LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_242.5wLII_11212_61
Total number of 3D structures: 11
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 |
3c8c_A |
240 |
267 |
238 |
0.48 |
16.81 |
88.769 |
41.011 |
T P |
3e4p_A |
254 |
267 |
184 |
2.05 |
9.78 |
49.972 |
8.555 |
T P |
2zbb_A |
255 |
267 |
190 |
2.15 |
10.53 |
48.744 |
8.437 |
T P |
2p7j_B |
274 |
267 |
194 |
2.38 |
9.28 |
46.384 |
7.811 |
T P |
3by9_A |
259 |
267 |
190 |
2.28 |
8.42 |
46.051 |
7.978 |
T P |
3e4o_A |
254 |
267 |
178 |
2.14 |
10.67 |
45.946 |
7.957 |
T P |
3fos_A |
207 |
267 |
181 |
2.21 |
12.71 |
45.873 |
7.825 |
T P |
2qhk_A |
148 |
267 |
104 |
2.23 |
10.58 |
28.563 |
4.458 |
T P |
2w27_A |
401 |
267 |
95 |
2.38 |
11.58 |
24.087 |
3.827 |
T P |
2bas_A |
402 |
267 |
92 |
2.46 |
7.61 |
23.804 |
3.596 |
T P |
1j3w_B |
135 |
267 |
69 |
2.11 |
11.59 |
18.774 |
3.119 |
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]