LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_181.5wLII_11181_28
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 |
1c5k_A |
397 |
94 |
82 |
1.20 |
13.41 |
83.842 |
6.311 |
T P |
1crz_A |
403 |
94 |
82 |
1.26 |
13.41 |
83.361 |
6.043 |
T P |
2w8b_A |
409 |
94 |
81 |
1.25 |
14.81 |
82.353 |
6.001 |
T P |
2w8b_B |
409 |
94 |
81 |
1.24 |
14.81 |
82.120 |
6.026 |
T P |
2hqs_A |
412 |
94 |
81 |
1.32 |
13.58 |
81.747 |
5.688 |
T P |
2mas_A |
313 |
94 |
52 |
2.48 |
1.92 |
36.017 |
2.019 |
T P |
1hru_A |
186 |
94 |
36 |
2.35 |
8.33 |
26.487 |
1.468 |
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]