LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_27.5wLII_10776_2
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
2j4d_B
499
115
109
1.09
16.51
93.169
9.140
T P
2ijg_X
492
115
105
1.19
18.10
88.841
8.167
T P
1np7_A
483
115
94
1.20
11.70
78.783
7.215
T P
1qnf_A
475
115
92
1.68
11.96
74.207
5.159
T P
1tez_A
474
115
91
1.51
12.09
73.993
5.662
T P
1dnp_A
469
115
88
1.54
11.36
72.517
5.363
T P
2e0i_B
431
115
88
1.75
11.36
71.537
4.768
T P
1u3d_A
485
115
85
1.43
9.41
71.461
5.566
T P
3cvu_A
501
115
87
1.60
10.34
70.248
5.104
T P
2j07_A
419
115
87
1.67
10.34
69.836
4.903
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]