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]