LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_381.5wLII_11277_84
Total number of 3D structures: 46
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
1j2q_A
237
228
220
0.88
21.82
94.947
22.429
T P
1j2p_A
243
228
218
0.65
21.10
94.529
28.915
T P
1iru_A
244
228
218
1.29
15.60
90.682
15.632
T P
1iru_C
250
228
216
1.42
18.98
89.874
14.251
T P
1iru_E
234
228
214
1.47
21.50
88.783
13.602
T P
3bdm_B
244
228
212
1.50
21.23
88.348
13.281
T P
1ryp_D
241
228
213
1.49
18.78
88.148
13.361
T P
1ryp_C
244
228
215
1.61
20.93
88.056
12.592
T P
3bdm_D
242
228
213
1.52
20.66
87.952
13.113
T P
1g0u_B
235
228
215
1.56
20.93
87.948
12.913
T P
1g0u_C
238
228
214
1.53
18.69
87.933
13.138
T P
1ya7_A
227
228
211
1.32
19.91
87.916
14.831
T P
3bdm_C
241
228
213
1.52
18.78
87.894
13.157
T P
1ryp_E
242
228
213
1.53
20.19
87.804
13.074
T P
1yau_A
222
228
211
1.35
19.91
87.790
14.560
T P
1yar_A
221
228
210
1.30
20.00
87.696
15.042
T P
1ryp_B
250
228
211
1.47
19.43
87.592
13.453
T P
1iru_B
233
228
213
1.50
19.72
87.298
13.327
T P
1g0u_D
230
228
209
1.38
19.62
87.015
14.123
T P
1iru_D
243
228
210
1.55
17.14
86.721
12.717
T P
1g0u_F
242
228
212
1.50
15.57
86.629
13.230
T P
1ryp_G
244
228
212
1.52
15.57
86.307
13.072
T P
1iru_F
238
228
210
1.51
17.62
86.257
13.010
T P
3bdm_F
244
228
210
1.47
14.76
86.067
13.400
T P
1z7q_G
243
228
210
1.57
15.71
85.796
12.612
T P
1g0u_G
240
228
210
1.65
13.81
85.436
12.028
T P
1ryp_A
243
228
210
1.66
13.81
85.374
11.906
T P
1iru_G
245
228
206
1.50
11.17
85.217
12.842
T P
1ryp_F
233
228
205
1.67
14.63
83.447
11.586
T P
3bdm_E
233
228
205
1.67
16.10
83.174
11.590
T P
1g0u_E
230
228
205
1.62
14.63
83.145
11.931
T P
1pma_B
203
228
181
1.52
14.92
74.763
11.191
T P
1yar_H
203
228
182
1.58
14.29
74.513
10.828
T P
1j2q_H
202
228
179
1.57
24.02
73.634
10.705
T P
2z5c_C
189
228
179
1.57
18.44
73.115
10.701
T P
1ryp_H
205
228
170
1.66
17.65
70.054
9.633
T P
1g65_N
196
228
169
1.58
17.75
69.862
10.069
T P
1iru_H
202
228
168
1.58
17.86
69.720
10.002
T P
1g65_K
211
228
169
1.67
13.02
69.687
9.526
T P
1iru_L
201
228
171
1.73
12.87
69.635
9.362
T P
1iru_I
220
228
168
1.55
17.26
69.493
10.207
T P
1ryp_L
212
228
171
1.70
12.28
69.395
9.486
T P
1g0u_K
212
228
170
1.66
13.53
69.248
9.680
T P
1ryp_I
222
228
170
1.53
15.88
69.131
10.401
T P
3bdm_H
222
228
170
1.55
15.88
68.952
10.308
T P
1iru_J
204
228
170
1.75
12.35
68.652
9.202
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]