LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_326.5wLII_11276_40
Total number of 3D structures: 17
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 |
2v1d_A |
666 |
70 |
66 |
1.21 |
21.21 |
92.055 |
5.055 |
T P |
2iw5_A |
666 |
70 |
65 |
1.09 |
21.54 |
91.109 |
5.450 |
T P |
2dq3_A |
425 |
70 |
66 |
1.31 |
15.15 |
90.639 |
4.667 |
T P |
1bg1_A |
559 |
70 |
65 |
1.35 |
10.77 |
89.912 |
4.478 |
T P |
2hko_A |
647 |
70 |
64 |
1.14 |
21.88 |
89.749 |
5.156 |
T P |
2z3y_A |
643 |
70 |
65 |
1.35 |
21.54 |
89.624 |
4.496 |
T P |
2dw4_A |
634 |
70 |
64 |
1.35 |
20.31 |
88.452 |
4.403 |
T P |
2h94_A |
647 |
70 |
64 |
1.35 |
20.31 |
88.227 |
4.419 |
T P |
1qvr_A |
803 |
70 |
64 |
1.74 |
15.62 |
86.522 |
3.476 |
T P |
1lrz_A |
400 |
70 |
62 |
1.53 |
17.74 |
85.357 |
3.792 |
T P |
2wb7_A |
525 |
70 |
62 |
1.49 |
6.45 |
82.895 |
3.896 |
T P |
1h6k_C |
733 |
70 |
59 |
1.76 |
13.56 |
78.383 |
3.165 |
T P |
2a01_A |
243 |
70 |
54 |
2.15 |
7.41 |
59.731 |
2.399 |
T P |
2ve7_B |
303 |
70 |
40 |
1.71 |
10.00 |
55.007 |
2.206 |
T P |
1f5n_A |
570 |
70 |
48 |
2.43 |
10.42 |
52.953 |
1.899 |
T P |
1gk4_A |
79 |
70 |
37 |
1.54 |
5.41 |
50.896 |
2.253 |
T P |
1ha0_A |
494 |
70 |
40 |
1.78 |
7.50 |
49.952 |
2.123 |
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]