LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_461.5wLII_11346_18
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 |
1z59_A |
462 |
79 |
72 |
1.61 |
20.83 |
84.671 |
4.210 |
T P |
1mu5_A |
460 |
79 |
71 |
1.52 |
19.72 |
84.216 |
4.394 |
T P |
1z5b_A |
466 |
79 |
72 |
1.80 |
19.44 |
82.861 |
3.789 |
T P |
1mx0_C |
466 |
79 |
71 |
1.87 |
19.72 |
81.940 |
3.613 |
T P |
2zbk_B |
506 |
79 |
71 |
1.84 |
18.31 |
81.518 |
3.659 |
T P |
2q2e_B |
581 |
79 |
65 |
2.16 |
9.23 |
63.348 |
2.880 |
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]