LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_294.5wLII_11238_45
Total number of 3D structures: 23
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 |
1mjh_B |
144 |
146 |
142 |
0.66 |
21.13 |
96.404 |
18.677 |
T P |
2jax_A |
261 |
146 |
125 |
1.78 |
15.20 |
78.611 |
6.636 |
T P |
2z08_A |
123 |
146 |
119 |
1.52 |
26.89 |
76.493 |
7.341 |
T P |
2gm3_A |
153 |
146 |
114 |
1.40 |
13.16 |
73.973 |
7.579 |
T P |
3fdx_A |
127 |
146 |
113 |
1.74 |
19.47 |
71.705 |
6.126 |
T P |
2pfs_A |
125 |
146 |
107 |
1.68 |
24.30 |
69.617 |
6.008 |
T P |
3fh0_A |
125 |
146 |
113 |
1.75 |
19.47 |
69.548 |
6.108 |
T P |
2dum_C |
146 |
146 |
119 |
1.70 |
21.85 |
69.346 |
6.605 |
T P |
3dlo_D |
135 |
146 |
113 |
1.82 |
19.47 |
68.221 |
5.894 |
T P |
3fg9_A |
156 |
146 |
117 |
1.89 |
19.66 |
62.919 |
5.885 |
T P |
1tq8_A |
127 |
146 |
97 |
1.90 |
11.34 |
60.363 |
4.852 |
T P |
1jmv_A |
140 |
146 |
109 |
1.97 |
14.68 |
59.452 |
5.264 |
T P |
1q77_A |
138 |
146 |
101 |
2.19 |
8.91 |
49.427 |
4.408 |
T P |
1k7y_A |
577 |
146 |
75 |
2.05 |
17.33 |
41.731 |
3.487 |
T P |
1bmt_A |
246 |
146 |
75 |
2.04 |
17.33 |
41.579 |
3.497 |
T P |
3bul_A |
577 |
146 |
73 |
2.10 |
16.44 |
39.679 |
3.323 |
T P |
3e70_C |
307 |
146 |
86 |
2.65 |
9.30 |
39.389 |
3.130 |
T P |
2bcp_A |
473 |
146 |
75 |
2.33 |
12.00 |
35.873 |
3.090 |
T P |
2bc0_A |
473 |
146 |
81 |
2.49 |
7.41 |
34.990 |
3.131 |
T P |
2au3_A |
403 |
146 |
62 |
2.20 |
11.29 |
33.002 |
2.699 |
T P |
2qni_A |
194 |
146 |
64 |
2.37 |
10.94 |
32.447 |
2.595 |
T P |
3e74_B |
432 |
146 |
57 |
2.60 |
8.77 |
25.306 |
2.110 |
T P |
2fyh_A |
190 |
146 |
36 |
2.59 |
8.33 |
15.833 |
1.336 |
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]