LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_536.5wLII_11390_72
Total number of 3D structures: 32
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 |
2h94_A |
647 |
179 |
84 |
1.44 |
17.86 |
45.053 |
5.444 |
T P |
2hko_A |
647 |
179 |
85 |
1.47 |
17.65 |
44.957 |
5.401 |
T P |
2z3y_A |
643 |
179 |
84 |
1.51 |
17.86 |
44.886 |
5.220 |
T P |
2dw4_A |
634 |
179 |
84 |
1.47 |
17.86 |
44.852 |
5.356 |
T P |
2iw5_A |
666 |
179 |
82 |
1.41 |
17.07 |
44.631 |
5.441 |
T P |
2v1d_A |
666 |
179 |
82 |
1.39 |
17.07 |
44.563 |
5.519 |
T P |
1gqe_A |
362 |
179 |
65 |
2.43 |
7.69 |
26.529 |
2.569 |
T P |
3cwg_B |
507 |
179 |
61 |
2.21 |
4.92 |
26.477 |
2.637 |
T P |
2wb7_A |
525 |
179 |
57 |
2.22 |
15.79 |
26.259 |
2.457 |
T P |
1bg1_A |
559 |
179 |
61 |
2.11 |
4.92 |
26.107 |
2.756 |
T P |
1wle_B |
469 |
179 |
52 |
2.34 |
5.77 |
21.977 |
2.128 |
T P |
1deq_A |
180 |
179 |
49 |
2.04 |
12.24 |
21.949 |
2.290 |
T P |
1qvr_A |
803 |
179 |
53 |
2.83 |
7.55 |
21.125 |
1.811 |
T P |
1jch_A |
468 |
179 |
46 |
1.96 |
4.35 |
20.152 |
2.230 |
T P |
2rft_B |
169 |
179 |
41 |
2.13 |
7.32 |
19.263 |
1.842 |
T P |
1r6b_X |
704 |
179 |
48 |
2.57 |
12.50 |
18.952 |
1.800 |
T P |
1lrz_A |
400 |
179 |
50 |
2.78 |
4.00 |
18.896 |
1.739 |
T P |
1deq_B |
380 |
179 |
46 |
2.26 |
4.35 |
18.538 |
1.946 |
T P |
2b5u_A |
470 |
179 |
39 |
2.03 |
2.56 |
18.326 |
1.829 |
T P |
1m1j_B |
402 |
179 |
40 |
2.40 |
5.00 |
16.605 |
1.602 |
T P |
3bt6_B |
169 |
179 |
38 |
2.45 |
7.89 |
16.207 |
1.489 |
T P |
2fxm_A |
126 |
179 |
28 |
1.65 |
3.57 |
15.437 |
1.599 |
T P |
2fxo_A |
129 |
179 |
29 |
1.81 |
3.45 |
15.380 |
1.521 |
T P |
1x8y_A |
74 |
179 |
28 |
1.51 |
10.71 |
15.336 |
1.744 |
T P |
2v71_A |
160 |
179 |
28 |
1.59 |
7.14 |
15.280 |
1.659 |
T P |
1gk4_A |
79 |
179 |
28 |
1.77 |
21.43 |
15.152 |
1.500 |
T P |
1m1j_C |
390 |
179 |
38 |
2.39 |
7.89 |
15.043 |
1.529 |
T P |
2ve7_B |
303 |
179 |
35 |
2.55 |
8.57 |
15.008 |
1.322 |
T P |
1ei3_C |
397 |
179 |
40 |
2.88 |
2.50 |
14.829 |
1.343 |
T P |
1ha0_A |
494 |
179 |
39 |
2.45 |
5.13 |
14.655 |
1.527 |
T P |
1c1g_A |
284 |
179 |
27 |
1.53 |
7.41 |
14.650 |
1.654 |
T P |
1f5n_A |
570 |
179 |
30 |
2.54 |
6.67 |
11.954 |
1.137 |
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]