Job Description A2A4P0 Confidence 100.00% Date Wed Jul 10 14:06:11 BST 2013 Rank 3 Aligned Residues 367 % Identity 21% Template c4b6eB_ PDB info PDB header:hydrolase Chain: B: PDB Molecule:non-structural protein 4a, serine protease ns3; PDBTitle: discovery of an allosteric mechanism for the regulation of2 hcv ns3 protein function Resolution 2.46 Å Model Dimensions (Å) X:76.636 Y:64.050 Z:55.877

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		603	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.	.	.	.	.	.	640	.	.	.	.	.	.	.	.	.	650	.	.	.	.	.	.	.	.	.	660	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		H	D	N	Q	I	L	I	V	I	G	E	T	G	S	G	K	T	T	Q	I	T	Q	Y	L	A	E	A	G	Y	T	S	R	G	K	I	G	C	T	Q	P	R	R	V	A	A	M	S	V	A	K	R	V	S	E	E	F	G	C	C	L
Query Conservation
Alig confidence																															.	.	.	.
Template Conservation																															.	.	.	.
Template Sequence		Q	S	F	Q	V	A	H	L	H	A	P	T	G	S	G	K	S	T	K	V	P	A	A	Y	A	A	Q	G	Y	.	.	.	.	K	V	L	V	L	N	P	S	V	A	A	T	L	G	F	G	A	Y	M	S	K	A	H	G	I	D	P
Template Known Secondary structure		S	S										T	T	S		T	T	T									T	T		.	.	.	.							S																	S
Template Predicted Secondary structure																															.	.	.	.
Template SS confidence
		195	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.					.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250
		663	.	.	.	.	.	.	670	.	.	.	.	.	.	.	.	.	680	.	.	.	.	.	.	.	.	.	690	.	.	.	.	.	.	.	.	.	700	.	.	.	.	.	.	.	.	.	710	.	.	.	.	.	.	.	.	.	720	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		G	Q	E	V	G	Y	T	I	R	F	E	D	C	T	S	P	E	T	V	I	K	Y	M	T	D	G	M	L	L	R	E	C	L	I	D	P	D	L	T	Q	Y	A	I	I	M	L	D	E	A	H	E	R	T	I	H	T	D	V	L	F
Query Conservation
Alig confidence														.	.	.	.	.													.	.
Template Conservation														.	.	.	.	.													.	.
Template Sequence		N	I	R	T	G	V	R	T	I	T	T	G	.	.	.	.	.	A	P	V	T	Y	S	T	Y	G	K	F	L	.	.	A	D	G	G	C	S	G	G	A	Y	D	I	I	I	C	D	E	C	H	S	T	D	S	T	T	I	L	G	I
Template Known Secondary structure						S	S							.	.	.	.	.		S											.	.		T	T	S			T	T	T		S					T	T	T	T			S
Template Predicted Secondary structure														.	.	.	.	.													.	.
Template SS confidence
		251	.	.	.	.	.	.	.	.	260	.	.						.	.	.	.	.	.	.	270	.	.	.	.			.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.
		723	.	.	.	.	.	.	730	.	.	.	.	.	.	.	.	.	740	.	.	.	.	.	.	.	.	.	750	.	.	.	.	.	.	.	.	.	760	.	.	.	.	.	.	.	.	.	770	.	.	.	.	.	.	.	.	.	780	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		G	L	L	K	K	T	V	Q	K	R	Q	D	M	K	L	I	V	T	S	A	T	L	D	A	V	K	F	S	Q	Y	F	Y	E	A	P	I	F	T	I	P	G	R	T	Y	P	V	E	I	L	Y	T	K	E	P	E	T	D	Y	L	D
Query Conservation
Alig confidence																										.	.	.	.																													.	.	.	.
Template Conservation																										.	.	.	.																													.	.	.	.
Template Sequence		G	T	V	L	D	Q	A	E	T	A	G	A	R	L	V	V	L	A	T	A	T	P	P	G	.	.	.	.	S	V	T	V	P	H	P	N	I	E	E	V	A	L	S	N	T	G	E	I	P	F	Y	G	K	A	I	P	.	.	.	.
Template Known Secondary structure								T	G	G	G	T									S	S		T	T	.	.	.	.							T	T								S		S	S				T	T					.	.	.	.
Template Predicted Secondary structure																										.	.	.	.																													.	.	.	.
Template SS confidence
		304	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.					.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.
		783	.	.	.	.	.	.	790	.	.	.	.	.	.	.	.	.	800	.	.	.	.	.	.	.	.	.	810	.	.	.	.	.	.	.	.	.	820	.	.	.	.	.	.	.	.	.	830	.	.	.	.	.	.	.	.	.	840	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	S	L	I	T	V	M	Q	I	H	L	T	E	P	P	G	D	I	L	V	F	L	T	G	Q	E	E	I	D	T	A	C	E	I	L	Y	E	R	M	K	S	L	G	P	D	V	P	E	L	I	I	L	P	V	Y	S	A	L	P	S
Query Conservation
Alig confidence		.	.	.	.	.	.	.	.	.																														.	.	.	.	.	.	.	.	.
