LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_194.5wLII_11184_3
Total number of 3D structures: 43
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
3ezu_A
336
273
132
2.19
14.39
36.164
5.769
T P
1w25_A
454
273
126
2.32
18.25
35.459
5.208
T P
3bre_B
328
273
135
2.74
9.63
30.485
4.759
T P
2zay_A
123
273
83
1.83
14.46
27.332
4.297
T P
1xhe_B
122
273
79
1.68
6.33
26.775
4.445
T P
1zes_A
121
273
80
1.90
10.00
25.656
4.000
T P
2eub_A
121
273
79
1.92
7.59
25.448
3.912
T P
1b00_A
122
273
80
2.01
10.00
25.400
3.794
T P
1l5z_A
146
273
91
2.15
7.69
25.365
4.049
T P
2jb9_B
122
273
80
2.04
8.75
25.171
3.730
T P
2jba_B
121
273
79
2.01
8.86
25.116
3.740
T P
2jba_A
125
273
79
2.02
8.86
24.994
3.726
T P
1yio_A
198
273
89
2.12
2.25
24.953
4.016
T P
1mb3_A
117
273
75
1.95
2.67
24.480
3.656
T P
1qkk_A
139
273
92
2.17
7.61
24.253
4.050
T P
2a9o_A
117
273
78
1.93
7.69
24.107
3.839
T P
2a9r_A
117
273
77
1.93
6.49
23.779
3.793
T P
1zgz_A
121
273
79
1.99
10.13
22.742
3.781
T P
1zh2_A
120
273
81
2.03
7.41
22.593
3.805
T P
1ys7_B
226
273
80
2.03
6.25
22.583
3.765
T P
3crn_A
128
273
79
2.08
2.53
22.408
3.620
T P
1mvo_A
121
273
77
2.01
5.19
22.109
3.653
T P
1xhf_B
122
273
78
1.93
5.13
22.052
3.848
T P
2iyn_B
124
273
79
2.15
8.86
21.856
3.516
T P
1ny5_B
385
273
94
2.60
5.32
21.844
3.482
T P
2gwr_A
225
273
77
2.17
6.49
21.681
3.391
T P
1dbw_B
125
273
79
2.14
6.33
21.347
3.533
T P
1tmy_A
118
273
77
2.23
3.90
20.986
3.311
T P
2qsj_B
122
273
73
2.04
8.22
20.645
3.410
T P
1d5w_A
122
273
76
2.17
5.26
20.501
3.352
T P
1kgs_A
219
273
74
2.18
8.11
20.466
3.253
T P
1p2f_A
217
273
74
2.16
8.11
20.420
3.278
T P
1u0s_Y
118
273
78
2.25
3.85
20.329
3.323
T P
1dc8_A
123
273
73
2.27
5.48
18.361
3.075
T P
1dc7_A
124
273
71
2.16
4.23
18.207
3.139
T P
2oqr_A
226
273
50
2.23
14.00
13.908
2.150
T P
2cmn_A
117
273
43
2.73
6.98
9.958
1.520
T P
2pr5_A
127
273
40
2.57
2.50
9.843
1.498
T P
1lsw_A
117
273
41
2.67
9.76
9.812
1.482
T P
1xj3_A
116
273
41
2.72
7.32
9.513
1.451
T P
1y28_A
119
273
39
2.97
10.26
9.425
1.270
T P
1bv6_A
119
273
39
2.78
2.56
9.000
1.353
T P
2vv6_D
107
273
36
2.81
5.56
8.602
1.236
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]