LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_74.5wLII_10961_61
Total number of 3D structures: 13
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 |
1w25_A |
454 |
189 |
181 |
0.90 |
15.47 |
94.537 |
18.088 |
T P |
3bre_B |
328 |
189 |
156 |
1.55 |
14.74 |
78.161 |
9.435 |
T P |
3ezu_A |
336 |
189 |
148 |
1.95 |
12.84 |
63.587 |
7.216 |
T P |
2gbl_C |
488 |
189 |
53 |
2.22 |
7.55 |
21.134 |
2.288 |
T P |
2qe7_D |
461 |
189 |
55 |
2.52 |
9.09 |
20.218 |
2.095 |
T P |
1fx0_B |
467 |
189 |
52 |
2.45 |
3.85 |
19.736 |
2.038 |
T P |
1tf7_A |
484 |
189 |
50 |
2.43 |
10.00 |
19.216 |
1.978 |
T P |
1q57_A |
483 |
189 |
54 |
2.65 |
9.26 |
18.341 |
1.960 |
T P |
4ts1_A |
317 |
189 |
51 |
2.77 |
5.88 |
17.553 |
1.778 |
T P |
2ts1_A |
317 |
189 |
48 |
2.88 |
2.08 |
16.873 |
1.610 |
T P |
1cr1_A |
245 |
189 |
43 |
2.41 |
2.33 |
16.301 |
1.714 |
T P |
2gbl_A |
506 |
189 |
44 |
2.60 |
6.82 |
15.908 |
1.633 |
T P |
1e0j_B |
288 |
189 |
36 |
2.53 |
5.56 |
13.147 |
1.371 |
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]