LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_284.5wLII_11238_18
Total number of 3D structures: 52
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
2qjp_C
179
183
141
0.76
19.15
76.397
16.433
T P
2qjk_C
179
183
141
0.77
19.86
76.309
16.179
T P
2qjy_C
179
183
141
0.75
19.86
76.158
16.668
T P
2nve_A
141
183
135
0.52
18.52
73.895
21.842
T P
2nuk_A
141
183
135
0.51
19.26
73.895
22.054
T P
2num_A
141
183
136
0.75
18.38
73.886
16.008
T P
2nvf_A
141
183
135
0.51
18.52
73.857
22.097
T P
2nvg_A
141
183
135
0.50
18.52
73.857
22.316
T P
2nwf_A
141
183
136
0.76
18.38
73.842
15.892
T P
1zrt_E
181
183
139
1.07
20.14
73.708
11.833
T P
1bcc_E
196
183
128
1.21
20.31
67.692
9.780
T P
1pp9_E
196
183
128
1.54
21.09
67.117
7.795
T P
3cwb_E
196
183
129
1.50
20.93
65.756
8.065
T P
1rie_A
127
183
124
1.14
20.16
65.653
10.009
T P
3cx5_E
185
183
130
2.46
20.00
56.983
5.074
T P
1g8k_B
133
183
98
1.83
23.47
47.420
5.072
T P
1g8j_D
129
183
97
1.89
23.71
46.372
4.886
T P
1rfs_A
127
183
84
1.78
22.62
42.671
4.473
T P
2e74_D
166
183
96
2.21
26.04
42.259
4.163
T P
2zt9_D
166
183
92
2.21
22.83
41.032
3.986
T P
1uli_C
425
183
97
2.10
19.59
40.528
4.413
T P
2b1x_A
441
183
94
1.96
14.89
40.388
4.564
T P
1jm1_A
202
183
98
1.96
23.47
40.246
4.769
T P
1nyk_A
156
183
95
1.97
27.37
39.586
4.585
T P
1wql_A
436
183
95
2.13
15.79
39.042
4.259
T P
2gbw_A
449
183
94
2.19
15.96
38.511
4.111
T P
2bmo_A
437
183
94
2.15
18.09
38.027
4.185
T P
1q90_C
126
183
83
1.84
25.30
37.905
4.281
T P
1um3_D
168
183
97
2.38
22.68
37.361
3.911
T P
2hmj_A
446
183
90
2.10
14.44
37.191
4.100
T P
2ckf_A
448
183
90
2.12
14.44
36.655
4.049
T P
1o7n_A
447
183
90
2.16
14.44
35.513
3.987
T P
1vm9_A
109
183
84
2.21
11.90
34.946
3.637
T P
3dqy_A
106
183
83
2.22
14.46
33.737
3.580
T P
1fqt_A
109
183
81
2.23
17.28
33.444
3.477
T P
2de6_E
106
183
84
2.29
14.29
33.268
3.510
T P
2de6_B
390
183
83
2.49
14.46
32.262
3.205
T P
1z01_A
427
183
81
2.36
9.88
31.492
3.290
T P
2e4q_A
108
183
81
2.26
12.35
31.045
3.432
T P
2qpz_A
103
183
81
2.23
8.64
30.944
3.479
T P
1sjg_A
112
183
78
2.32
7.69
30.037
3.218
T P
2i7f_A
102
183
79
2.35
18.99
29.771
3.228
T P
3c0d_A
109
183
76
2.28
6.58
28.652
3.191
T P
2zyl_A
359
183
76
2.39
10.53
28.048
3.056
T P
3d89_A
136
183
73
2.36
12.33
27.620
2.969
T P
2jo6_A
110
183
70
2.35
12.86
26.291
2.861
T P
2jza_A
130
183
61
2.16
8.20
24.260
2.702
T P
1q90_R
39
183
30
1.57
20.00
15.595
1.800
T P
1dkx_A
219
183
37
2.76
10.81
12.211
1.294
T P
2op6_A
150
183
33
2.71
12.12
12.126
1.174
T P
3dpo_B
215
183
27
2.50
11.11
10.378
1.039
T P
1dkz_A
215
183
27
2.67
11.11
9.575
0.974
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]