LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_498.5wLII_11364_17
Total number of 3D structures: 10
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
1ng6_A
148
128
121
0.24
35.54
95.241
36.073
T P
1zq1_C
508
128
51
2.03
5.88
31.749
2.395
T P
2hvr_A
319
128
53
2.51
20.75
30.848
2.029
T P
2d6f_D
522
128
44
2.13
9.09
28.343
1.973
T P
1gtm_A
417
128
51
2.65
13.73
27.216
1.854
T P
3evr_A
397
128
45
2.96
11.11
24.449
1.471
T P
2hvq_A
316
128
42
2.23
2.38
23.443
1.805
T P
2f2a_B
408
128
34
2.48
2.94
19.901
1.318
T P
3ek8_A
393
128
31
2.91
3.23
15.147
1.029
T P
3evu_A
393
128
24
2.63
0.00
13.177
0.878
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]