LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_16.5wLII_09975_7
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 |
1ain_A |
314 |
140 |
98 |
1.85 |
22.45 |
61.887 |
5.034 |
T P |
1aei_A |
315 |
140 |
90 |
1.77 |
27.78 |
59.050 |
4.815 |
T P |
1dm5_A |
315 |
140 |
89 |
1.66 |
29.21 |
58.008 |
5.064 |
T P |
1ys1_X |
320 |
140 |
54 |
2.58 |
3.70 |
26.327 |
2.017 |
T P |
3cnf_B |
924 |
140 |
55 |
2.71 |
1.82 |
24.342 |
1.956 |
T P |
4lip_D |
319 |
140 |
47 |
2.65 |
0.00 |
22.088 |
1.708 |
T P |
2j63_A |
333 |
140 |
46 |
2.60 |
4.35 |
21.674 |
1.701 |
T P |
2iy9_A |
309 |
140 |
41 |
2.95 |
9.76 |
17.846 |
1.344 |
T P |
1oqy_A |
363 |
140 |
32 |
2.24 |
15.62 |
17.558 |
1.368 |
T P |
1dn0_D |
217 |
140 |
32 |
2.55 |
6.25 |
15.560 |
1.209 |
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]