LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_517.5wLII_11389_18
Total number of 3D structures: 9
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
1vdx_A
184
186
180
0.39
19.44
96.564
36.625
T P
1vgj_A
184
186
178
0.86
18.54
94.395
18.577
T P
2fyh_A
190
186
171
1.57
18.13
85.010
10.257
T P
1iuh_A
183
186
167
1.66
19.16
83.088
9.482
T P
2vfk_A
205
186
159
2.06
13.21
66.585
7.355
T P
2d4g_A
168
186
151
1.92
14.57
61.481
7.487
T P
1jh6_A
181
186
136
2.45
12.50
46.634
5.325
T P
1woj_A
209
186
100
2.39
13.00
37.047
4.024
T P
1n4t_A
219
186
81
2.65
8.64
28.311
2.940
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]