LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_155.5wLII_11111_103
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 |
1dos_A |
358 |
392 |
333 |
1.18 |
19.22 |
81.943 |
25.955 |
T P |
1b57_A |
346 |
392 |
312 |
1.25 |
19.87 |
76.185 |
23.173 |
T P |
3elf_A |
332 |
392 |
289 |
1.71 |
15.57 |
67.579 |
15.949 |
T P |
3c4u_A |
292 |
392 |
249 |
1.78 |
22.09 |
57.886 |
13.259 |
T P |
1gvf_B |
275 |
392 |
247 |
1.78 |
21.05 |
57.376 |
13.151 |
T P |
1rvg_B |
305 |
392 |
248 |
1.73 |
19.76 |
57.366 |
13.586 |
T P |
2isw_A |
307 |
392 |
246 |
1.72 |
19.51 |
57.218 |
13.524 |
T P |
2fjk_A |
305 |
392 |
246 |
1.70 |
20.33 |
55.228 |
13.689 |
T P |
2fiq_A |
410 |
392 |
208 |
2.31 |
11.06 |
34.306 |
8.643 |
T P |
2rag_A |
369 |
392 |
125 |
2.56 |
7.20 |
19.738 |
4.706 |
T P |
2jc6_A |
278 |
392 |
56 |
2.76 |
8.93 |
9.595 |
1.956 |
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]