LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_325.5wLII_11276_39
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 |
1rrj_A |
565 |
97 |
61 |
1.79 |
14.75 |
59.100 |
3.230 |
T P |
1k4t_A |
565 |
97 |
61 |
1.76 |
13.11 |
58.811 |
3.275 |
T P |
1seu_A |
565 |
97 |
60 |
1.83 |
11.67 |
57.797 |
3.111 |
T P |
1r49_A |
548 |
97 |
58 |
1.58 |
31.03 |
57.483 |
3.459 |
T P |
1lpq_A |
557 |
97 |
60 |
1.74 |
31.67 |
57.438 |
3.268 |
T P |
2wb7_A |
525 |
97 |
61 |
2.19 |
8.20 |
52.942 |
2.668 |
T P |
1e2a_A |
102 |
97 |
56 |
1.82 |
5.36 |
52.889 |
2.921 |
T P |
2e2a_A |
104 |
97 |
55 |
1.90 |
9.09 |
51.311 |
2.746 |
T P |
2c6n_A |
612 |
97 |
56 |
2.50 |
5.36 |
42.861 |
2.153 |
T P |
2qtf_A |
311 |
97 |
44 |
2.12 |
20.45 |
39.147 |
1.983 |
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]