LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_165.5wLII_11172_44
Total number of 3D structures: 9
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 |
3cqy_A |
370 |
334 |
312 |
0.46 |
34.62 |
93.052 |
55.384 |
T P |
3en9_A |
519 |
334 |
173 |
2.60 |
9.83 |
32.737 |
6.403 |
T P |
2vwb_A |
519 |
334 |
166 |
2.67 |
10.24 |
31.240 |
5.993 |
T P |
2ivn_A |
325 |
334 |
152 |
2.41 |
13.16 |
30.684 |
6.058 |
T P |
3eno_A |
329 |
334 |
150 |
2.43 |
12.00 |
30.162 |
5.917 |
T P |
3d2e_A |
629 |
334 |
152 |
2.56 |
11.18 |
29.672 |
5.719 |
T P |
2v7y_A |
504 |
334 |
136 |
2.55 |
13.97 |
26.450 |
5.139 |
T P |
1nmp_A |
247 |
334 |
74 |
2.60 |
6.76 |
14.133 |
2.743 |
T P |
2pan_A |
592 |
334 |
50 |
2.91 |
12.00 |
9.143 |
1.659 |
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]