LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_344.5wLII_11276_130
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 |
2hf1_A |
61 |
61 |
56 |
0.75 |
33.93 |
91.710 |
6.571 |
T P |
2pk7_A |
64 |
61 |
49 |
1.32 |
38.78 |
79.257 |
3.462 |
T P |
2jr6_A |
68 |
61 |
51 |
1.89 |
37.25 |
75.472 |
2.559 |
T P |
2jny_A |
61 |
61 |
47 |
1.26 |
38.30 |
74.180 |
3.455 |
T P |
2js4_A |
70 |
61 |
47 |
1.54 |
42.55 |
72.110 |
2.862 |
T P |
2k5r_A |
97 |
61 |
43 |
1.58 |
25.58 |
67.788 |
2.559 |
T P |
2j6a_A |
136 |
61 |
39 |
1.81 |
28.21 |
60.684 |
2.043 |
T P |
1p91_A |
268 |
61 |
37 |
1.20 |
21.62 |
59.009 |
2.854 |
T P |
1pft_A |
50 |
61 |
33 |
1.87 |
27.27 |
50.084 |
1.678 |
T P |
2d74_B |
137 |
61 |
37 |
2.40 |
29.73 |
44.080 |
1.479 |
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]