LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_48.5wLII_10933_31
Total number of 3D structures: 7
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 |
2v43_B |
276 |
202 |
176 |
0.72 |
16.48 |
86.160 |
21.396 |
T P |
2p4b_A |
284 |
202 |
176 |
0.77 |
16.48 |
85.965 |
20.178 |
T P |
2yzy_A |
163 |
202 |
127 |
1.97 |
11.81 |
47.556 |
6.137 |
T P |
2zpd_A |
183 |
202 |
116 |
2.46 |
4.31 |
41.217 |
4.529 |
T P |
3bk5_A |
235 |
202 |
107 |
2.31 |
5.61 |
39.650 |
4.446 |
T P |
3buu_A |
224 |
202 |
97 |
2.20 |
7.22 |
36.756 |
4.226 |
T P |
1iwl_A |
177 |
202 |
107 |
2.47 |
5.61 |
35.328 |
4.165 |
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]