LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_180.5wLII_11181_25
Total number of 3D structures: 15
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 |
2b5u_A |
470 |
109 |
74 |
2.36 |
5.41 |
53.707 |
3.011 |
T P |
1jad_A |
242 |
109 |
65 |
1.97 |
7.69 |
53.619 |
3.137 |
T P |
1jch_A |
468 |
109 |
73 |
2.38 |
4.11 |
53.248 |
2.944 |
T P |
1f5n_A |
570 |
109 |
61 |
1.70 |
3.28 |
52.153 |
3.384 |
T P |
2z3y_A |
643 |
109 |
61 |
2.05 |
13.11 |
50.513 |
2.836 |
T P |
2hko_A |
647 |
109 |
61 |
2.12 |
11.48 |
49.528 |
2.742 |
T P |
2iw5_A |
666 |
109 |
60 |
1.88 |
3.33 |
49.262 |
3.030 |
T P |
2dw4_A |
634 |
109 |
57 |
2.01 |
14.04 |
48.039 |
2.704 |
T P |
2h94_A |
647 |
109 |
58 |
2.21 |
12.07 |
47.248 |
2.510 |
T P |
1qvr_A |
803 |
109 |
68 |
2.14 |
8.82 |
47.103 |
3.036 |
T P |
1zvu_A |
685 |
109 |
51 |
2.23 |
7.84 |
37.214 |
2.193 |
T P |
1miu_A |
671 |
109 |
55 |
2.58 |
9.09 |
36.303 |
2.051 |
T P |
3epv_A |
109 |
109 |
42 |
1.95 |
2.38 |
34.217 |
2.046 |
T P |
1j36_A |
598 |
109 |
44 |
2.42 |
4.55 |
29.378 |
1.743 |
T P |
1wle_B |
469 |
109 |
45 |
2.54 |
8.89 |
29.075 |
1.706 |
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]