StralSV: assessment of sequence variability within similar 3D structures and application to polio RNA-dependent RNA polymerase

Table 3 SCOP categorization of template fragments selected at each of six positions along poliovirus RdRp

		RdRp	DsPhage	RT	DNA pol1	Other	Templates
Position	Window	e.8.1.4	e.8.1.6	e.8.1.2	e.8.1.1	not e.8	with SCOP ID
D238	w90	85	32	0	0	3	120
	w80	85	32	0	0	0	119
	w70	79	32	0	0	0	111
	w50	79	0	0	0	0	79
N297	w90	85	32	78	0	9	204
	w80	85	32	41	2	160	320
	w70	85	32	71	3	289	480
	w50	78	32	0	4	197	311
D328	w90	84	32	3	0	6	125
	w80	84	32	8	0	17	141
	w70	84	32	4	0	34	154
	w50	71	2	0	0	3	76
L374	w90	77	0	0	0	2	79
	w80	80	0	0	0	3	83
	w70	82	0	1	0	3	86
	w50	59	0	0	0	2	61
H398	w90	79	0	0	0	3	82
	w80	80	0	0	0	48	128
	w70	68	0	0	2	376	446
	w50	36	0	0	0	182	218
H413	w90	37	0	0	0	1	38
	w80	45	0	0	0	54	99
	w70	40	0	0	2	392	434
	w50	37	0	0	13	695	745

Position: residue and position number in poliovirus polymerase; Window: window_size parameter settings (w: window); RdRp e.8.1.4: RNA-dependent RNA polymerase; DsPhage e.8.1.6: dsRNA phage RNA-dependent RNA-polymerase; RT e.8.1.2: Reverse transcriptase; DNA pol1 e.8.1.1: DNA polymerase I; Other not e.8: all other SCOP families.
KEY:
e.8.1.4 RdRp RNA-dependent RNA-polymerase
e.8.1.6 DsPhage dsRNA phage RNA-dependent RNA-polymerase
e.8.1.2 RT Reverse transcriptase
e.8.1.1 DNApol1 DNA polymerase I

ISSN: 1471-2105