LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_176.5wLII_11172_72
Total number of 3D structures: 13
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 |
1q06_B |
126 |
91 |
86 |
0.65 |
17.44 |
93.744 |
11.432 |
T P |
1r8d_A |
109 |
91 |
80 |
1.54 |
11.25 |
82.104 |
4.871 |
T P |
1r8e_A |
275 |
91 |
81 |
1.72 |
11.11 |
81.449 |
4.444 |
T P |
3d6z_A |
277 |
91 |
81 |
1.74 |
11.11 |
81.386 |
4.391 |
T P |
3d70_A |
276 |
91 |
81 |
1.77 |
11.11 |
81.367 |
4.327 |
T P |
3d71_A |
277 |
91 |
81 |
1.74 |
11.11 |
81.261 |
4.394 |
T P |
2dg6_A |
207 |
91 |
75 |
1.85 |
12.00 |
75.318 |
3.842 |
T P |
2zhg_A |
121 |
91 |
79 |
1.97 |
12.66 |
72.833 |
3.818 |
T P |
2jml_A |
81 |
91 |
65 |
2.06 |
10.77 |
54.216 |
3.004 |
T P |
1q08_A |
94 |
91 |
46 |
1.52 |
17.39 |
46.742 |
2.841 |
T P |
1l1l_A |
717 |
91 |
46 |
2.33 |
8.70 |
39.985 |
1.894 |
T P |
1v8f_A |
276 |
91 |
32 |
2.21 |
0.00 |
28.073 |
1.383 |
T P |
1ufv_A |
276 |
91 |
25 |
2.70 |
8.00 |
20.077 |
0.894 |
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]