LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_499.5wLII_11364_20
Total number of 3D structures: 41
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
1ses_A
421
184
123
1.87
15.45
60.563
6.247
T P
1wle_B
469
184
128
1.98
11.72
54.193
6.142
T P
2dq0_A
447
184
126
2.12
11.11
52.965
5.686
T P
2dq3_A
425
184
108
2.42
17.59
45.141
4.282
T P
2v1y_B
170
184
83
1.39
3.61
44.081
5.566
T P
2iw5_A
666
184
81
1.86
13.58
41.025
4.135
T P
2b5u_A
470
184
82
1.74
14.63
40.569
4.449
T P
2v1d_A
666
184
80
1.83
13.75
40.224
4.146
T P
1y1u_A
544
184
85
2.02
8.24
40.181
4.003
T P
2h94_A
647
184
84
2.09
14.29
39.909
3.835
T P
2rd0_B
139
184
77
1.56
6.49
39.421
4.628
T P
1jch_A
468
184
83
1.93
13.25
39.375
4.082
T P
2hko_A
647
184
82
2.03
15.85
38.737
3.849
T P
1cii_A
602
184
82
2.04
10.98
38.673
3.834
T P
1bg1_A
559
184
75
1.77
9.33
37.654
4.009
T P
2dw4_A
634
184
77
1.90
20.78
37.489
3.845
T P
2z3y_A
643
184
79
2.15
12.66
37.396
3.516
T P
3cwg_B
507
184
82
2.04
9.76
36.980
3.832
T P
1qvr_A
803
184
73
1.57
16.44
36.868
4.380
T P
2ch7_A
309
184
71
1.54
7.04
36.368
4.325
T P
1lrz_A
400
184
63
1.59
11.11
32.878
3.727
T P
2v5d_A
722
184
64
1.72
4.69
32.740
3.519
T P
2ch7_B
307
184
71
2.33
8.45
30.241
2.926
T P
1deq_A
180
184
60
1.97
5.00
28.714
2.895
T P
1h6k_C
733
184
67
2.23
4.48
28.140
2.881
T P
2d3e_A
130
184
47
1.64
17.02
23.864
2.699
T P
2efr_A
155
184
47
1.78
17.02
23.495
2.502
T P
2v71_A
160
184
47
1.83
17.02
22.716
2.439
T P
1c1g_A
284
184
47
1.75
12.77
22.708
2.535
T P
2b9c_B
142
184
46
1.95
17.39
22.265
2.244
T P
1m1j_C
390
184
50
2.12
6.00
22.115
2.251
T P
1ic2_A
79
184
47
1.99
10.64
21.678
2.253
T P
2fxm_A
126
184
46
2.01
19.57
21.575
2.181
T P
2fxo_A
129
184
46
1.80
15.22
21.571
2.418
T P
2wb7_A
525
184
51
2.33
7.84
20.927
2.096
T P
1f5n_A
570
184
56
2.82
10.71
19.705
1.917
T P
1ha0_A
494
184
51
2.43
5.88
19.191
2.016
T P
2inr_A
442
184
44
2.48
9.09
17.916
1.704
T P
1deq_C
370
184
49
2.74
6.12
16.694
1.728
T P
1ei3_C
397
184
46
2.63
4.35
16.311
1.683
T P
1m1j_B
402
184
41
2.58
0.00
15.455
1.530
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]