LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_182.5wLII_11181_29
Total number of 3D structures: 40
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 |
1w3b_A |
388 |
240 |
211 |
1.25 |
14.22 |
83.372 |
15.593 |
T P |
2vq2_A |
220 |
240 |
181 |
2.06 |
7.18 |
63.342 |
8.383 |
T P |
2ho1_A |
222 |
240 |
165 |
1.99 |
6.67 |
60.425 |
7.898 |
T P |
2fi7_A |
223 |
240 |
167 |
1.99 |
7.19 |
60.379 |
7.986 |
T P |
2pl2_A |
194 |
240 |
168 |
2.19 |
7.14 |
57.837 |
7.324 |
T P |
2gw1_A |
487 |
240 |
170 |
1.99 |
5.88 |
57.330 |
8.126 |
T P |
2c0l_A |
292 |
240 |
148 |
1.59 |
8.78 |
57.177 |
8.758 |
T P |
1xnf_B |
262 |
240 |
163 |
2.15 |
7.98 |
54.490 |
7.246 |
T P |
2fo7_A |
136 |
240 |
136 |
1.53 |
11.03 |
52.206 |
8.366 |
T P |
1hh8_A |
192 |
240 |
142 |
2.00 |
11.27 |
52.158 |
6.754 |
T P |
1e96_B |
185 |
240 |
139 |
1.98 |
11.51 |
50.937 |
6.680 |
T P |
3edt_B |
258 |
240 |
144 |
2.16 |
6.25 |
50.824 |
6.382 |
T P |
3cvq_A |
289 |
240 |
144 |
2.10 |
5.56 |
50.493 |
6.542 |
T P |
1fch_A |
302 |
240 |
143 |
2.04 |
7.69 |
50.378 |
6.686 |
T P |
1wm5_A |
205 |
240 |
137 |
2.08 |
11.68 |
49.731 |
6.272 |
T P |
2c2l_A |
281 |
240 |
125 |
1.70 |
9.60 |
47.934 |
6.940 |
T P |
1ihg_A |
364 |
240 |
120 |
1.52 |
10.83 |
46.910 |
7.409 |
T P |
3cv0_A |
300 |
240 |
140 |
2.18 |
5.71 |
46.676 |
6.131 |
T P |
2j9q_A |
300 |
240 |
147 |
2.21 |
7.48 |
46.529 |
6.373 |
T P |
1a17_A |
159 |
240 |
119 |
1.51 |
10.08 |
46.404 |
7.390 |
T P |
2vyi_A |
128 |
240 |
118 |
1.42 |
9.32 |
46.298 |
7.748 |
T P |
1p5q_A |
283 |
240 |
118 |
1.59 |
5.08 |
46.223 |
6.989 |
T P |
2dba_A |
148 |
240 |
119 |
1.58 |
12.61 |
45.890 |
7.094 |
T P |
1qz2_A |
285 |
240 |
117 |
1.54 |
5.13 |
45.888 |
7.137 |
T P |
1ya0_B |
464 |
240 |
122 |
1.72 |
10.66 |
45.675 |
6.700 |
T P |
1wao_1 |
471 |
240 |
117 |
1.64 |
10.26 |
45.612 |
6.732 |
T P |
1elr_A |
128 |
240 |
118 |
1.58 |
5.93 |
45.552 |
7.009 |
T P |
1kt1_A |
374 |
240 |
116 |
1.61 |
4.31 |
45.338 |
6.782 |
T P |
1elw_A |
117 |
240 |
116 |
1.42 |
10.34 |
45.020 |
7.639 |
T P |
2bug_A |
131 |
240 |
119 |
1.72 |
10.08 |
44.686 |
6.521 |
T P |
2c0m_C |
302 |
240 |
137 |
2.29 |
10.22 |
44.646 |
5.726 |
T P |
2q7f_A |
194 |
240 |
133 |
2.13 |
7.52 |
44.377 |
5.977 |
T P |
1na0_A |
119 |
240 |
111 |
1.49 |
9.01 |
43.432 |
6.976 |
T P |
1kt0_A |
357 |
240 |
110 |
1.55 |
3.64 |
43.313 |
6.647 |
T P |
3ceq_B |
269 |
240 |
132 |
2.26 |
11.36 |
43.174 |
5.582 |
T P |
2fbn_A |
153 |
240 |
115 |
1.86 |
8.70 |
43.147 |
5.869 |
T P |
2if4_A |
258 |
240 |
110 |
2.09 |
9.09 |
37.978 |
5.022 |
T P |
1ouv_A |
265 |
240 |
110 |
2.34 |
12.73 |
34.477 |
4.507 |
T P |
1na3_A |
86 |
240 |
85 |
1.24 |
11.76 |
33.993 |
6.367 |
T P |
2avp_A |
68 |
240 |
68 |
0.95 |
10.29 |
27.818 |
6.477 |
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]