LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_107.5wLII_11068_90
Total number of 3D structures: 34
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 |
2zuo_A |
812 |
112 |
82 |
2.30 |
3.66 |
59.425 |
3.414 |
T P |
1ei3_C |
397 |
112 |
66 |
2.06 |
7.58 |
51.692 |
3.052 |
T P |
1m1j_C |
390 |
112 |
63 |
1.93 |
6.35 |
50.392 |
3.108 |
T P |
1f5n_A |
570 |
112 |
69 |
2.32 |
1.45 |
48.554 |
2.856 |
T P |
1y1u_A |
544 |
112 |
71 |
2.41 |
7.04 |
47.792 |
2.826 |
T P |
1gk4_A |
79 |
112 |
56 |
1.78 |
5.36 |
46.773 |
2.986 |
T P |
3cwg_B |
507 |
112 |
64 |
2.42 |
14.06 |
46.387 |
2.541 |
T P |
1c1g_A |
284 |
112 |
71 |
2.50 |
5.63 |
45.908 |
2.727 |
T P |
2h94_A |
647 |
112 |
57 |
2.04 |
5.26 |
45.655 |
2.662 |
T P |
2rd0_B |
139 |
112 |
57 |
2.18 |
1.75 |
45.083 |
2.501 |
T P |
1cii_A |
602 |
112 |
61 |
2.56 |
9.84 |
44.583 |
2.291 |
T P |
1jch_A |
468 |
112 |
61 |
2.24 |
3.28 |
44.528 |
2.605 |
T P |
1bg1_A |
559 |
112 |
61 |
2.21 |
13.11 |
44.243 |
2.635 |
T P |
2ve7_B |
303 |
112 |
60 |
2.26 |
6.67 |
44.156 |
2.541 |
T P |
2b5u_A |
470 |
112 |
61 |
2.24 |
3.28 |
43.846 |
2.602 |
T P |
2fxm_A |
126 |
112 |
65 |
2.60 |
15.38 |
43.219 |
2.404 |
T P |
2v1d_A |
666 |
112 |
56 |
2.11 |
14.29 |
43.017 |
2.536 |
T P |
2v71_A |
160 |
112 |
58 |
2.49 |
8.62 |
41.057 |
2.242 |
T P |
2b9c_B |
142 |
112 |
61 |
2.52 |
9.84 |
39.879 |
2.329 |
T P |
2iw5_A |
666 |
112 |
55 |
2.13 |
5.45 |
39.790 |
2.470 |
T P |
1qvr_A |
803 |
112 |
51 |
2.07 |
7.84 |
39.661 |
2.353 |
T P |
2fxo_A |
129 |
112 |
62 |
2.63 |
8.06 |
39.429 |
2.273 |
T P |
2efr_A |
155 |
112 |
59 |
2.45 |
8.47 |
39.397 |
2.315 |
T P |
1wle_B |
469 |
112 |
51 |
2.11 |
7.84 |
39.064 |
2.303 |
T P |
2hko_A |
647 |
112 |
52 |
2.33 |
7.69 |
37.414 |
2.137 |
T P |
2z3y_A |
643 |
112 |
52 |
2.20 |
9.62 |
37.230 |
2.263 |
T P |
2dw4_A |
634 |
112 |
47 |
2.13 |
2.13 |
36.759 |
2.106 |
T P |
2qzv_A |
749 |
112 |
52 |
2.34 |
5.77 |
35.478 |
2.132 |
T P |
1lrz_A |
400 |
112 |
44 |
2.14 |
9.09 |
32.755 |
1.965 |
T P |
1pix_A |
586 |
112 |
46 |
2.16 |
10.87 |
31.940 |
2.037 |
T P |
1ha0_A |
494 |
112 |
44 |
2.37 |
4.55 |
30.758 |
1.781 |
T P |
2wb7_A |
525 |
112 |
45 |
2.47 |
6.67 |
28.832 |
1.750 |
T P |
1d9x_A |
590 |
112 |
36 |
2.20 |
11.11 |
27.100 |
1.568 |
T P |
1vyh_C |
310 |
112 |
21 |
2.71 |
4.76 |
12.728 |
0.747 |
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]