LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_86.5wLII_11067_45
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 |
2k42_A |
72 |
65 |
62 |
0.63 |
19.35 |
94.474 |
8.464 |
T P |
1ej5_A |
107 |
65 |
60 |
1.60 |
18.33 |
86.457 |
3.520 |
T P |
2qb7_A |
393 |
65 |
43 |
2.62 |
4.65 |
44.205 |
1.581 |
T P |
2eb0_B |
307 |
65 |
34 |
2.42 |
2.94 |
40.479 |
1.348 |
T P |
2h5g_B |
425 |
65 |
30 |
2.12 |
3.33 |
38.424 |
1.352 |
T P |
1cee_B |
59 |
65 |
27 |
2.28 |
11.11 |
33.812 |
1.135 |
T P |
3e7h_A |
102 |
65 |
30 |
2.55 |
0.00 |
31.253 |
1.134 |
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]