LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_96.5wLII_11068_50
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 |
1iwl_A |
177 |
197 |
177 |
0.33 |
20.90 |
89.768 |
41.137 |
T P |
2zpd_A |
183 |
197 |
164 |
1.92 |
20.73 |
62.742 |
8.130 |
T P |
2yzy_A |
163 |
197 |
133 |
2.36 |
10.53 |
46.707 |
5.399 |
T P |
3bk5_A |
235 |
197 |
123 |
2.24 |
12.20 |
43.616 |
5.247 |
T P |
3buu_A |
224 |
197 |
120 |
2.52 |
8.33 |
40.666 |
4.584 |
T P |
2p4b_A |
284 |
197 |
103 |
2.49 |
10.68 |
36.570 |
3.971 |
T P |
2v43_B |
276 |
197 |
104 |
2.40 |
7.69 |
36.541 |
4.162 |
T P |
2ra1_A |
412 |
197 |
45 |
2.73 |
8.89 |
14.819 |
1.588 |
T P |
2sqc_A |
623 |
197 |
42 |
2.86 |
7.14 |
13.364 |
1.420 |
T P |
1o4z_B |
297 |
197 |
35 |
2.85 |
11.43 |
12.432 |
1.188 |
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]