LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_474.5wLII_11346_53
Total number of 3D structures: 14
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 |
1qdb_A |
473 |
78 |
70 |
1.58 |
28.57 |
84.312 |
4.155 |
T P |
1fs7_A |
471 |
78 |
70 |
1.64 |
22.86 |
82.945 |
4.017 |
T P |
3bnj_A |
471 |
78 |
70 |
1.70 |
22.86 |
82.602 |
3.890 |
T P |
1fs9_A |
471 |
78 |
68 |
1.60 |
23.53 |
82.574 |
4.011 |
T P |
3f29_B |
520 |
78 |
70 |
1.74 |
12.86 |
82.400 |
3.797 |
T P |
2rdz_A |
441 |
78 |
68 |
1.56 |
13.24 |
81.360 |
4.091 |
T P |
2rf7_A |
441 |
78 |
69 |
1.61 |
13.04 |
81.112 |
4.025 |
T P |
2ot4_A |
520 |
78 |
68 |
1.71 |
11.76 |
80.813 |
3.749 |
T P |
2j7a_B |
498 |
78 |
68 |
1.93 |
8.82 |
77.878 |
3.342 |
T P |
2vr0_B |
498 |
78 |
68 |
1.96 |
8.82 |
77.540 |
3.309 |
T P |
1oah_B |
482 |
78 |
66 |
1.87 |
13.64 |
76.024 |
3.342 |
T P |
2ve7_B |
303 |
78 |
34 |
1.72 |
8.82 |
38.991 |
1.866 |
T P |
1zhc_A |
76 |
78 |
33 |
1.88 |
9.09 |
37.505 |
1.667 |
T P |
2w00_B |
852 |
78 |
34 |
2.02 |
2.94 |
36.696 |
1.607 |
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]