LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_356.5wLII_11277_3
Total number of 3D structures: 53
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
1zfj_A
476
310
263
1.32
12.93
82.189
18.508
T P
1jr1_A
436
310
191
2.04
13.61
48.751
8.915
T P
1vrd_A
321
310
151
1.53
13.25
46.621
9.270
T P
1me7_A
365
310
154
1.68
11.69
46.154
8.633
T P
1eep_A
314
310
148
1.48
12.84
45.880
9.383
T P
1me8_A
357
310
150
1.67
12.00
45.097
8.487
T P
2cu0_A
358
310
147
1.59
10.20
44.696
8.714
T P
1jcn_A
395
310
146
1.83
13.01
41.289
7.566
T P
2qrd_G
325
310
113
1.67
11.50
33.981
6.373
T P
2oox_E
333
310
114
1.77
13.16
33.858
6.096
T P
2v8q_E
304
310
111
1.60
18.92
33.771
6.548
T P
2o16_B
135
310
111
1.79
17.12
32.923
5.867
T P
3ddj_A
279
310
109
1.88
21.10
32.265
5.494
T P
2rih_A
131
310
109
1.84
16.51
31.983
5.615
T P
2qlv_C
310
310
108
1.81
14.81
31.933
5.667
T P
1nf7_A
454
310
151
2.70
9.27
31.785
5.398
T P
2p9m_B
129
310
108
1.88
14.81
31.591
5.450
T P
2rc3_C
128
310
104
1.80
15.38
30.855
5.483
T P
3fna_B
123
310
104
1.78
15.38
30.833
5.540
T P
2oux_A
257
310
122
2.24
17.21
30.613
5.211
T P
2uv7_A
143
310
108
2.00
16.67
30.392
5.134
T P
2nyc_A
130
310
102
1.88
12.75
29.594
5.148
T P
1o50_A
141
310
102
1.84
15.69
29.529
5.270
T P
1vr9_A
121
310
102
1.99
18.63
28.824
4.871
T P
2yvx_A
442
310
117
2.18
18.80
28.725
5.128
T P
1xkf_B
123
310
101
1.97
15.84
28.639
4.871
T P
2yvy_A
248
310
120
2.31
17.50
28.220
4.973
T P
1y5h_A
123
310
102
1.88
15.69
26.976
5.161
T P
2uv4_A
143
310
106
2.00
19.81
26.830
5.046
T P
2uv6_A
143
310
105
2.04
20.00
26.574
4.917
T P
2yzq_A
224
310
103
2.05
22.33
26.504
4.781
T P
3fhm_A
136
310
102
1.92
18.63
26.172
5.038
T P
3ctu_B
152
310
104
2.05
18.27
26.155
4.840
T P
2yzi_B
136
310
105
2.13
15.24
25.948
4.706
T P
2nye_A
132
310
98
1.73
12.24
25.874
5.343
T P
2ef7_A
127
310
103
2.31
13.59
25.491
4.267
T P
2qh1_B
185
310
102
2.14
13.73
24.717
4.544
T P
1pvm_B
184
310
104
2.21
16.35
24.479
4.506
T P
2j9l_C
172
310
99
2.10
20.20
24.210
4.497
T P
2yvz_A
248
310
94
2.26
20.21
24.167
3.991
T P
1pbj_A
120
310
101
2.38
14.85
23.184
4.080
T P
2r2z_A
84
310
42
2.50
9.52
9.809
1.614
T P
3ded_C
91
310
44
2.54
4.55
9.639
1.667
T P
2pli_A
84
310
45
2.67
8.89
9.374
1.627
T P
2o1r_A
81
310
44
2.73
4.55
9.078
1.552
T P
2nqw_A
87
310
42
2.75
4.76
9.065
1.472
T P
2p13_A
85
310
43
2.84
4.65
9.021
1.465
T P
2pls_A
86
310
41
2.82
4.88
8.966
1.404
T P
2p4p_A
84
310
44
2.74
6.82
8.872
1.550
T P
2o3g_A
76
310
41
2.66
7.32
8.786
1.483
T P
2rk5_A
86
310
39
2.66
5.13
8.560
1.416
T P
2oai_A
80
310
38
2.47
5.26
8.332
1.476
T P
2p3h_A
98
310
38
2.71
5.26
8.048
1.353
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]