LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_463.5wLII_11346_24
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 |
2iuy_A |
340 |
64 |
61 |
1.12 |
22.95 |
94.709 |
5.012 |
T P |
2iv3_C |
340 |
64 |
60 |
0.77 |
23.33 |
93.997 |
6.891 |
T P |
3c2w_C |
482 |
64 |
39 |
2.36 |
7.69 |
45.886 |
1.585 |
T P |
2vea_A |
500 |
64 |
29 |
2.29 |
3.45 |
35.088 |
1.211 |
T P |
1ztu_A |
313 |
64 |
28 |
2.42 |
0.00 |
32.884 |
1.112 |
T P |
2o9c_A |
319 |
64 |
25 |
2.19 |
0.00 |
31.373 |
1.090 |
T P |
2k2n_A |
172 |
64 |
27 |
2.41 |
0.00 |
31.050 |
1.075 |
T P |
2ool_A |
304 |
64 |
26 |
2.60 |
7.69 |
29.972 |
0.963 |
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]