LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_16.5wLII_09975_7
Total number of 3D structures: 10
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
1ain_A
314
140
98
1.85
22.45
61.887
5.034
T P
1aei_A
315
140
90
1.77
27.78
59.050
4.815
T P
1dm5_A
315
140
89
1.66
29.21
58.008
5.064
T P
1ys1_X
320
140
54
2.58
3.70
26.327
2.017
T P
3cnf_B
924
140
55
2.71
1.82
24.342
1.956
T P
4lip_D
319
140
47
2.65
0.00
22.088
1.708
T P
2j63_A
333
140
46
2.60
4.35
21.674
1.701
T P
2iy9_A
309
140
41
2.95
9.76
17.846
1.344
T P
1oqy_A
363
140
32
2.24
15.62
17.558
1.368
T P
1dn0_D
217
140
32
2.55
6.25
15.560
1.209
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]