LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_417.5wLII_11277_185
Total number of 3D structures: 38
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
1w3b_A
388
343
286
1.54
11.54
79.128
17.427
T P
2gw1_A
487
343
205
2.21
5.85
44.987
8.866
T P
2vq2_A
220
343
186
2.18
8.06
43.329
8.156
T P
2q7f_A
194
343
170
2.04
12.35
42.188
7.946
T P
2fi7_A
223
343
165
1.99
12.12
40.916
7.887
T P
2ho1_A
222
343
164
2.03
12.80
40.404
7.705
T P
3ceq_B
269
343
159
2.07
13.21
39.754
7.317
T P
3edt_B
258
343
165
2.15
10.30
39.583
7.346
T P
2c0l_A
292
343
146
1.71
9.59
39.370
8.059
T P
3cv0_A
300
343
143
1.64
9.09
39.261
8.202
T P
2c0m_C
302
343
143
1.75
7.69
38.372
7.741
T P
3cvq_A
289
343
143
1.73
10.49
38.226
7.805
T P
1xnf_B
262
343
160
2.05
10.00
38.090
7.434
T P
1hh8_A
192
343
141
1.51
17.02
38.027
8.775
T P
1e96_B
185
343
143
1.83
6.99
37.905
7.424
T P
2pl2_A
194
343
160
2.19
4.38
37.531
6.980
T P
1wm5_A
205
343
139
1.82
6.47
37.103
7.228
T P
2fo7_A
136
343
129
1.11
10.08
36.333
10.661
T P
1fch_A
302
343
138
1.87
8.70
35.395
7.007
T P
2c2l_A
281
343
119
1.49
5.88
33.519
7.497
T P
1ihg_A
364
343
119
1.35
5.88
33.305
8.228
T P
1qz2_A
285
343
123
1.75
12.20
32.952
6.650
T P
1p5q_A
283
343
122
1.71
11.48
32.808
6.758
T P
1wao_1
471
343
129
1.86
10.85
32.743
6.582
T P
1kt1_A
374
343
119
1.87
11.76
32.180
6.026
T P
2vyi_A
128
343
115
1.33
7.83
31.886
8.027
T P
1a17_A
159
343
126
2.05
10.32
31.751
5.850
T P
1na0_A
119
343
114
1.37
8.77
31.469
7.732
T P
2dba_A
148
343
119
1.67
14.29
31.218
6.737
T P
1elw_A
117
343
111
1.31
12.61
30.470
7.870
T P
1kt0_A
357
343
112
1.79
14.29
30.153
5.916
T P
2bug_A
131
343
115
1.90
8.70
29.933
5.758
T P
1elr_A
128
343
108
1.50
6.48
29.358
6.761
T P
2if4_A
258
343
108
1.91
6.48
27.833
5.378
T P
2j9q_A
300
343
130
2.44
6.15
26.627
5.120
T P
1na3_A
86
343
82
1.24
7.32
22.964
6.123
T P
1ouv_A
265
343
109
2.73
2.75
20.075
3.856
T P
2avp_A
68
343
66
1.00
10.61
18.935
5.978
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]