LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_201.5wLII_11184_17
Total number of 3D structures: 7
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
2d1p_A
130
100
99
1.42
21.21
93.364
6.513
T P
2hy5_A
130
100
99
1.52
22.22
93.180
6.103
T P
1jx7_A
117
100
97
1.70
16.49
89.504
5.380
T P
2d1p_B
119
100
97
2.13
13.40
75.882
4.356
T P
1php_A
394
100
81
2.14
11.11
58.946
3.619
T P
2r48_A
105
100
48
2.55
8.33
32.256
1.810
T P
2r4q_A
102
100
48
2.59
6.25
32.031
1.788
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]