LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_491.5wLII_11346_169
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
2dt9_A
153
97
69
1.66
14.49
67.245
3.925
T P
2dtj_A
164
97
64
1.88
9.38
58.080
3.226
T P
1y7p_B
217
97
60
1.99
8.33
54.348
2.877
T P
2fgc_A
161
97
63
2.13
11.11
51.333
2.828
T P
1sc6_A
390
97
57
2.10
7.02
50.442
2.592
T P
1psd_A
404
97
59
2.17
8.47
48.621
2.602
T P
1yba_A
406
97
58
2.07
6.90
47.929
2.677
T P
2iq8_A
264
97
58
2.02
12.07
47.395
2.738
T P
2p9c_A
405
97
56
2.03
7.14
47.206
2.629
T P
2p9g_A
404
97
56
2.01
7.14
47.092
2.658
T P
1ygy_A
527
97
55
2.12
10.91
42.857
2.474
T P
3ddn_A
527
97
55
2.13
10.91
42.718
2.469
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]