LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_277.5wLII_11238_2
Total number of 3D structures: 14
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 |
1wu8_A |
256 |
254 |
246 |
0.69 |
32.52 |
96.063 |
31.123 |
T P |
2zbv_A |
263 |
254 |
236 |
1.45 |
30.51 |
88.251 |
15.239 |
T P |
2q6k_A |
257 |
254 |
241 |
1.69 |
21.58 |
87.825 |
13.498 |
T P |
2q6o_A |
269 |
254 |
241 |
1.76 |
21.58 |
87.289 |
12.937 |
T P |
2q6l_A |
257 |
254 |
236 |
1.62 |
22.46 |
86.283 |
13.757 |
T P |
2v7x_A |
291 |
254 |
239 |
1.78 |
24.27 |
85.255 |
12.713 |
T P |
2v7w_A |
291 |
254 |
239 |
1.88 |
23.43 |
82.651 |
12.098 |
T P |
1rqp_A |
291 |
254 |
238 |
1.88 |
23.53 |
82.444 |
12.030 |
T P |
2cw5_C |
238 |
254 |
214 |
1.60 |
30.37 |
78.160 |
12.557 |
T P |
1rqr_A |
291 |
254 |
237 |
1.84 |
23.21 |
77.190 |
12.220 |
T P |
2f4n_B |
239 |
254 |
214 |
1.84 |
29.91 |
76.751 |
11.040 |
T P |
1cm5_A |
759 |
254 |
68 |
2.58 |
2.94 |
16.997 |
2.539 |
T P |
1qhm_A |
611 |
254 |
61 |
2.85 |
4.92 |
15.520 |
2.070 |
T P |
1h16_A |
759 |
254 |
61 |
2.83 |
3.28 |
15.143 |
2.083 |
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]