LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_293.5wLII_11238_43
Total number of 3D structures: 28
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
1c30_A
1058
100
80
1.76
16.25
75.518
4.303
T P
1a9x_A
1058
100
77
1.66
15.58
73.197
4.368
T P
1m6v_A
1059
100
77
1.59
15.58
72.785
4.556
T P
2z3y_A
643
100
46
2.21
8.70
36.682
1.993
T P
2iw5_A
666
100
42
2.03
9.52
36.351
1.976
T P
3cgh_A
507
100
55
2.70
1.82
36.062
1.963
T P
2v1d_A
666
100
41
2.05
9.76
32.798
1.905
T P
1x13_A
368
100
44
2.32
2.27
31.653
1.816
T P
2h94_A
647
100
40
2.09
7.50
31.382
1.826
T P
1ptj_B
366
100
46
2.38
10.87
31.037
1.857
T P
2hko_A
647
100
39
2.16
12.82
30.887
1.725
T P
2dw4_A
634
100
39
2.18
20.51
29.581
1.707
T P
2frd_B
362
100
42
2.47
2.38
29.405
1.637
T P
2fsv_A
366
100
39
2.26
2.56
29.063
1.655
T P
1nm5_A
360
100
36
2.31
2.78
28.626
1.497
T P
2q99_A
372
100
41
2.55
9.76
26.999
1.548
T P
2vhw_E
373
100
39
2.59
7.69
26.059
1.452
T P
2eez_A
343
100
39
2.66
15.38
25.625
1.414
T P
1l7d_B
358
100
37
2.65
2.70
24.473
1.348
T P
1pjc_A
361
100
35
2.61
8.57
24.152
1.293
T P
2fr8_A
354
100
36
2.82
2.78
24.145
1.232
T P
1exz_B
140
100
36
2.57
0.00
23.863
1.349
T P
2voe_A
371
100
34
2.92
2.94
23.605
1.124
T P
2qrl_A
371
100
37
2.67
10.81
23.391
1.334
T P
1f8g_A
382
100
33
2.52
12.12
23.269
1.260
T P
2vhv_A
371
100
33
2.74
3.03
22.850
1.164
T P
1v7p_A
134
100
24
2.54
12.50
19.186
0.908
T P
1scf_B
121
100
22
2.66
4.55
16.097
0.798
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]