LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_177.5wLII_11172_74
Total number of 3D structures: 23
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 |
1ny5_B |
385 |
101 |
86 |
2.10 |
11.63 |
70.832 |
3.918 |
T P |
1ny6_C |
248 |
101 |
86 |
2.38 |
11.63 |
69.373 |
3.461 |
T P |
1ojl_D |
297 |
101 |
89 |
2.40 |
10.11 |
67.406 |
3.567 |
T P |
3dzd_A |
368 |
101 |
86 |
2.16 |
8.14 |
67.211 |
3.805 |
T P |
2c9c_A |
244 |
101 |
78 |
2.40 |
7.69 |
60.243 |
3.120 |
T P |
2vii_A |
247 |
101 |
81 |
2.44 |
8.64 |
55.607 |
3.193 |
T P |
2bjw_A |
242 |
101 |
76 |
2.41 |
9.21 |
53.921 |
3.030 |
T P |
2bjv_A |
236 |
101 |
78 |
2.48 |
8.97 |
53.392 |
3.021 |
T P |
1jr3_D |
338 |
101 |
59 |
2.73 |
11.86 |
39.605 |
2.084 |
T P |
4fis_A |
73 |
101 |
38 |
2.23 |
7.89 |
28.121 |
1.631 |
T P |
1etq_A |
85 |
101 |
36 |
2.26 |
8.33 |
28.103 |
1.526 |
T P |
1fip_A |
73 |
101 |
38 |
2.31 |
7.89 |
27.921 |
1.575 |
T P |
1f36_A |
89 |
101 |
37 |
2.17 |
8.11 |
27.839 |
1.632 |
T P |
1eto_B |
94 |
101 |
37 |
2.23 |
8.11 |
27.719 |
1.591 |
T P |
1fia_A |
79 |
101 |
37 |
2.27 |
8.11 |
27.669 |
1.558 |
T P |
1ntc_A |
91 |
101 |
34 |
2.20 |
5.88 |
26.993 |
1.479 |
T P |
1etv_B |
80 |
101 |
35 |
2.19 |
8.57 |
26.935 |
1.530 |
T P |
1etx_B |
79 |
101 |
35 |
2.18 |
8.57 |
26.659 |
1.535 |
T P |
1etw_B |
87 |
101 |
34 |
2.10 |
8.82 |
26.524 |
1.544 |
T P |
1etk_B |
79 |
101 |
35 |
2.29 |
8.57 |
26.513 |
1.465 |
T P |
3e7l_D |
63 |
101 |
26 |
2.02 |
11.54 |
23.267 |
1.228 |
T P |
1g2h_A |
61 |
101 |
28 |
2.28 |
10.71 |
22.019 |
1.175 |
T P |
1umq_A |
60 |
101 |
25 |
2.22 |
8.00 |
21.262 |
1.079 |
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]