LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_137.5wLII_11111_10
Total number of 3D structures: 36
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
2jjm_A
359
309
275
0.45
20.00
88.924
50.002
T P
3c4v_A
393
309
258
1.91
15.50
71.207
12.865
T P
2gek_A
361
309
232
1.86
11.21
62.021
11.866
T P
2iw1_A
370
309
234
2.24
13.25
57.369
10.007
T P
2iv7_A
370
309
238
2.24
13.03
57.149
10.191
T P
2qzs_A
477
309
239
2.14
14.23
56.409
10.646
T P
1rzu_B
478
309
231
2.28
11.26
56.065
9.696
T P
3c48_A
399
309
188
1.75
17.02
54.931
10.175
T P
1rzv_A
477
309
217
2.13
9.68
53.997
9.711
T P
2bis_A
440
309
237
2.30
14.77
53.659
9.874
T P
1gz5_A
456
309
245
2.17
6.12
53.176
10.771
T P
1uqt_A
452
309
241
2.19
7.88
52.411
10.544
T P
2iv3_C
340
309
207
1.94
8.70
50.322
10.151
T P
2iuy_A
340
309
209
1.98
8.61
50.102
10.057
T P
2r60_A
456
309
190
2.06
9.47
49.657
8.792
T P
2bfw_A
196
309
167
1.96
12.57
46.197
8.116
T P
2f9f_A
166
309
152
1.58
9.21
45.099
9.035
T P
2vsy_A
547
309
197
2.53
9.64
41.332
7.494
T P
2vsn_A
534
309
192
2.41
8.33
40.579
7.637
T P
1f0k_A
351
309
185
2.34
10.27
38.406
7.573
T P
3beo_A
375
309
177
2.45
14.12
38.320
6.937
T P
1f6d_A
376
309
180
2.45
9.44
37.328
7.060
T P
1vgv_A
376
309
180
2.46
8.33
37.311
7.031
T P
3dzc_A
373
309
172
2.51
5.81
34.861
6.590
T P
1o6c_B
371
309
169
2.51
9.47
34.432
6.465
T P
2iyf_B
394
309
150
2.59
12.00
30.482
5.569
T P
1v4v_A
373
309
137
2.51
8.76
29.008
5.249
T P
1f3w_A
519
309
81
2.73
2.47
15.893
2.858
T P
1pkm_A
519
309
73
2.67
5.48
15.221
2.634
T P
2g50_D
521
309
77
2.81
5.19
15.073
2.649
T P
1f3x_A
519
309
73
2.79
6.85
14.894
2.527
T P
1a05_A
357
309
63
2.65
7.94
14.705
2.293
T P
1pkn_A
514
309
72
2.80
5.56
14.505
2.482
T P
1a49_A
519
309
68
2.65
5.88
14.488
2.477
T P
1zy8_A
474
309
59
2.53
8.47
12.636
2.241
T P
1zmd_E
473
309
32
2.46
3.12
7.105
1.248
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]