LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_12.5wLII_09933_2
Total number of 3D structures: 48
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
3com_B
281
59
41
1.91
21.95
65.766
2.040
T P
2j7t_A
285
59
38
1.28
42.11
62.682
2.747
T P
2j0i_A
290
59
41
2.31
26.83
62.098
1.700
T P
2ja0_A
286
59
38
1.76
26.32
62.080
2.045
T P
3ckw_A
255
59
38
1.69
21.05
60.824
2.127
T P
2bva_B
275
59
40
2.14
22.50
60.600
1.785
T P
1yhv_A
293
59
39
2.04
17.95
60.345
1.819
T P
1s9j_A
289
59
37
1.63
13.51
60.326
2.141
T P
3eqc_A
312
59
38
1.91
13.16
60.134
1.886
T P
3eqb_A
289
59
37
1.72
13.51
60.134
2.030
T P
2f7x_E
336
59
38
1.82
10.53
59.686
1.975
T P
2c30_A
290
59
40
2.23
17.50
59.396
1.718
T P
1yhw_A
293
59
38
1.89
18.42
59.326
1.914
T P
1apm_E
341
59
37
1.67
10.81
59.134
2.094
T P
1cdk_A
343
59
37
1.71
10.81
59.114
2.047
T P
2f57_B
300
59
35
1.43
25.71
59.077
2.285
T P
1ydr_E
336
59
37
1.68
10.81
59.001
2.074
T P
1atp_E
336
59
37
1.71
10.81
58.995
2.049
T P
2c1a_A
337
59
37
1.70
10.81
58.861
2.054
T P
2q0n_A
294
59
36
1.62
30.56
58.861
2.095
T P
3fxz_A
293
59
37
1.76
18.92
58.646
1.992
T P
1u5q_A
309
59
35
1.39
14.29
58.608
2.343
T P
3ckx_A
277
59
38
1.86
18.42
58.358
1.935
T P
2qur_A
340
59
37
1.80
10.81
57.672
1.945
T P
2gcd_A
309
59
34
1.10
14.71
57.441
2.825
T P
2erz_E
336
59
36
1.51
11.11
57.040
2.241
T P
1syk_A
350
59
35
1.41
11.43
57.034
2.316
T P
2vwi_D
284
59
35
1.55
17.14
56.638
2.127
T P
2qr8_A
298
59
33
1.02
21.21
55.538
2.939
T P
3dak_D
284
59
34
1.47
17.65
55.508
2.161
T P
1kob_A
352
59
34
1.66
17.65
54.847
1.933
T P
2jc6_A
278
59
33
1.34
9.09
54.579
2.290
T P
2jam_B
280
59
33
1.41
15.15
54.319
2.191
T P
2hw7_A
271
59
33
1.19
27.27
54.148
2.553
T P
1a06_A
279
59
33
1.37
9.09
54.051
2.243
T P
2hw6_A
242
59
32
1.25
28.12
52.751
2.366
T P
2ac3_A
277
59
31
0.99
29.03
51.234
2.850
T P
2qr7_A
298
59
31
2.18
6.45
45.403
1.360
T P
2j51_A
288
59
39
2.39
10.26
44.978
1.564
T P
2jfl_A
288
59
37
2.33
8.11
44.135
1.524
T P
1dar_A
615
59
36
2.59
2.78
40.185
1.338
T P
2efg_A
582
59
34
2.55
5.88
38.894
1.284
T P
2h5e_A
488
59
33
3.01
9.09
37.803
1.061
T P
2j7k_A
660
59
30
2.54
3.33
36.147
1.138
T P
2bm0_A
666
59
27
2.63
3.70
34.711
0.989
T P
2bm1_A
660
59
29
2.56
3.45
33.346
1.089
T P
2bv3_A
632
59
32
2.87
0.00
32.702
1.077
T P
1fnm_A
655
59
27
2.82
11.11
31.566
0.926
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]