LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_98.5wLII_11068_57
Total number of 3D structures: 34
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
1qu7_A
227
132
76
1.87
10.53
51.612
3.861
T P
2ch7_A
309
132
79
2.06
8.86
50.787
3.654
T P
1cii_A
602
132
86
2.16
6.98
50.724
3.806
T P
2ch7_B
307
132
79
2.05
7.59
50.453
3.670
T P
1deq_A
180
132
76
2.10
9.21
47.161
3.450
T P
2dw4_A
634
132
74
2.14
5.41
46.697
3.303
T P
2iw5_A
666
132
73
2.20
5.48
46.046
3.178
T P
2z3y_A
643
132
75
2.20
1.33
45.889
3.255
T P
1wyy_A
126
132
65
1.77
9.23
44.825
3.481
T P
2hko_A
647
132
75
2.34
5.33
44.637
3.075
T P
1jch_A
468
132
67
2.04
4.48
42.982
3.131
T P
2dq3_A
425
132
60
1.64
5.00
42.763
3.457
T P
1y1u_A
544
132
70
2.10
8.57
42.229
3.176
T P
1f5n_A
570
132
78
2.27
5.13
41.527
3.284
T P
2b5u_A
470
132
65
2.08
6.15
41.232
2.981
T P
2v1d_A
666
132
72
2.17
4.17
41.171
3.174
T P
1qvr_A
803
132
65
2.19
4.62
40.752
2.840
T P
2h94_A
647
132
71
2.13
5.63
40.357
3.181
T P
2wb7_A
525
132
55
1.73
5.45
39.072
3.010
T P
3cwg_B
507
132
66
2.36
4.55
38.834
2.687
T P
1bg1_A
559
132
67
2.24
4.48
38.474
2.863
T P
1m1j_C
390
132
55
1.55
1.82
38.291
3.336
T P
2dnx_A
130
132
62
2.22
6.45
38.125
2.674
T P
1lrz_A
400
132
56
2.11
3.57
36.993
2.533
T P
1ei3_C
397
132
52
1.81
3.85
36.776
2.728
T P
2efr_A
155
132
56
1.89
10.71
36.408
2.810
T P
1c1g_A
284
132
55
1.96
3.64
35.910
2.663
T P
1bf5_A
545
132
61
2.09
6.56
35.749
2.785
T P
2r05_A
697
132
62
2.13
11.29
35.465
2.777
T P
3fhn_A
673
132
66
2.77
6.06
34.943
2.297
T P
2oev_A
697
132
64
2.46
3.12
34.692
2.503
T P
2jqq_A
154
132
47
2.03
4.26
31.087
2.210
T P
1u0b_B
461
132
44
2.19
6.82
26.803
1.924
T P
2iub_F
342
132
40
2.54
5.00
22.842
1.515
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]