LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_22.5wLII_10601_9
Total number of 3D structures: 6
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 |
1wp1_A |
456 |
435 |
401 |
1.46 |
16.96 |
87.137 |
25.697 |
T P |
1yc9_A |
411 |
435 |
354 |
2.03 |
13.84 |
60.235 |
16.635 |
T P |
2vde_A |
428 |
435 |
335 |
1.94 |
12.84 |
57.900 |
16.404 |
T P |
1ek9_A |
428 |
435 |
327 |
1.98 |
13.76 |
56.316 |
15.723 |
T P |
1tqq_A |
428 |
435 |
323 |
1.95 |
13.31 |
56.184 |
15.772 |
T P |
1c1g_A |
284 |
435 |
76 |
1.41 |
13.16 |
16.596 |
5.047 |
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]