LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_394.5wLII_11277_122
Total number of 3D structures: 20
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
1jx7_A
117
114
111
0.39
26.13
97.165
22.467
T P
2hy5_A
130
114
111
1.45
15.32
90.632
7.177
T P
2d1p_A
130
114
112
1.56
16.07
90.505
6.752
T P
2hy5_B
132
114
109
1.70
22.02
86.634
6.048
T P
2d1p_B
119
114
110
1.89
18.18
85.103
5.540
T P
1l1s_A
111
114
105
1.70
14.29
84.280
5.824
T P
2pd2_A
108
114
103
1.72
17.48
82.079
5.646
T P
2hy5_C
101
114
100
1.63
15.00
79.936
5.779
T P
2fb6_A
116
114
99
1.81
13.13
75.750
5.174
T P
2d1p_C
95
114
93
1.68
18.28
74.242
5.217
T P
2qs7_A
138
114
104
2.03
15.38
68.065
4.888
T P
1x9a_A
87
114
80
2.17
12.50
59.154
3.522
T P
1rhx_A
87
114
75
2.14
12.00
53.929
3.349
T P
2w27_A
401
114
78
2.58
5.13
45.026
2.911
T P
1o94_A
729
114
75
2.64
9.33
41.079
2.734
T P
1rw7_A
235
114
63
2.46
14.29
39.401
2.457
T P
1djq_A
729
114
69
2.64
10.14
39.353
2.520
T P
2yxo_B
265
114
66
2.75
9.09
35.172
2.318
T P
1ps9_A
671
114
60
2.68
10.00
33.627
2.160
T P
1pkx_B
589
114
50
2.62
12.00
30.087
1.841
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]