LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_101.5wLII_11068_74
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 |
1o5z_A |
421 |
81 |
74 |
0.99 |
31.08 |
90.096 |
6.761 |
T P |
3bzp_A |
100 |
81 |
35 |
2.30 |
11.43 |
34.380 |
1.460 |
T P |
3bzt_A |
101 |
81 |
30 |
2.25 |
13.33 |
31.381 |
1.276 |
T P |
3bzs_A |
94 |
81 |
30 |
2.27 |
10.00 |
30.431 |
1.268 |
T P |
3bzv_B |
80 |
81 |
29 |
2.17 |
13.79 |
30.342 |
1.276 |
T P |
3bzz_B |
81 |
81 |
33 |
2.35 |
9.09 |
29.547 |
1.349 |
T P |
3c00_B |
83 |
81 |
30 |
2.23 |
13.33 |
29.186 |
1.290 |
T P |
3c03_C |
80 |
81 |
30 |
2.09 |
10.00 |
28.556 |
1.371 |
T P |
3bzx_B |
83 |
81 |
26 |
2.65 |
3.85 |
22.346 |
0.946 |
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]