LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_317.5wLII_11247_7
Total number of 3D structures: 49
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
1yau_A
222
229
210
0.63
22.86
91.071
28.599
T P
1yar_A
221
229
210
0.67
22.86
90.968
27.382
T P
1ya7_A
227
229
209
0.60
22.97
90.910
29.759
T P
1iru_C
250
229
210
1.39
16.67
87.357
14.081
T P
1j2q_A
237
229
207
1.27
19.32
86.963
15.076
T P
1iru_F
238
229
209
1.41
11.48
86.484
13.842
T P
3bdm_B
244
229
209
1.32
19.62
86.438
14.708
T P
1g0u_B
235
229
209
1.36
19.62
86.323
14.342
T P
1ryp_D
241
229
207
1.38
17.39
86.313
13.963
T P
1j2p_A
243
229
206
1.26
19.90
86.245
15.107
T P
1g0u_C
238
229
207
1.41
17.87
86.195
13.694
T P
3bdm_C
241
229
207
1.42
17.39
86.034
13.616
T P
1ryp_C
244
229
209
1.38
19.62
85.917
14.132
T P
1iru_A
244
229
206
1.40
9.71
85.477
13.773
T P
1ryp_B
250
229
206
1.39
17.48
85.450
13.818
T P
1iru_E
234
229
206
1.40
16.99
85.182
13.726
T P
1ryp_E
242
229
207
1.42
16.43
85.044
13.603
T P
1g0u_E
230
229
208
1.50
14.90
85.003
12.967
T P
3bdm_D
242
229
207
1.44
16.43
84.816
13.410
T P
1ryp_F
233
229
206
1.52
15.05
84.781
12.680
T P
3bdm_E
233
229
207
1.54
14.98
84.753
12.593
T P
1g0u_D
230
229
205
1.40
17.07
84.442
13.631
T P
1iru_B
233
229
206
1.37
14.56
84.440
14.052
T P
1iru_D
243
229
205
1.49
14.63
84.322
12.863
T P
1g0u_F
242
229
203
1.49
13.79
84.278
12.754
T P
1z7q_G
243
229
204
1.45
14.22
84.165
13.174
T P
1ryp_G
244
229
203
1.51
13.79
83.885
12.638
T P
3bdm_F
244
229
203
1.47
14.29
83.760
12.914
T P
1g0u_G
240
229
206
1.61
12.14
83.632
12.069
T P
1iru_G
245
229
203
1.52
15.27
83.628
12.557
T P
1ryp_A
243
229
206
1.64
11.65
83.556
11.866
T P
1pma_B
203
229
178
1.38
15.17
73.608
12.059
T P
1yar_H
203
229
178
1.40
15.17
73.439
11.867
T P
1j2q_H
202
229
177
1.50
19.21
72.058
11.032
T P
2z5c_C
189
229
177
1.50
15.25
71.553
11.067
T P
1ryp_H
205
229
173
1.52
8.09
71.317
10.688
T P
1g65_N
196
229
171
1.47
8.19
70.639
10.893
T P
1g0u_L
222
229
171
1.61
15.79
70.515
10.027
T P
1g0u_K
212
229
174
1.63
14.37
70.495
10.073
T P
1iru_I
220
229
172
1.45
13.37
70.390
11.132
T P
1ryp_I
222
229
172
1.48
12.79
70.325
10.898
T P
1ryp_L
212
229
174
1.64
14.37
70.323
10.017
T P
3bdm_H
222
229
171
1.43
12.87
70.064
11.176
T P
1iru_H
202
229
172
1.46
10.47
70.047
10.998
T P
1g65_K
211
229
171
1.63
14.62
69.490
9.894
T P
1iru_L
201
229
170
1.50
14.12
69.457
10.608
T P
1iru_J
204
229
172
1.68
11.05
69.392
9.659
T P
1iru_M
213
229
169
1.67
12.43
69.056
9.544
T P
1ryp_M
222
229
171
1.68
14.62
67.977
9.615
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]