Biochemistry Research International

Research Article

Structural Predictive Model of Presenilin-2 Protein and Analysis of Structural Effects of Familial Alzheimer’s Disease Mutations

Table 1

Energetic and stereochemical validation of the created models of the PS2 protein.


Model	Software	QMEAN_Disco	Ramachandran plot

PS2 unrefined	I-tasser	0.539	Favored region: 381 (85.4%)
			Allowed region: 52 (11.7%)
			Outlier region: 13 (2.9%)

PS2 refined	I-tasser-ModRefiner	0,598	Favored region: 419 (93.9%)
			Allowed region: 19 (4.3%)
			Outlier region: 8 (1.8%)

PS2 refined	I-tasser-remo	0.536	Favored region: 381 (85.4%)
			Allowed region: 52 (11.7%)
			Outlier region: 13 (2.9%)

PS2 refined	I-tasser-FGMD	0.550	Favored region: 385 (86.3%)
			Allowed region: 40 (9.0%)
			Outlier region: 21 (4.7%)

PS2 unrefined	Phyre2	0.511	Favored region: 386 (86.5%)
			Allowed region: 38 (8.5%)
			Outlier region: 22 (4.9%)

PS2 refined	Phyre2-ModRefiner	0.528	Favored region: 401 (89.9%)
			Allowed region: 32 (7.2%)
			Outlier region: 13 (2.9%)

PS2 refined	Phyre2-remo	0.388	Favored region: 345 (77.4%)
			Allowed region: 39 (8.7%)
			Outlier region: 62 (13.9%)

PS2 refined	Phyre2-FGMD	0.451	Favored region: 350 (78.5%)
			Allowed region: 66 (14.8%)
			Outlier region: 30 (6.7%)