LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_334.5wLII_11276_91
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 |
1ei5_A |
518 |
58 |
35 |
2.75 |
0.00 |
39.169 |
1.229 |
T P |
2aef_A |
221 |
58 |
26 |
2.67 |
11.54 |
31.927 |
0.937 |
T P |
1lnq_A |
301 |
58 |
26 |
2.38 |
3.85 |
31.869 |
1.047 |
T P |
2ogu_A |
221 |
58 |
26 |
2.63 |
7.69 |
30.604 |
0.951 |
T P |
1vct_A |
193 |
58 |
25 |
2.64 |
8.00 |
30.493 |
0.912 |
T P |
3fwz_A |
140 |
58 |
23 |
2.66 |
0.00 |
28.726 |
0.834 |
T P |
2fy8_A |
222 |
58 |
21 |
2.82 |
9.52 |
25.297 |
0.720 |
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]