LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_233.5wLII_11195_36
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
2pii_A
112
109
104
1.11
25.00
92.737
8.586
T P
2j9d_E
116
109
97
1.30
25.77
86.412
6.911
T P
2v5h_G
111
109
95
1.42
25.26
83.317
6.269
T P
2j9c_A
117
109
93
1.32
26.88
83.265
6.563
T P
2ns1_B
113
109
92
1.16
20.65
83.015
7.293
T P
1vfj_A
116
109
93
1.49
22.58
82.199
5.858
T P
1qy7_A
112
109
92
1.25
27.17
81.836
6.796
T P
1gnk_B
112
109
93
1.45
18.28
81.671
6.010
T P
2o66_B
108
109
92
1.37
23.91
81.366
6.253
T P
3bzq_A
99
109
90
1.23
27.78
81.008
6.778
T P
1ul3_A
95
109
89
1.03
25.84
80.263
7.872
T P
2eg2_A
95
109
89
1.05
25.84
79.857
7.768
T P
2gw8_A
99
109
90
1.42
24.44
79.583
5.916
T P
1hwu_B
101
109
87
0.93
27.59
78.758
8.455
T P
2gnk_A
95
109
89
1.37
19.10
78.388
6.037
T P
2dcl_A
99
109
77
1.65
15.58
66.494
4.388
T P
2cz4_A
100
109
77
1.82
24.68
65.278
4.017
T P
3dfe_B
83
109
74
1.52
18.92
64.281
4.574
T P
2gx8_C
364
109
78
1.89
15.38
63.223
3.917
T P
1o2c_A
89
109
74
1.73
17.57
63.065
4.050
T P
2pq4_A
90
109
59
2.33
11.86
38.316
2.433
T P
2b9w_A
423
109
51
2.30
0.00
33.029
2.128
T P
1y5v_A
360
109
47
2.73
4.26
27.374
1.663
T P
1r5y_A
361
109
46
2.79
2.17
26.887
1.593
T P
1wke_A
372
109
45
2.65
2.22
26.837
1.637
T P
1wkf_A
372
109
45
2.65
2.22
26.764
1.636
T P
1ozq_A
372
109
45
2.71
4.44
26.582
1.604
T P
1wkd_A
372
109
45
2.61
2.22
26.493
1.658
T P
2z1v_A
369
109
46
2.76
6.52
26.397
1.611
T P
2oko_A
365
109
44
2.81
6.82
26.325
1.511
T P
2nqz_A
360
109
42
2.74
9.52
24.904
1.478
T P
1pxg_A
365
109
40
2.97
7.50
22.902
1.303
T P
1efz_A
372
109
38
2.91
7.89
22.719
1.262
T P
3bld_A
348
109
32
2.45
6.25
21.635
1.254
T P
1c7n_A
394
109
31
2.57
3.23
19.371
1.162
T P
3bll_A
347
109
30
2.86
3.33
19.237
1.013
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]