LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_550.5wLII_11391_14
Total number of 3D structures: 5
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 |
1y0g_A |
169 |
174 |
164 |
0.48 |
40.24 |
93.671 |
28.279 |
T P |
1uf6_A |
176 |
174 |
157 |
1.39 |
34.39 |
86.250 |
10.533 |
T P |
2fgs_A |
169 |
174 |
139 |
1.37 |
28.06 |
77.569 |
9.425 |
T P |
3cb9_A |
228 |
174 |
71 |
2.16 |
9.86 |
31.050 |
3.147 |
T P |
3dtn_A |
220 |
174 |
42 |
2.80 |
4.76 |
15.678 |
1.451 |
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]