LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_227.5wLII_11195_19
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 |
2a8e_A |
210 |
206 |
199 |
0.54 |
27.14 |
96.059 |
30.983 |
T P |
2r82_A |
872 |
206 |
65 |
2.64 |
9.23 |
22.117 |
2.370 |
T P |
1kbl_A |
872 |
206 |
69 |
2.61 |
11.59 |
22.023 |
2.550 |
T P |
1buk |
869 |
206 |
68 |
2.66 |
7.35 |
21.513 |
2.460 |
T P |
2dik_A |
869 |
206 |
68 |
2.66 |
7.35 |
21.513 |
2.460 |
T P |
1jde_A |
868 |
206 |
60 |
2.81 |
10.00 |
19.547 |
2.064 |
T P |
1dik_A |
869 |
206 |
60 |
2.86 |
11.67 |
18.758 |
2.027 |
T P |
1ggo_A |
869 |
206 |
55 |
2.65 |
12.73 |
18.211 |
1.998 |
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]