LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_175.5wLII_11172_69
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 |
1dce_A |
567 |
91 |
76 |
1.05 |
31.58 |
81.536 |
6.586 |
T P |
3dss_A |
313 |
91 |
75 |
1.10 |
32.00 |
80.557 |
6.255 |
T P |
3c72_A |
306 |
91 |
75 |
1.09 |
32.00 |
80.282 |
6.322 |
T P |
1ltx_A |
536 |
91 |
75 |
1.46 |
32.00 |
78.832 |
4.820 |
T P |
2d6f_D |
522 |
91 |
43 |
2.09 |
6.98 |
39.524 |
1.962 |
T P |
1ls3_A |
465 |
91 |
47 |
2.21 |
10.64 |
39.074 |
2.035 |
T P |
2f2a_B |
408 |
91 |
43 |
2.14 |
6.98 |
38.640 |
1.923 |
T P |
1rv3_B |
466 |
91 |
47 |
2.38 |
10.64 |
37.715 |
1.893 |
T P |
1zq1_C |
508 |
91 |
41 |
2.33 |
14.63 |
37.321 |
1.690 |
T P |
1cj0_B |
466 |
91 |
41 |
2.28 |
2.44 |
34.043 |
1.723 |
T P |
1rvu_B |
466 |
91 |
40 |
2.20 |
2.50 |
33.981 |
1.737 |
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]