LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_417.5wLII_11277_185
Total number of 3D structures: 38
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 |
343 |
286 |
1.54 |
11.54 |
79.128 |
17.427 |
T P |
2gw1_A |
487 |
343 |
205 |
2.21 |
5.85 |
44.987 |
8.866 |
T P |
2vq2_A |
220 |
343 |
186 |
2.18 |
8.06 |
43.329 |
8.156 |
T P |
2q7f_A |
194 |
343 |
170 |
2.04 |
12.35 |
42.188 |
7.946 |
T P |
2fi7_A |
223 |
343 |
165 |
1.99 |
12.12 |
40.916 |
7.887 |
T P |
2ho1_A |
222 |
343 |
164 |
2.03 |
12.80 |
40.404 |
7.705 |
T P |
3ceq_B |
269 |
343 |
159 |
2.07 |
13.21 |
39.754 |
7.317 |
T P |
3edt_B |
258 |
343 |
165 |
2.15 |
10.30 |
39.583 |
7.346 |
T P |
2c0l_A |
292 |
343 |
146 |
1.71 |
9.59 |
39.370 |
8.059 |
T P |
3cv0_A |
300 |
343 |
143 |
1.64 |
9.09 |
39.261 |
8.202 |
T P |
2c0m_C |
302 |
343 |
143 |
1.75 |
7.69 |
38.372 |
7.741 |
T P |
3cvq_A |
289 |
343 |
143 |
1.73 |
10.49 |
38.226 |
7.805 |
T P |
1xnf_B |
262 |
343 |
160 |
2.05 |
10.00 |
38.090 |
7.434 |
T P |
1hh8_A |
192 |
343 |
141 |
1.51 |
17.02 |
38.027 |
8.775 |
T P |
1e96_B |
185 |
343 |
143 |
1.83 |
6.99 |
37.905 |
7.424 |
T P |
2pl2_A |
194 |
343 |
160 |
2.19 |
4.38 |
37.531 |
6.980 |
T P |
1wm5_A |
205 |
343 |
139 |
1.82 |
6.47 |
37.103 |
7.228 |
T P |
2fo7_A |
136 |
343 |
129 |
1.11 |
10.08 |
36.333 |
10.661 |
T P |
1fch_A |
302 |
343 |
138 |
1.87 |
8.70 |
35.395 |
7.007 |
T P |
2c2l_A |
281 |
343 |
119 |
1.49 |
5.88 |
33.519 |
7.497 |
T P |
1ihg_A |
364 |
343 |
119 |
1.35 |
5.88 |
33.305 |
8.228 |
T P |
1qz2_A |
285 |
343 |
123 |
1.75 |
12.20 |
32.952 |
6.650 |
T P |
1p5q_A |
283 |
343 |
122 |
1.71 |
11.48 |
32.808 |
6.758 |
T P |
1wao_1 |
471 |
343 |
129 |
1.86 |
10.85 |
32.743 |
6.582 |
T P |
1kt1_A |
374 |
343 |
119 |
1.87 |
11.76 |
32.180 |
6.026 |
T P |
2vyi_A |
128 |
343 |
115 |
1.33 |
7.83 |
31.886 |
8.027 |
T P |
1a17_A |
159 |
343 |
126 |
2.05 |
10.32 |
31.751 |
5.850 |
T P |
1na0_A |
119 |
343 |
114 |
1.37 |
8.77 |
31.469 |
7.732 |
T P |
2dba_A |
148 |
343 |
119 |
1.67 |
14.29 |
31.218 |
6.737 |
T P |
1elw_A |
117 |
343 |
111 |
1.31 |
12.61 |
30.470 |
7.870 |
T P |
1kt0_A |
357 |
343 |
112 |
1.79 |
14.29 |
30.153 |
5.916 |
T P |
2bug_A |
131 |
343 |
115 |
1.90 |
8.70 |
29.933 |
5.758 |
T P |
1elr_A |
128 |
343 |
108 |
1.50 |
6.48 |
29.358 |
6.761 |
T P |
2if4_A |
258 |
343 |
108 |
1.91 |
6.48 |
27.833 |
5.378 |
T P |
2j9q_A |
300 |
343 |
130 |
2.44 |
6.15 |
26.627 |
5.120 |
T P |
1na3_A |
86 |
343 |
82 |
1.24 |
7.32 |
22.964 |
6.123 |
T P |
1ouv_A |
265 |
343 |
109 |
2.73 |
2.75 |
20.075 |
3.856 |
T P |
2avp_A |
68 |
343 |
66 |
1.00 |
10.61 |
18.935 |
5.978 |
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]