LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_72.5wLII_10961_40
Total number of 3D structures: 29
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 |
2ix3_A |
972 |
134 |
124 |
1.01 |
17.74 |
91.676 |
11.160 |
T P |
2iw3_B |
980 |
134 |
121 |
1.15 |
16.53 |
88.754 |
9.658 |
T P |
3dhw_C |
343 |
134 |
108 |
2.07 |
8.33 |
69.948 |
4.985 |
T P |
1oxs_C |
352 |
134 |
114 |
2.08 |
4.39 |
69.313 |
5.240 |
T P |
1oxx_K |
352 |
134 |
113 |
2.10 |
5.31 |
68.745 |
5.139 |
T P |
3d31_A |
348 |
134 |
109 |
2.05 |
5.50 |
68.551 |
5.075 |
T P |
2ix8_A |
975 |
134 |
116 |
2.27 |
15.52 |
68.445 |
4.904 |
T P |
2pcj_A |
223 |
134 |
99 |
1.70 |
8.08 |
68.405 |
5.514 |
T P |
1f3o_A |
232 |
134 |
100 |
1.99 |
6.00 |
66.089 |
4.787 |
T P |
2onk_A |
240 |
134 |
113 |
2.15 |
10.62 |
65.908 |
5.016 |
T P |
2yyz_A |
358 |
134 |
115 |
2.23 |
7.83 |
65.842 |
4.926 |
T P |
1b0u_A |
258 |
134 |
112 |
2.20 |
9.82 |
64.810 |
4.865 |
T P |
1z47_A |
345 |
134 |
113 |
2.12 |
6.19 |
61.013 |
5.089 |
T P |
2it1_A |
362 |
134 |
112 |
2.22 |
8.93 |
60.476 |
4.819 |
T P |
1q1b_A |
367 |
134 |
104 |
2.12 |
8.65 |
59.845 |
4.688 |
T P |
2awn_B |
374 |
134 |
102 |
2.23 |
6.86 |
59.402 |
4.382 |
T P |
3c41_J |
242 |
134 |
106 |
2.15 |
7.55 |
58.010 |
4.711 |
T P |
2hyd_A |
578 |
134 |
104 |
2.23 |
9.62 |
57.518 |
4.455 |
T P |
3b60_A |
572 |
134 |
102 |
2.20 |
10.78 |
56.689 |
4.431 |
T P |
2olj_A |
242 |
134 |
104 |
2.23 |
6.73 |
56.473 |
4.462 |
T P |
1vci_A |
353 |
134 |
107 |
2.43 |
11.21 |
55.064 |
4.237 |
T P |
1v43_A |
353 |
134 |
107 |
2.41 |
10.28 |
54.940 |
4.266 |
T P |
1g29_1 |
372 |
134 |
96 |
2.38 |
10.42 |
52.338 |
3.875 |
T P |
1l2t_B |
232 |
134 |
87 |
2.17 |
5.75 |
50.951 |
3.836 |
T P |
1pf4_A |
520 |
134 |
65 |
2.41 |
10.77 |
32.910 |
2.590 |
T P |
1gte_D |
1014 |
134 |
62 |
2.59 |
4.84 |
31.163 |
2.303 |
T P |
1jsq_A |
450 |
134 |
66 |
2.66 |
7.58 |
30.826 |
2.387 |
T P |
1h7x_B |
1019 |
134 |
62 |
2.78 |
8.06 |
30.719 |
2.152 |
T P |
1wyu_A |
437 |
134 |
51 |
2.57 |
5.88 |
25.982 |
1.910 |
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]