LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_124.5wLII_11077_30
Total number of 3D structures: 42
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
2qvp_C
269
232
213
0.57
29.11
91.130
31.962
T P
3b2y_A
262
232
209
0.92
25.36
88.086
20.440
T P
2nsm_A
390
232
175
1.95
25.14
59.913
8.520
T P
1h8l_A
380
232
178
2.03
20.79
58.523
8.372
T P
1uwy_A
393
232
179
2.12
24.58
58.493
8.055
T P
1jqg_A
409
232
181
2.07
17.68
57.780
8.354
T P
1nsa_A
395
232
174
2.09
17.24
56.107
7.944
T P
1kwm_A
402
232
180
2.17
18.89
56.069
7.942
T P
2c1c_A
312
232
181
2.11
20.44
55.956
8.198
T P
3d68_A
401
232
174
2.14
20.69
55.290
7.776
T P
3d66_A
401
232
172
2.13
21.51
54.964
7.702
T P
1obr_A
323
232
171
2.05
19.30
54.823
7.955
T P
1zli_A
306
232
174
2.08
17.24
54.297
7.980
T P
3cdx_A
329
232
166
1.97
21.08
53.522
8.031
T P
1z5r_A
304
232
174
2.11
17.82
53.486
7.889
T P
3dgv_A
401
232
172
2.08
20.93
53.437
7.904
T P
3d4u_A
296
232
169
2.09
20.12
53.391
7.711
T P
2pcu_A
305
232
174
2.14
20.11
53.158
7.781
T P
1dtd_A
303
232
176
2.16
17.61
52.849
7.787
T P
1m4l_A
307
232
176
2.17
17.61
52.667
7.750
T P
2bk7_A
307
232
171
2.13
19.88
52.370
7.663
T P
1cbx_A
307
232
177
2.19
18.08
52.146
7.731
T P
5cpa_A
307
232
176
2.16
17.61
52.103
7.788
T P
1yme_A
307
232
177
2.20
17.51
51.869
7.711
T P
2ctc_A
307
232
174
2.15
18.39
51.844
7.726
T P
1aye_A
401
232
176
2.18
17.61
51.637
7.721
T P
1bav_A
307
232
175
2.18
17.71
51.629
7.689
T P
2v77_A
308
232
175
2.17
18.86
51.510
7.710
T P
3fju_A
307
232
175
2.20
18.86
51.270
7.604
T P
2g9d_A
340
232
154
2.07
18.18
50.954
7.096
T P
1pyt_B
309
232
173
2.16
17.92
50.701
7.659
T P
2boa_A
404
232
167
2.14
20.96
49.816
7.464
T P
2bco_A
338
232
148
2.05
18.24
49.151
6.878
T P
3fmc_C
366
232
160
2.03
19.38
49.100
7.517
T P
1yw4_A
319
232
160
2.14
16.25
49.099
7.146
T P
2qj8_A
314
232
161
2.19
19.88
48.038
7.027
T P
1yw6_A
316
232
149
2.06
22.82
46.807
6.905
T P
2o53_A
302
232
145
2.07
19.31
44.164
6.667
T P
2gu2_A
307
232
146
2.09
19.18
44.134
6.664
T P
2i3c_A
302
232
143
2.08
18.88
43.139
6.569
T P
1cpb_B
217
232
119
2.20
18.49
36.203
5.174
T P
1cpb_A
82
232
42
2.65
7.14
11.865
1.525
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]