LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_515.5wLII_11389_16
Total number of 3D structures: 9
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
2p6c_A
137
138
137
0.16
63.50
99.275
51.722
T P
1vmj_A
139
138
137
0.69
51.09
98.598
17.450
T P
1vph_C
144
138
136
1.15
32.35
94.381
10.866
T P
1vmf_A
136
138
132
1.26
33.33
91.927
9.691
T P
2p6h_A
134
138
134
1.31
34.33
91.511
9.526
T P
1ve0_A
134
138
134
1.43
33.58
90.770
8.779
T P
1xbf_A
131
138
130
1.29
35.38
89.051
9.340
T P
1vmh_A
129
138
128
1.24
36.72
88.584
9.576
T P
2cu5_A
129
138
124
1.65
37.10
83.117
7.078
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]