LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_405.5wLII_11277_145
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 |
3c8f_A |
245 |
296 |
244 |
0.56 |
18.03 |
81.985 |
36.751 |
T P |
1tv8_A |
327 |
296 |
176 |
1.97 |
10.80 |
48.710 |
8.510 |
T P |
3can_A |
161 |
296 |
155 |
1.56 |
14.19 |
48.693 |
9.314 |
T P |
2fb2_A |
327 |
296 |
174 |
1.95 |
10.92 |
47.037 |
8.473 |
T P |
2yx0_A |
324 |
296 |
181 |
2.22 |
12.71 |
41.600 |
7.805 |
T P |
3cix_A |
346 |
296 |
180 |
2.34 |
7.22 |
41.085 |
7.389 |
T P |
2a5h_B |
410 |
296 |
182 |
2.20 |
8.24 |
40.845 |
7.922 |
T P |
3ciw_A |
346 |
296 |
178 |
2.36 |
6.18 |
40.450 |
7.242 |
T P |
2z2u_A |
279 |
296 |
162 |
2.10 |
11.73 |
39.490 |
7.377 |
T P |
1r30_B |
313 |
296 |
168 |
2.45 |
9.52 |
36.620 |
6.576 |
T P |
1olt_A |
434 |
296 |
161 |
2.21 |
10.56 |
36.135 |
6.981 |
T P |
2qgq_A |
272 |
296 |
132 |
2.40 |
10.61 |
30.136 |
5.279 |
T P |
1vbr_A |
324 |
296 |
138 |
2.49 |
7.97 |
29.492 |
5.320 |
T P |
1wdk_B |
711 |
296 |
92 |
2.33 |
8.70 |
20.422 |
3.789 |
T P |
3e70_C |
307 |
296 |
93 |
2.58 |
3.23 |
19.780 |
3.475 |
T P |
2v1x_A |
527 |
296 |
84 |
2.58 |
3.57 |
18.232 |
3.135 |
T P |
2vpn_B |
310 |
296 |
79 |
2.52 |
10.13 |
18.086 |
3.010 |
T P |
1m6v_A |
1059 |
296 |
74 |
2.91 |
6.76 |
15.572 |
2.462 |
T P |
1zjj_B |
263 |
296 |
63 |
2.43 |
6.35 |
14.770 |
2.489 |
T P |
1syy_A |
317 |
296 |
58 |
2.57 |
10.34 |
14.080 |
2.173 |
T P |
3cet_B |
330 |
296 |
54 |
2.56 |
3.70 |
13.640 |
2.031 |
T P |
2cvb_A |
187 |
296 |
60 |
2.57 |
6.67 |
13.610 |
2.251 |
T P |
2ani_A |
317 |
296 |
55 |
2.37 |
7.27 |
13.549 |
2.227 |
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]