LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_315.5wLII_11247_3
Total number of 3D structures: 8
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 |
1m2a_A |
103 |
104 |
101 |
0.56 |
39.60 |
96.685 |
15.349 |
T P |
1m2d_A |
101 |
104 |
100 |
0.34 |
39.00 |
96.002 |
22.830 |
T P |
1m2b_A |
101 |
104 |
100 |
0.34 |
39.00 |
95.930 |
22.602 |
T P |
2fug_2 |
178 |
104 |
82 |
1.90 |
28.05 |
71.811 |
4.092 |
T P |
2auv_A |
85 |
104 |
65 |
2.11 |
13.85 |
44.141 |
2.944 |
T P |
1u2p_A |
156 |
104 |
58 |
2.04 |
10.34 |
41.560 |
2.708 |
T P |
2cwd_B |
151 |
104 |
59 |
2.42 |
10.17 |
39.593 |
2.337 |
T P |
1w36_C |
1121 |
104 |
38 |
2.46 |
13.16 |
25.763 |
1.485 |
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]