LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_69.5wLII_10961_34
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
1q9h_A
430
117
100
1.98
22.00
65.624
4.807
T P
1gpi_A
431
117
99
1.98
21.21
65.442
4.762
T P
7cel_A
434
117
101
2.11
19.80
64.504
4.568
T P
4cel_A
434
117
101
2.11
17.82
64.469
4.565
T P
6cel_A
434
117
101
2.10
19.80
64.240
4.588
T P
2v3i_A
434
117
102
2.12
18.63
64.147
4.601
T P
1q2e_A
426
117
100
2.10
19.00
63.995
4.539
T P
1egn_A
434
117
102
2.14
19.61
63.931
4.558
T P
1q2b_A
434
117
99
2.05
17.17
63.700
4.612
T P
2rfw_A
430
117
98
1.99
22.45
63.600
4.681
T P
1ojj_A
398
117
98
2.29
15.31
62.555
4.106
T P
1dym_A
398
117
95
2.20
14.74
61.061
4.133
T P
3ovw_A
400
117
94
2.11
12.77
60.735
4.248
T P
1a39_A
402
117
91
2.19
16.48
60.049
3.981
T P
2a39_A
398
117
93
2.15
13.98
59.840
4.137
T P
2p4b_A
284
117
44
2.03
9.09
29.950
2.066
T P
2yzy_A
163
117
45
2.43
4.44
28.935
1.775
T P
2v43_B
276
117
47
2.56
8.51
28.633
1.765
T P
2byo_A
183
117
55
2.85
10.91
28.555
1.865
T P
2zf3_A
186
117
46
2.45
6.52
27.332
1.806
T P
3buu_A
224
117
45
2.49
11.11
27.054
1.737
T P
3bmz_B
190
117
41
2.25
4.88
26.421
1.745
T P
2zpd_A
183
117
40
2.38
7.50
24.544
1.615
T P
3bk5_A
235
117
41
2.45
4.88
23.762
1.609
T P
1iwl_A
177
117
37
2.62
0.00
23.663
1.359
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]