LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_256.5wLII_11212_112
Total number of 3D structures: 9
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 |
3bff_A |
262 |
43 |
42 |
1.07 |
28.57 |
95.288 |
3.591 |
T P |
3bfe_A |
262 |
43 |
42 |
1.05 |
28.57 |
95.267 |
3.655 |
T P |
3bfd_A |
263 |
43 |
42 |
1.09 |
28.57 |
95.124 |
3.541 |
T P |
1c3g_A |
170 |
43 |
20 |
2.40 |
5.00 |
37.280 |
0.801 |
T P |
1nlt_A |
228 |
43 |
21 |
2.62 |
4.76 |
36.503 |
0.771 |
T P |
2qld_A |
171 |
43 |
21 |
2.47 |
0.00 |
35.846 |
0.817 |
T P |
2b26_A |
157 |
43 |
20 |
2.53 |
0.00 |
33.505 |
0.762 |
T P |
1xao_A |
115 |
43 |
20 |
2.65 |
5.00 |
33.276 |
0.727 |
T P |
2q2g_A |
176 |
43 |
16 |
2.88 |
6.25 |
25.241 |
0.537 |
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]