LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_211.5wLII_11184_36
Total number of 3D structures: 39
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
3bwl_A
125
127
118
1.39
15.25
87.678
7.912
T P
2r78_C
116
127
98
1.80
11.22
69.943
5.166
T P
3f1p_B
111
127
90
1.88
7.78
60.856
4.549
T P
1d06_A
130
127
95
2.11
15.79
59.908
4.291
T P
2b02_A
111
127
88
1.85
6.82
59.437
4.516
T P
1s67_L
119
127
94
2.12
13.83
57.072
4.226
T P
3f1p_A
114
127
88
1.94
9.09
56.776
4.308
T P
2v1b_A
144
127
89
2.10
15.73
56.297
4.040
T P
1y28_A
119
127
88
1.99
15.91
56.244
4.201
T P
1bv6_A
119
127
87
2.03
17.24
55.759
4.083
T P
2cmn_A
117
127
87
2.00
16.09
55.359
4.145
T P
1lsw_A
117
127
87
2.01
14.94
55.262
4.122
T P
2gj3_A
119
127
95
2.07
12.63
54.984
4.386
T P
2vv6_D
107
127
87
2.08
18.39
54.826
3.996
T P
1xj3_A
116
127
85
1.93
16.47
54.155
4.194
T P
1v9y_A
103
127
88
2.08
13.64
53.791
4.034
T P
1gsv_A
122
127
93
2.22
10.75
53.612
4.015
T P
2a24_B
108
127
90
2.17
6.67
53.539
3.969
T P
1f9i_A
125
127
90
2.15
10.00
52.942
4.001
T P
2pr5_A
127
127
88
2.02
17.05
52.750
4.155
T P
1d7e_A
119
127
90
2.22
8.89
52.443
3.886
T P
1ot6_A
125
127
89
2.19
11.24
52.164
3.888
T P
1otd_A
105
127
91
2.14
9.89
51.940
4.067
T P
1x0o_A
119
127
87
1.94
8.05
51.322
4.275
T P
2v0u_A
146
127
88
2.21
14.77
51.163
3.807
T P
1n9l_A
109
127
85
2.05
12.94
50.907
3.951
T P
1byw_A
110
127
86
2.07
15.12
50.511
3.965
T P
2z6d_A
118
127
86
2.13
15.12
50.439
3.853
T P
1ll8_A
114
127
85
2.09
15.29
50.018
3.876
T P
2a24_A
107
127
86
2.11
8.14
49.055
3.896
T P
3fc7_A
100
127
81
2.17
11.11
48.934
3.568
T P
1p97_A
114
127
85
2.03
7.06
48.929
3.991
T P
2z6c_A
121
127
82
2.02
13.41
47.605
3.859
T P
2ebf_X
711
127
42
2.37
9.52
24.710
1.698
T P
2ebh_X
711
127
43
2.59
13.95
23.377
1.596
T P
2c2a_A
240
127
46
2.73
10.87
22.417
1.624
T P
2r6s_A
299
127
33
2.75
9.09
18.583
1.159
T P
1jfy_A
306
127
33
3.07
15.15
17.866
1.042
T P
2ec5_A
711
127
34
2.92
2.94
17.806
1.125
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]