Job Description P76257 Confidence 100.00% Date Thu Jan 5 12:21:18 GMT 2012 Rank 1 Aligned Residues 574 % Identity 17% Template c2vsfA_ PDB info PDB header:hydrolase Chain: A: PDB Molecule:dna repair helicase rad3 related protein; PDBTitle: structure of xpd from thermoplasma acidophilum Resolution 2.9 Å

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		41	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.					.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.
Predicted Secondary structure																								.	.	.	.
Query SS confidence																								.	.	.	.
Query Sequence		L	V	V	E	A	G	T	G	T	G	K	T	Y	A	Y	L	A	P	A	L	R	A	.	.	.	.	K	K	K	V	I	I	S	T	G	S	K	A	L	Q	D	Q	L	Y	S	R	D	L	P	T	V	S	K	A	L	K	Y	T	G	N	V	A	L	L	K	G	R	S	N	Y	L	C	L	E	R	L	E	Q	Q	A
Query Conservation																								.	.	.	.
Alig confidence																								.	.	.	.																			.									.	.
Template Conservation																																														.									.	.
Template Sequence		V	A	L	E	S	P	T	G	S	G	K	T	I	M	A	L	K	S	A	L	Q	Y	S	S	E	R	K	L	K	V	L	Y	L	V	R	T	N	S	Q	E	E	Q	V	I	.	K	E	L	R	S	L	S	S	.	.	T	M	K	I	R	A	I	P	M	Q	G	R	V	N	M	C	I	L	Y	R	M	V	D	D	L
Template Known Secondary structure								S	S	S	S	T	T						T	T		S	S	T	T	T	T	S								S	S									.								T	.	.	T	S															S	T
Template Predicted Secondary structure																																														.									.	.
Template SS confidence
		25	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.		.	70	.	.	.	.	.	.			.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.
		117	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		L	A	G	G	D	L	P	V	Q	I	L	S	D	V	I	L	L	R	S	W	S	N	Q	T	V	D	G	D	I	S	T	C	V	S	V	A	E	D	S	Q	A	W	P	L	V	T	S	T	N	D	N	C	L	G	S	D	C	P	M	Y	K	D	C	F	V	V	K	A	R	K	K	A	M	D	A	D	V	V	V	V
Query Conservation
Alig confidence
Template Conservation
Template Sequence		H	E	I	N	A	E	S	L	A	K	F	C	N	M	K	K	R	E	V	M	A	G	N	E	A	A	C	P	Y	F	N	F	K	I	R	S	D	E	T	K	R	F	L	F	D	E	L	P	T	A	E	E	F	Y	D	Y	G	E	R	N	N	V	C	P	Y	E	S	M	K	A	A	L	P	D	A	D	I	V	I	A
Template Known Secondary structure		S	S																				T		G	G	G	S	T	T		S	G	G	G	G											T															T											G	G	G		S
Template Predicted Secondary structure
Template SS confidence
		102	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.
		197	.	.	200	.	.	.	.	.	.	.	.	.	210	.		.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.
Predicted Secondary structure																	.
Query SS confidence																	.
Query Sequence		N	H	H	L	F	L	A	D	M	V	V	K	E	S	G	.	F	G	E	L	I	P	E	A	D	V	M	I	F	D	E	A	H	Q	L	P	D	I	A	S	Q	Y	F	G	Q	S	L	S	S	R	Q	L	L	D	L	A	K	D	I	T	I	A	Y	R	T	E	L	K	D	T	Q	Q	L	Q	K	C	A	D	R	L
Query Conservation																	.
Alig confidence																	.
Template Conservation
Template Sequence		P	Y	A	Y	F	L	N	R	S	V	A	E	K	F	L	S	H	W	G	V	S	R	N	Q	I	V	I	I	L	D	E	A	H	N	L	P	D	I	G	R	S	I	G	S	F	R	I	S	V	E	S	L	N	R	A	D	R	E	A	Q	A	Y	G	D	P	E	L	S	Q	K	I	H	V	S	D	L	I	E	M	I
Template Known Secondary structure							T	S															S	T	T						T	T	G	G	G																												T	T			B	S	S	S	S		B
Template Predicted Secondary structure
Template SS confidence
		182	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.
		276	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.					.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.
Predicted Secondary structure																																																														.	.	.	.
Query SS confidence																																																														.	.	.	.
Query Sequence		A	Q	S	A	Q	D	F	R	L	Q	L	G	E	P	G	Y	R	G	N	L	R	E	L	L	A	N	P	Q	I	Q	R	A	F	L	L	L	D	D	T	L	E	L	C	Y	D	V	A	K	L	S	L	G	R	S	A	L	L	D	A	A	.	.	.	.	F	E	R	A	T	L	Y	R	T	R	L	K	R	L	K	E
Query Conservation																																																														.	.	.	.
Alig confidence																																																														.	.	.	.
Template Conservation
Template Sequence		R	S	A	L	Q	S	M	V	S	E	R	C	G	K	G	D	V	R	I	R	F	Q	E	F	M	E	Y	M	R	I	M	N	K	R	S	E	R	E	I	R	S	L	L	N	Y	L	Y	L	F	G	E	Y	V	E	N	E	K	E	K	V	G	K	V	P	F	S	Y	C	S	S	V	A	S	R	I	I	A	F	S	D
Template Known Secondary structure														S	S	S																		T																												T	S																		S
Template Predicted Secondary structure
Template SS confidence
		262	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.
