LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_191.5wLII_11181_78
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
1sr9_B
577
266
158
1.97
22.78
52.915
7.625
T P
3fig_B
577
266
157
2.18
22.29
50.375
6.890
T P
3ble_A
307
266
123
1.87
14.63
41.020
6.239
T P
3eeg_B
273
266
92
1.81
15.22
31.346
4.806
T P
3dxi_A
299
266
88
1.77
14.77
30.547
4.716
T P
1nvm_A
340
266
89
1.87
16.85
29.990
4.513
T P
3ewb_X
271
266
86
1.81
17.44
29.696
4.499
T P
2cw6_A
296
266
96
2.01
13.54
29.568
4.549
T P
2ftp_A
300
266
97
2.05
16.49
29.087
4.504
T P
1ydo_A
298
266
93
2.08
16.13
28.166
4.274
T P
3bg9_A
601
266
82
1.87
8.54
26.252
4.153
T P
1ydn_A
283
266
88
2.18
19.32
25.858
3.862
T P
2nx9_B
453
266
85
2.09
12.94
25.217
3.878
T P
2qf7_A
1075
266
83
2.02
8.43
25.028
3.918
T P
3bg3_A
679
266
82
2.10
9.76
23.944
3.730
T P
1rqe_A
472
266
80
2.11
13.75
23.718
3.617
T P
1rr2_A
471
266
79
2.10
10.13
23.527
3.594
T P
1rqb_A
471
266
79
2.12
13.92
23.485
3.562
T P
1s3h_A
471
266
79
2.15
13.92
23.077
3.514
T P
1u5j_A
470
266
80
2.21
13.75
23.043
3.469
T P
1t4o_B
88
266
53
2.07
18.87
15.358
2.439
T P
3bg5_A
1137
266
56
2.62
3.57
14.008
2.056
T P
2hqa_A
910
266
57
2.70
1.75
13.692
2.037
T P
2jh3_A
459
266
47
2.76
8.51
11.986
1.646
T P
2hnh_A
910
266
40
2.62
7.50
9.927
1.472
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]