LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_263.5wLII_11226_7
Total number of 3D structures: 14
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 |
2p0o_A |
353 |
175 |
155 |
0.68 |
21.29 |
87.541 |
19.939 |
T P |
1x7f_A |
347 |
175 |
137 |
2.09 |
12.41 |
64.376 |
6.268 |
T P |
2fn9_A |
280 |
175 |
55 |
2.52 |
3.64 |
20.208 |
2.101 |
T P |
1zly_A |
200 |
175 |
42 |
3.01 |
4.76 |
16.054 |
1.351 |
T P |
2fn8_A |
292 |
175 |
41 |
2.66 |
0.00 |
15.569 |
1.485 |
T P |
1meo_A |
202 |
175 |
38 |
2.87 |
10.53 |
15.329 |
1.278 |
T P |
1mej_B |
201 |
175 |
38 |
3.14 |
10.53 |
14.832 |
1.175 |
T P |
2b3t_A |
276 |
175 |
37 |
2.73 |
18.92 |
13.774 |
1.306 |
T P |
1zlx_A |
200 |
175 |
34 |
2.78 |
5.88 |
13.309 |
1.180 |
T P |
1jkx_A |
209 |
175 |
30 |
2.68 |
3.33 |
13.102 |
1.081 |
T P |
2ywr_A |
216 |
175 |
35 |
2.94 |
5.71 |
13.057 |
1.151 |
T P |
2gar_A |
188 |
175 |
32 |
2.83 |
12.50 |
11.979 |
1.090 |
T P |
2v9y_A |
314 |
175 |
27 |
3.02 |
0.00 |
10.603 |
0.866 |
T P |
1c3e_A |
209 |
175 |
22 |
2.25 |
4.55 |
9.699 |
0.936 |
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]