LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_200.5wLII_11184_16
Total number of 3D structures: 5
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 |
1dcj_A |
81 |
82 |
80 |
0.60 |
27.50 |
96.721 |
11.383 |
T P |
1pav_A |
78 |
82 |
72 |
2.08 |
13.89 |
72.576 |
3.296 |
T P |
1jdq_A |
98 |
82 |
59 |
1.95 |
23.73 |
59.724 |
2.884 |
T P |
1je3_A |
97 |
82 |
63 |
2.38 |
23.81 |
52.735 |
2.537 |
T P |
1iuk_A |
136 |
82 |
52 |
2.59 |
5.77 |
40.657 |
1.933 |
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]