LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_273.5wLII_11233_49
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 |
3erv_A |
200 |
170 |
153 |
1.41 |
16.34 |
84.605 |
10.130 |
T P |
2bu3_B |
204 |
170 |
125 |
2.00 |
14.40 |
55.997 |
5.954 |
T P |
2btw_B |
210 |
170 |
125 |
2.10 |
14.40 |
53.979 |
5.684 |
T P |
1pvj_A |
339 |
170 |
122 |
2.18 |
18.03 |
50.800 |
5.341 |
T P |
1x9y_A |
346 |
170 |
120 |
2.22 |
16.67 |
49.515 |
5.178 |
T P |
2fty_A |
531 |
170 |
49 |
2.43 |
4.08 |
19.593 |
1.935 |
T P |
1zd3_A |
547 |
170 |
41 |
2.85 |
0.00 |
15.793 |
1.391 |
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]