LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_174.5wLII_11172_66
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 |
2hnh_A |
910 |
120 |
99 |
1.11 |
11.11 |
80.007 |
8.189 |
T P |
2hqa_A |
910 |
120 |
99 |
1.12 |
11.11 |
79.876 |
8.102 |
T P |
3e0d_A |
1148 |
120 |
98 |
2.00 |
8.16 |
69.703 |
4.674 |
T P |
2hpi_A |
1143 |
120 |
98 |
2.00 |
8.16 |
69.640 |
4.674 |
T P |
3f2b_A |
994 |
120 |
85 |
2.04 |
5.88 |
55.234 |
3.977 |
T P |
1reo_A |
484 |
120 |
41 |
2.92 |
0.00 |
23.321 |
1.360 |
T P |
2ap1_A |
305 |
120 |
39 |
2.57 |
5.13 |
21.640 |
1.463 |
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]