LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_434.5wLII_11277_262
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 |
1wlg_A |
293 |
336 |
263 |
1.59 |
27.00 |
72.894 |
15.519 |
T P |
1cgt_A |
684 |
336 |
63 |
2.59 |
4.76 |
12.364 |
2.339 |
T P |
6cgt_A |
684 |
336 |
58 |
2.73 |
3.45 |
11.265 |
2.050 |
T P |
1cwv_A |
484 |
336 |
51 |
2.69 |
5.88 |
10.832 |
1.829 |
T P |
3cgt_A |
684 |
336 |
52 |
2.82 |
11.54 |
10.075 |
1.778 |
T P |
1df9_A |
177 |
336 |
47 |
2.80 |
6.38 |
9.552 |
1.622 |
T P |
2d4y_A |
429 |
336 |
52 |
2.69 |
7.69 |
9.463 |
1.866 |
T P |
4cgt_A |
678 |
336 |
42 |
2.72 |
7.14 |
8.662 |
1.488 |
T P |
1cgu_A |
684 |
336 |
39 |
2.79 |
7.69 |
7.861 |
1.352 |
T P |
2ggv_B |
169 |
336 |
33 |
2.39 |
6.06 |
7.290 |
1.328 |
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]