LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_122.5wLII_11077_29.FR_1_700
Total number of 3D structures: 7
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 |
2r19_B |
141 |
144 |
134 |
0.95 |
11.19 |
91.112 |
12.799 |
T P |
2qdz_A |
516 |
144 |
65 |
2.13 |
4.62 |
35.364 |
2.911 |
T P |
1f1s_A |
814 |
144 |
59 |
2.03 |
11.86 |
34.099 |
2.768 |
T P |
2vqi_A |
477 |
144 |
65 |
2.22 |
1.54 |
32.744 |
2.799 |
T P |
1k28_A |
557 |
144 |
49 |
2.26 |
8.16 |
26.255 |
2.073 |
T P |
2z6b_A |
573 |
144 |
48 |
2.46 |
8.33 |
25.342 |
1.874 |
T P |
1wth_A |
571 |
144 |
15 |
2.97 |
0.00 |
8.519 |
0.488 |
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]