LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_36.5wLII_10850_3
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 |
3c1y_A |
349 |
164 |
153 |
0.84 |
20.26 |
92.694 |
16.218 |
T P |
2fb5_A |
204 |
164 |
114 |
1.91 |
44.74 |
55.603 |
5.667 |
T P |
3b45_A |
180 |
164 |
36 |
2.58 |
11.11 |
14.955 |
1.345 |
T P |
2o7l_A |
175 |
164 |
35 |
2.41 |
11.43 |
14.518 |
1.394 |
T P |
2irv_B |
179 |
164 |
34 |
2.67 |
8.82 |
13.639 |
1.228 |
T P |
2ic8_A |
182 |
164 |
32 |
2.85 |
3.12 |
13.303 |
1.084 |
T P |
3b44_A |
180 |
164 |
26 |
2.50 |
7.69 |
11.170 |
0.998 |
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]