LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_166.5wLII_11172_48
Total number of 3D structures: 25
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
1m5y_D
389
261
200
1.21
14.00
75.180
15.280
T P
2pv3_A
284
261
110
1.91
10.91
39.078
5.478
T P
2pv1_A
103
261
84
0.79
22.62
31.680
9.448
T P
1f8a_B
155
261
84
1.73
20.24
29.225
4.581
T P
2f21_A
153
261
83
1.74
20.48
29.204
4.504
T P
1yw5_A
177
261
83
1.72
16.87
29.164
4.548
T P
2itk_A
145
261
84
1.78
20.24
29.107
4.471
T P
1zcn_A
143
261
84
1.79
20.24
29.052
4.440
T P
1pin_A
153
261
84
1.85
19.05
28.912
4.303
T P
1nmw_A
114
261
84
1.84
19.05
28.857
4.327
T P
1zk6_A
91
261
81
1.84
23.46
27.700
4.180
T P
1jns_A
92
261
80
1.98
25.00
26.248
3.848
T P
1fjd_A
104
261
79
2.43
18.99
21.532
3.128
T P
1j6y_A
120
261
76
2.25
10.53
20.877
3.235
T P
1eq3_A
96
261
73
2.37
20.55
18.660
2.959
T P
1vao_A
550
261
49
2.88
4.08
12.259
1.643
T P
1w1k_A
550
261
45
2.78
4.44
12.155
1.562
T P
1pmi_A
440
261
45
2.80
2.22
12.153
1.554
T P
1w1j_A
550
261
47
2.60
8.51
12.028
1.741
T P
1qlt_A
550
261
50
2.96
8.00
11.771
1.637
T P
1e8g_A
550
261
44
2.72
6.82
11.423
1.562
T P
1w1m_A
550
261
46
2.65
6.52
11.345
1.674
T P
1e0y_A
550
261
45
2.49
8.89
11.080
1.735
T P
1dzn_A
550
261
45
2.92
11.11
10.530
1.490
T P
1w1l_A
550
261
41
2.49
9.76
10.196
1.582
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]