LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_134.5wLII_11080_2
Total number of 3D structures: 12
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
1fl9_A
157
162
152
0.68
26.32
92.796
19.449
T P
1htw_A
158
162
152
1.31
25.00
89.363
10.813
T P
2cvh_A
220
162
93
2.33
13.98
40.056
3.828
T P
1p9r_A
378
162
90
2.24
20.00
38.311
3.842
T P
2v1u_A
382
162
86
2.34
20.93
36.248
3.518
T P
1z47_A
345
162
83
2.37
22.89
35.333
3.366
T P
1nij_A
317
162
79
2.34
18.99
32.700
3.237
T P
2vp0_A
197
162
62
2.16
16.13
28.337
2.744
T P
1zm7_B
198
162
62
2.09
19.35
28.207
2.830
T P
2vp4_D
199
162
64
2.21
17.19
28.044
2.772
T P
2jcs_A
198
162
62
2.10
19.35
27.777
2.819
T P
1f1u_A
322
162
42
2.50
11.90
18.010
1.614
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]