.977
11.874
T P
1o5w_C
512
463
291
2.40
11.68
40.829
11.661
T P
2c75_A
499
463
301
2.45
13.29
40.730
11.792
T P
2jae_A
478
463
276
2.11
13.41
40.699
12.469
T P
2yr5_A
684
463
304
2.39
11.51
40.660
12.201
T P
1s3e_A
499
463
299
2.41
13.71
40.253
11.891
T P
2c73_A
499
463
294
2.43
12.93
40.166
11.623
T P
2bk5_A
499
463
295
2.42
13.22
40.139
11.727
T P
2c76_A
499
463
294
2.41
12.93
39.830
11.727
T P
2vvm_A
481
463
292
2.41
13.70
38.897
11.638
T P
2vvl_G
478
463
286
2.42
15.38
38.347
11.347
T P
1yvv_A
328
463
261
2.05
13.03
37.942
12.118
T P
2vvl_A
478
463
289
2.42
14.19
37.763
11.462
T P
1b37_B
462
463
281
2.42
13.88
37.428
11.162
T P
3bnm_B
499
463
259
2.34
10.81
37.166
10.597
T P
1yy5_A
498
463
263
2.43
12.17
36.932
10.407
T P
1rsg_B
491
463
256
2.33
9.77
36.189
10.547
T P
2v1d_A
666
463
257
2.29
13.62
36.188
10.765
T P
2iw5_A
666
463
256
2.26
13.67
36.168
10.848
T P
2h94_A
647
463
253
2.28
13.04
36.129
10.617
T P
2z3y_A
643
463
257
2.44
13.23
35.893
10.130
T P
2dw4_A
634
463
243
2.31
14.40
34.999
10.090
T P
2hko_A
647
463
248
2.33
14.52
34.739
10.214
T P
1i8t_A
367
463
242
2.51
7.02
31.514
9.289
T P
1v0j_A
388
463
231
2.42
12.12
30.781
9.173
T P
1usj_A
376
463
233
2.53
8.58
30.365
8.864
T P
1wam_A
377
463
228
2.50
8.77
29.971
8.758
T P
2bi7_A
383
463
222
2.46
9.01
29.902
8.688
T P
2bcg_G
442
463
215
2.55
10.70
29.430
8.100
T P
2oln_A
385
463
199
2.36
13.07
28.537
8.083
T P
3cpi_H
439
463
202
2.55
10.89
27.385
7.632
T P
1pj5_A
827
463
190
2.32
15.26
26.658
7.842
T P
2q6u_A
383
463
203
2.55
11.82
26.439
7.649
T P
1knr_A
529
463
157
2.12
12.10
23.228
7.084
T P
2e1m_A
356
463
139
2.28
20.14
20.574
5.834
T P
1w4x_A
533
463
140
2.36
10.00
20.168
5.698
T P
2gjc_A
301
463
132
2.21
15.15
19.172
5.712
T P
2e1m_C
151
463
124
2.34
8.06
18.031
5.077
T P
1zrh_A
263
463
51
2.53
5.88
7.248
1.938
T P
2pmi_C
285
463
44
2.68
6.82
6.330
1.584
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]