LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_134.5wLII_11080_2
Total number of 3D structures: 12
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 |
1fl9_A |
157 |
162 |
152 |
0.68 |
26.32 |
92.796 |
19.449 |
T P |
1htw_A |
158 |
162 |
152 |
1.31 |
25.00 |
89.363 |
10.813 |
T P |
2cvh_A |
220 |
162 |
93 |
2.33 |
13.98 |
40.056 |
3.828 |
T P |
1p9r_A |
378 |
162 |
90 |
2.24 |
20.00 |
38.311 |
3.842 |
T P |
2v1u_A |
382 |
162 |
86 |
2.34 |
20.93 |
36.248 |
3.518 |
T P |
1z47_A |
345 |
162 |
83 |
2.37 |
22.89 |
35.333 |
3.366 |
T P |
1nij_A |
317 |
162 |
79 |
2.34 |
18.99 |
32.700 |
3.237 |
T P |
2vp0_A |
197 |
162 |
62 |
2.16 |
16.13 |
28.337 |
2.744 |
T P |
1zm7_B |
198 |
162 |
62 |
2.09 |
19.35 |
28.207 |
2.830 |
T P |
2vp4_D |
199 |
162 |
64 |
2.21 |
17.19 |
28.044 |
2.772 |
T P |
2jcs_A |
198 |
162 |
62 |
2.10 |
19.35 |
27.777 |
2.819 |
T P |
1f1u_A |
322 |
162 |
42 |
2.50 |
11.90 |
18.010 |
1.614 |
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]