LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_410.5wLII_11277_153
Total number of 3D structures: 36
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
2bum_A
202
74
50
2.25
18.00
53.666
2.129
T P
2bux_A
202
74
48
2.73
25.00
47.822
1.694
T P
2pu6_A
283
74
36
2.70
13.89
32.388
1.287
T P
2og1_A
285
74
34
2.58
14.71
32.092
1.267
T P
2e3j_A
346
74
34
2.33
17.65
31.984
1.400
T P
1a8s_A
273
74
35
2.66
2.86
31.733
1.267
T P
1zoi_A
275
74
35
2.75
2.86
31.553
1.230
T P
2zjf_A
346
74
34
2.45
17.65
31.525
1.332
T P
1a8u_A
277
74
33
2.67
3.03
31.203
1.191
T P
3cxu_A
320
74
35
2.57
2.86
31.103
1.310
T P
1cqz_B
541
74
34
2.58
0.00
30.168
1.269
T P
2psf_A
307
74
33
2.60
3.03
30.119
1.224
T P
1brt_A
277
74
35
2.76
2.86
29.837
1.225
T P
1bro_A
277
74
33
2.67
3.03
29.114
1.190
T P
1zd3_A
547
74
33
2.82
12.12
28.839
1.130
T P
2vf2_A
284
74
33
2.76
3.03
28.599
1.155
T P
3fob_A
277
74
30
2.69
3.33
28.453
1.076
T P
1a88_A
275
74
30
2.57
6.67
28.309
1.125
T P
2cjp_A
320
74
30
2.41
6.67
28.203
1.193
T P
1y37_A
294
74
31
2.68
6.45
28.155
1.116
T P
1hkh_A
279
74
31
2.69
3.23
27.228
1.109
T P
1c4x_A
281
74
29
2.69
10.34
27.169
1.040
T P
2rhw_A
283
74
29
2.55
6.90
25.496
1.095
T P
1ehy_A
282
74
28
2.66
3.57
25.296
1.013
T P
2psd_A
305
74
30
2.86
0.00
25.172
1.014
T P
2puj_A
283
74
28
2.76
10.71
24.816
0.978
T P
1iup_A
271
74
25
2.68
4.00
23.385
0.899
T P
1bn6_A
291
74
25
2.57
0.00
23.372
0.937
T P
1m33_A
256
74
26
2.69
3.85
23.218
0.933
T P
1cqw_A
295
74
25
2.77
8.00
23.163
0.870
T P
2psj_A
306
74
24
2.63
0.00
22.521
0.879
T P
2v9z_A
302
74
26
2.81
3.85
22.340
0.893
T P
1va4_A
271
74
25
2.52
12.00
22.340
0.956
T P
1u2e_A
286
74
25
2.82
16.00
21.265
0.857
T P
2d0d_A
271
74
22
2.79
4.55
20.789
0.760
T P
1wom_A
271
74
22
2.71
0.00
20.485
0.782
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]