LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_163.5wLII_11172_22
Total number of 3D structures: 8
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 |
1jqo_A |
904 |
518 |
452 |
1.55 |
19.25 |
82.007 |
27.350 |
T P |
1jqn_A |
874 |
518 |
441 |
1.98 |
16.10 |
72.381 |
21.172 |
T P |
2onk_A |
240 |
518 |
68 |
2.40 |
13.24 |
9.731 |
2.720 |
T P |
1wle_B |
469 |
518 |
66 |
2.48 |
7.58 |
9.132 |
2.562 |
T P |
3c3r_A |
357 |
518 |
68 |
2.70 |
5.88 |
8.611 |
2.428 |
T P |
2r05_A |
697 |
518 |
72 |
2.90 |
1.39 |
8.599 |
2.402 |
T P |
2ovj_A |
201 |
518 |
60 |
2.63 |
10.00 |
7.434 |
2.200 |
T P |
2oev_A |
697 |
518 |
53 |
2.77 |
11.32 |
6.580 |
1.844 |
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]