LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_300.5wLII_11238_61
Total number of 3D structures: 46
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
3b8w_A
358
143
83
1.36
9.64
56.143
5.667
T P
2rjg_A
358
143
82
1.19
9.76
55.680
6.373
T P
3b8t_A
358
143
82
1.20
10.98
55.634
6.313
T P
3b8v_A
358
143
82
1.24
9.76
55.579
6.121
T P
3b8u_A
358
143
82
1.26
9.76
55.573
6.014
T P
1vfs_A
382
143
80
1.63
6.25
53.365
4.617
T P
1rcq_A
356
143
81
1.82
6.17
52.395
4.219
T P
2odo_A
354
143
81
1.88
8.64
51.853
4.099
T P
2sfp_A
378
143
82
1.99
6.10
51.528
3.925
T P
1epv_A
381
143
81
1.99
6.17
51.232
3.881
T P
1xql_A
381
143
80
1.95
6.25
51.081
3.908
T P
2vd9_A
386
143
78
1.84
5.13
50.996
4.020
T P
1bd0_A
381
143
81
2.07
6.17
50.181
3.729
T P
2vd8_A
386
143
77
1.97
6.49
50.021
3.727
T P
1xfc_A
366
143
73
1.59
4.11
49.096
4.314
T P
2dy3_D
344
143
75
1.86
8.00
48.799
3.826
T P
3co8_A
360
143
71
1.96
11.27
43.767
3.451
T P
1foh_C
656
143
51
2.54
7.84
24.415
1.930
T P
1bgj_A
391
143
45
2.55
2.22
20.910
1.700
T P
1bf3_A
391
143
43
2.65
9.30
20.845
1.561
T P
2vou_A
393
143
43
2.55
6.98
20.597
1.620
T P
1dob_A
394
143
43
2.67
6.98
20.546
1.551
T P
1pbe_A
391
143
42
2.60
9.52
20.503
1.553
T P
1pxc_A
394
143
46
2.59
8.70
20.319
1.713
T P
1cc4_A
391
143
44
2.65
6.82
20.286
1.602
T P
1pbd_A
391
143
44
2.75
4.55
20.243
1.543
T P
3c96_A
381
143
44
2.63
4.55
20.172
1.611
T P
2rgj_A
376
143
44
2.70
6.82
19.767
1.574
T P
1doc_A
394
143
43
2.63
4.65
19.617
1.577
T P
1ykj_A
394
143
45
2.83
2.22
19.602
1.537
T P
1cj2_A
391
143
41
2.59
4.88
19.575
1.522
T P
1bkw_A
391
143
43
2.67
2.33
19.569
1.554
T P
1k0i_A
394
143
41
2.67
2.44
19.347
1.479
T P
1pn0_C
656
143
43
2.83
9.30
18.960
1.466
T P
2qa2_A
489
143
42
2.69
2.38
18.599
1.503
T P
2dkh_A
614
143
41
2.78
7.32
18.579
1.426
T P
1cc6_A
391
143
38
2.84
5.26
18.471
1.292
T P
1cj3_A
392
143
39
2.65
7.69
18.451
1.417
T P
1cj4_A
392
143
38
2.58
5.26
18.097
1.417
T P
1bgn_A
391
143
38
2.75
10.53
17.849
1.333
T P
1pxb_A
394
143
36
2.53
5.56
17.665
1.366
T P
1pbf_A
391
143
36
2.69
8.33
16.366
1.290
T P
2qa1_A
488
143
33
2.59
3.03
16.343
1.228
T P
2hai_A
562
143
34
2.59
5.88
16.201
1.264
T P
2r0c_A
509
143
33
2.83
3.03
15.099
1.127
T P
1pxa_A
394
143
28
2.88
3.57
13.527
0.938
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]