LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_237.5wLII_11212_36
Total number of 3D structures: 11
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 |
3ec1_A |
311 |
143 |
108 |
1.30 |
15.74 |
74.764 |
7.727 |
T P |
1kag_A |
158 |
143 |
43 |
2.29 |
4.65 |
21.358 |
1.802 |
T P |
2iyv_A |
179 |
143 |
44 |
2.58 |
6.82 |
20.840 |
1.644 |
T P |
2hjg_A |
400 |
143 |
38 |
2.43 |
10.53 |
18.766 |
1.502 |
T P |
1e6c_A |
170 |
143 |
41 |
2.82 |
2.44 |
17.979 |
1.405 |
T P |
2pt5_B |
168 |
143 |
38 |
2.67 |
5.26 |
17.711 |
1.370 |
T P |
3c37_A |
223 |
143 |
35 |
2.73 |
2.86 |
15.874 |
1.236 |
T P |
2g1k_A |
168 |
143 |
32 |
2.53 |
6.25 |
15.230 |
1.218 |
T P |
3cqb_A |
103 |
143 |
29 |
2.48 |
6.90 |
15.062 |
1.126 |
T P |
1zuh_A |
151 |
143 |
31 |
2.81 |
12.90 |
14.506 |
1.065 |
T P |
1shk_B |
159 |
143 |
31 |
2.74 |
3.23 |
14.506 |
1.090 |
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]