LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_13.5wLII_09933_4
Total number of 3D structures: 8
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 |
3c68_A |
758 |
138 |
112 |
1.69 |
18.75 |
75.299 |
6.240 |
T P |
2ds3_A |
758 |
138 |
111 |
1.72 |
18.92 |
74.631 |
6.097 |
T P |
2z07_B |
403 |
138 |
85 |
2.15 |
11.76 |
50.117 |
3.781 |
T P |
3cq5_B |
366 |
138 |
46 |
2.73 |
8.70 |
21.317 |
1.624 |
T P |
2fuk_A |
218 |
138 |
43 |
2.60 |
2.33 |
19.929 |
1.592 |
T P |
3cq6_A |
363 |
138 |
38 |
2.75 |
5.26 |
18.542 |
1.334 |
T P |
3cq4_A |
357 |
138 |
31 |
2.79 |
6.45 |
15.584 |
1.074 |
T P |
1ega_B |
293 |
138 |
32 |
2.70 |
0.00 |
15.368 |
1.142 |
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]