LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_351.5wLII_11276_170
Total number of 3D structures: 8
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 |
1nxz_A |
246 |
271 |
243 |
0.63 |
18.52 |
88.927 |
33.487 |
T P |
1vhy_A |
241 |
271 |
237 |
0.83 |
18.14 |
86.271 |
25.592 |
T P |
1vhk_C |
244 |
271 |
220 |
1.99 |
16.36 |
65.579 |
10.511 |
T P |
2egv_A |
229 |
271 |
211 |
1.95 |
18.96 |
58.653 |
10.293 |
T P |
1z85_B |
216 |
271 |
193 |
1.92 |
18.13 |
54.506 |
9.551 |
T P |
1v6z_A |
227 |
271 |
157 |
1.76 |
22.29 |
53.948 |
8.453 |
T P |
1zu0_A |
529 |
271 |
61 |
2.70 |
4.92 |
15.372 |
2.176 |
T P |
1mow_A |
248 |
271 |
48 |
2.75 |
6.25 |
10.690 |
1.681 |
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]