LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_420.5wLII_11277_201
Total number of 3D structures: 16
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 |
1req_D |
622 |
107 |
55 |
2.42 |
9.09 |
35.746 |
2.186 |
T P |
3bic_A |
715 |
107 |
44 |
2.13 |
13.64 |
34.493 |
1.970 |
T P |
1e1c_A |
727 |
107 |
43 |
2.45 |
20.93 |
33.692 |
1.688 |
T P |
5req_A |
725 |
107 |
54 |
2.84 |
9.26 |
32.516 |
1.839 |
T P |
1req_A |
727 |
107 |
51 |
2.77 |
13.73 |
31.862 |
1.776 |
T P |
2ob1_A |
319 |
107 |
45 |
2.51 |
6.67 |
26.827 |
1.723 |
T P |
2ob2_A |
326 |
107 |
39 |
2.70 |
10.26 |
24.329 |
1.395 |
T P |
1rjd_C |
333 |
107 |
36 |
2.49 |
8.33 |
24.257 |
1.389 |
T P |
1c30_B |
379 |
107 |
40 |
2.67 |
7.50 |
23.773 |
1.444 |
T P |
1a9x_B |
378 |
107 |
38 |
2.83 |
10.53 |
23.518 |
1.296 |
T P |
1jdb_F |
380 |
107 |
35 |
2.57 |
5.71 |
23.455 |
1.310 |
T P |
2qe6_A |
265 |
107 |
34 |
2.38 |
2.94 |
23.233 |
1.372 |
T P |
1t36_B |
379 |
107 |
37 |
2.57 |
8.11 |
22.762 |
1.384 |
T P |
1m6v_B |
375 |
107 |
37 |
2.70 |
10.81 |
22.388 |
1.321 |
T P |
1cs0_B |
378 |
107 |
35 |
2.74 |
5.71 |
21.637 |
1.232 |
T P |
2uyo_A |
275 |
107 |
34 |
2.61 |
5.88 |
21.422 |
1.253 |
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]