LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_226.5wLII_11195_17
Total number of 3D structures: 10
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 |
2epi_A |
98 |
96 |
93 |
0.69 |
36.56 |
96.628 |
11.703 |
T P |
1lxn_A |
99 |
96 |
93 |
1.33 |
30.11 |
92.425 |
6.511 |
T P |
1lxj_A |
104 |
96 |
93 |
1.61 |
25.81 |
89.688 |
5.442 |
T P |
1yqh_A |
104 |
96 |
87 |
1.53 |
28.74 |
87.322 |
5.354 |
T P |
1vk8_C |
94 |
96 |
89 |
1.73 |
20.22 |
86.838 |
4.875 |
T P |
2ibo_A |
90 |
96 |
87 |
1.58 |
16.09 |
84.288 |
5.190 |
T P |
1s99_A |
186 |
96 |
78 |
1.48 |
15.38 |
77.472 |
4.927 |
T P |
1s7h_A |
186 |
96 |
77 |
1.48 |
15.58 |
76.713 |
4.887 |
T P |
2iid_A |
483 |
96 |
53 |
2.57 |
9.43 |
36.205 |
1.986 |
T P |
1knv_B |
291 |
96 |
42 |
2.23 |
4.76 |
34.894 |
1.799 |
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]