Template Conservation		.	.	.	.	.	.	.	.	.																														.	.	.	.	.	.	.	.	.
Template Sequence		.	.	.	.	.	.	.	.	.	I	E	A	I	R	G	G	R	H	L	I	F	C	H	S	K	K	K	C	D	E	L	A	A	K	L	S	G	L	.	.	.	.	.	.	.	.	.	G	I	N	A	V	A	Y	Y	R	G	L	D	V
Template Known Secondary structure		.	.	.	.	.	.	.	.	.					S	S	S							S	S													T	T	.	.	.	.	.	.	.	.	.	T								T	T	S		G
Template Predicted Secondary structure		.	.	.	.	.	.	.	.	.																														.	.	.	.	.	.	.	.	.
Template SS confidence
											356	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.										.	.	.	.	.	390	.	.	.	.	.	.	.
		843	.	.	.	.	.	.	850	.	.	.	.	.	.	.	.	.	860	.	.	.	.	.	.	.	.	.	870	.	.	.	.	.	.	.	.	.	880	.	.	.	.	.	.	.	.	.	890	.	.	.	.	.	.				.	.	.
Predicted Secondary structure																																																								.	.	.
Query SS confidence																																																								.	.	.
Query Sequence		E	M	Q	T	R	I	F	D	P	A	P	P	G	S	R	K	V	V	I	A	T	N	I	A	E	T	S	L	T	I	D	G	I	Y	Y	V	V	D	P	G	F	V	K	Q	K	V	Y	N	S	K	T	G	I	D	.	.	.	Q	L	V
Query Conservation																																																								.	.	.
Alig confidence					.	.	.	.	.	.	.																					.																								.	.	.
Template Conservation					.	.	.	.	.	.	.																					.
Template Sequence		S	V	I	.	.	.	.	.	.	.	P	T	I	G	D	V	V	V	V	A	T	D	A	L	M	T	G	Y	T	G	.	D	F	D	S	V	I	D	C	N	T	C	V	T	Q	T	V	D	F	S	L	D	P	T	F	T	I	E	T	T
Template Known Secondary structure		G	G	S	.	.	.	.	.	.	.		S	S	S								T	T								.			S																		S	S	S
Template Predicted Secondary structure					.	.	.	.	.	.	.																					.
Template SS confidence
		398	.	400								.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.
		900	.	.	.	.	.	.	.	.	.	910	.	.	.	.	.	.	.	.	.	920	.	.	.	.	.	.	.	.	.	930	.																					.	.	.	.	.	.	.	.
Predicted Secondary structure																																		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence																																		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		V	T	P	I	S	Q	A	Q	A	K	Q	R	A	G	R	A	G	R	T	G	P	G	K	C	Y	R	L	Y	T	E	R	A	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	Y	R	D	E	M	L	T	T
Query Conservation																																		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Alig confidence																																		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.		.	.
Template Conservation																																																							.	.
Template Sequence		T	V	P	Q	D	A	V	S	R	S	Q	R	R	G	R	T	G	R	G	R	R	G	I	Y	R	F	V	T	P	G	E	R	P	S	G	M	F	D	S	S	V	L	C	E	C	Y	D	A	G	C	A	W	Y	.	.	E	L	T	P	A
Template Known Secondary structure						B									T	T	S		S	S	S							S					B		S	S	B																T	S	.	.
Template Predicted Secondary structure																																																							.	.
Template SS confidence
		450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.			.	.	.	.	.
		940	.	.	.	.	.	.	.	.	.	950	.	.	.	.	.	.	.	.	.	960	.	.	.	.	.	.		.	.	.	970	.	.	.	.	.	.	.	.	.	980	.	.	.	.	.	.	.	.	.	990	.	.	.	.	.	.	.	.
Predicted Secondary structure																													.
Query SS confidence																													.
Query Sequence		N	V	P	E	I	Q	R	T	N	L	A	S	T	V	L	S	L	K	A	M	G	I	N	D	L	L	S	.	F	D	F	M	D	A	P	P	M	E	T	L	I	T	A	M	E	Q	L	Y	T	L	G	A	L	D	D	E	G	L	L	T
Query Conservation																													.
Alig confidence																													.																										.
Template Conservation																																																							.
Template Sequence		E	T	S	V	R	L	R	A	Y	L	N	T	P	G	L	P	V	C	Q	D	H	L	E	F	W	E	S	V	F	T	G	L	T	H	I	D	A	H	F	L	S	Q	T	K	Q	A	G	D	N	F	P	Y	L	.	V	A	Y	Q	A	T
Template Known Secondary structure												T	S	T	T	S		B														T			S															S					.
Template Predicted Secondary structure																																																							.
Template SS confidence
		508	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560		.	.	.	.	.	.
		999	1000	.	.	.	.	.	.	.	.	.	1010	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		R	L	G	R	R	M	A	E	F	P	L	E	P	M	L	C	K	M	L
Query Conservation
Alig confidence
Template Conservation
Template Sequence		V	C	A	R	A	Q	A	P	P	P	S	W	D	Q	M	W	K	C	L
Template Known Secondary structure						T	T				S		S	S	G	G	G	G	G	G
Template Predicted Secondary structure
Template SS confidence
		567	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.