		352	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.
Predicted Secondary structure
Query SS confidence
Query Sequence		I	N	Q	P	G	Y	S	Y	W	Y	E	C	T	S	R	H	F	T	L	A	L	T	P	L	S	V	A	D	K	F	K	E	L	M	A	Q	K	P	G	S	W	I	F	T	S	A	T	L	S	V	N	D	D	L	H	H	F	T	S	R	L	G	I	E	Q	A	E	S	L	L	L	P	S	P	F	D	Y	S	R	Q
Query Conservation
Alig confidence																			.																		.	.	.													.	.	.												.
Template Conservation																			.																		.	.	.													.	.	.												.
Template Sequence		Q	D	E	E	K	Y	A	A	I	L	S	P	E	D	G	G	Y	.	M	Q	A	A	C	L	D	P	S	G	I	L	E	V	L	K	E	.	.	.	S	K	T	I	H	M	S	G	T	L	D	P	.	.	.	F	D	F	Y	S	D	I	T	G	F	E	.	I	P	F	K	K	I	G	E	I	F	P	P	E	N	R
Template Known Secondary structure		S		T	T	T								S	T	T			.								T					G	G	G	G	G	.	.	.	S							S				S	.	.	.									T			.							S					G	G	G
Template Predicted Secondary structure																			.																		.	.	.													.	.	.												.
Template SS confidence
		342	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.		.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.				.	.	.	.	380	.	.	.	.	.	.	.				.	.	390	.	.	.	.	.	.	.	.		.	400	.	.	.	.	.	.	.	.	.	410	.	.	.
		432	.	.	.	.	.	.			.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.
Predicted Secondary structure									.	.
Query SS confidence									.	.
Query Sequence		A	L	L	C	V	L	R	.	.	N	L	P	Q	T	N	Q	P	G	S	A	R	Q	L	A	A	M	L	R	P	I	I	E	A	N	N	G	R	C	F	M	L	C	T	S	H	A	M	M	R	D	L	A	E	Q	F	R	A	T	M	T	L	P	V	L	L	Q	G	E	T	S	K	G	Q	L	L	Q	Q	F	V	S
Query Conservation									.	.
Alig confidence									.	.
Template Conservation
Template Sequence		Y	I	A	Y	Y	D	G	V	S	S	K	Y	D	T	L	D	E	K	E	L	D	R	M	A	T	V	I	E	D	I	I	L	K	V	K	K	N	T	I	V	Y	F	P	S	Y	S	L	M	D	R	V	E	N	R	V	S	F	E	H	M	K	E	Y	R	G	I	D	Q	K	E	L	Y	S	M	L	K	K	F	R	R
Template Known Secondary structure							S	S	S			S	S	S	S																						S							S	S													S							T	T
Template Predicted Secondary structure
Template SS confidence
		414	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.
		510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	G	N	A	L	L	V	A	T	S	S	F	W	E	G	V	D	V	R	G	D	T	L	S	L	V	I	I	D	K	L	P	F	T	S	P	D	D	P	L	L	K	A	R	M	E	D	C	R	L	R	G	G	D	P	F	D	E	V	Q	L	P	D	A	V	I	T	L	K	Q	G	V	G	R	L	I	R	D	A	D
Query Conservation
Alig confidence								.	.	.	.																											.
Template Conservation								.	.	.	.																											.
Template Sequence		D	H	G	T	I	F	.	.	.	.	A	V	S	G	G	R	L	S	E	G	N	E	L	E	M	I	I	L	A	G	L	P	F	P	R	P	.	D	A	I	N	R	S	L	F	D	Y	Y	E	R	K	Y	G	K	G	W	E	Y	S	V	V	Y	P	T	A	I	K	I	R	Q	E	I	G	R	L	I	R	S	A	E
Template Known Secondary structure		S						.	.	.	.			T	T	S	G	G	G											S	S						S	.														T	T	S							T																		S	S	S
Template Predicted Secondary structure								.	.	.	.																											.
Template SS confidence
		494	.	.	.	.	.					500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.		.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.
		590	.	.	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.		.	.	.	.	.	.	.	630	.	.	.	.	.	.
Predicted Secondary structure																																			.
Query SS confidence																																			.
Query Sequence		D	R	G	V	L	V	I	C	D	N	R	L	V	M	R	P	Y	G	A	T	F	L	A	S	L	P	P	A	P	R	T	R	D	.	I	A	R	A	V	R	F	L	A	I	P	S	S	R
Query Conservation																																			.
Alig confidence																.	.	.	.	.	.														.
Template Conservation																.	.	.	.	.	.
Template Sequence		D	T	G	A	C	V	I	L	D	K	R	A	G	Q	.	.	.	.	.	.	F	R	K	F	I	P	D	M	K	K	T	S	D	P	A	S	D	I	Y	N	F	F	I	S	A	Q	A	R
Template Known Secondary structure											T	T		G	G	.	.	.	.	.	.	G	G	T	T	S	T	T					S	S
Template Predicted Secondary structure																.	.	.	.	.	.
Template SS confidence
		574	.	.	.	.	.	580	.	.	.	.	.	.	.							.	.	590	.	.	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.