Job Description P76123 Confidence 99.91% Date Thu Jan 5 12:19:16 GMT 2012 Rank 24 Aligned Residues 306 % Identity 15% Template c3j0aB_ PDB info PDB header:immune system Chain: B: PDB Molecule:toll-like receptor 5; PDBTitle: homology model of human toll-like receptor 5 fitted into an electron2 microscopy single particle reconstruction Resolution 26.00 Å

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		2	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.				.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.				.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.
Predicted Secondary structure																												.	.	.																					.	.	.
Query SS confidence																												.	.	.																					.	.	.
Query Sequence		I	T	D	L	I	L	H	N	H	P	R	M	K	T	I	T	L	N	D	N	H	I	A	H	L	N	.	.	.	A	K	N	T	T	K	L	E	Y	L	N	L	S	N	N	N	L	L	P	T	.	.	.	N	D	I	D	Q	L	I	S	S	K	H	L	W	H	V	L	V	N	G	I	N	N	D	P	L	A	Q	M
Query Conservation																												.	.	.																					.	.	.
Alig confidence																												.	.	.																					.	.	.
Template Conservation
Template Sequence		I	D	K	E	A	F	R	N	L	P	N	L	R	I	L	D	L	G	S	S	K	I	Y	F	L	H	P	D	A	F	Q	G	L	F	H	L	F	E	L	R	L	Y	F	C	G	L	S	D	A	V	L	K	D	G	Y	F	R	N	L	K	A	L	T	R	L	D	L	S	K	N	Q	I	R	S	L	Y	L	H	P	S
Template Known Secondary structure				S	S	T	T	S	S		T	T							T	T					B			T	T	S	S		S		S	S							T	T				S	S			S	T	T				S	S		S	S								S										G	G
Template Predicted Secondary structure
Template SS confidence
		86	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.
		76	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		Q	Y	W	T	A	V	R	N	I	I	D	D	T	N	E	V	T	I	D	L	S	G	L	N	L	T	T	Q	P	P	G	L	Q	N	F	T	S	I	N	L	D	N	N	Q	F	T	H	F	D	A	T	N	Y	D	R	L	V	K	L	S	L	N	S	N	A	L	E	S	I	N	F	P	Q	G	R	N	V	S	I	T
Query Conservation
Alig confidence
Template Conservation
Template Sequence		F	G	K	L	N	S	L	K	S	I	D	F	S	S	N	Q	I	F	L	V	C	E	H	E	L	E	P	L	Q	G	K	T	L	S	F	F	S	L	A	A	N	S	L	Y	S	R	V	S	V	D	W	G	K	C	M	N	P	F	R	N	M	V	L	E	I	L	D	V	S	G	N	G	W	T	V	D	I	T	G	N
Template Known Secondary structure		G	G	T		S	S								S	S							S	G	G	G							S	S								S	B	S										S	S	S		T	T	T	T			B	S			B		S	S			S	S					T	T
Template Predicted Secondary structure
Template SS confidence
		166	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.
		156	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.
Predicted Secondary structure																																													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence																																													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		H	I	S	M	N	N	N	A	L	R	N	I	D	I	D	R	L	S	S	V	T	Y	F	S	A	A	H	N	Q	L	E	F	V	Q	L	E	S	C	E	W	L	Q	Y	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Conservation																																													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Alig confidence																																													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation
Template Sequence		F	S	N	A	I	S	K	S	Q	A	F	S	L	I	L	A	H	H	I	M	G	A	G	F	G	F	H	N	I	K	D	P	D	Q	N	T	F	A	G	L	A	R	S	S	V	R	H	L	D	L	S	H	G	F	V	F	S	L	N	S	R	V	F	E	T	L	K	D	L	K	V	L	N	L	A	Y	N	K	I	N
Template Known Secondary structure		G	G	G	T	S		S			B	S						S				B		S	S	S		S	S	S	T	T	T	T	T	T	T					T	T	S								T	T					B	B		S			S	S	S											S
Template Predicted Secondary structure
Template SS confidence
		246	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.
Predicted Secondary structure		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Conservation		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation
Template Sequence		K	I	A	D	E	A	F	Y	G	L	D	N	L	Q	V	L	N	L	S	Y	N	L	L	G	E	L	Y	S	S	N	F	Y	G	L	P	K	V	A	Y	I	D	L	Q	K	N	H	I	A	I	I	Q	D	Q	T	F	K	F	L	E	K	L	Q	T	L	D	L	R	D	N	A	L	T	T	I	H	F	I	P	S	I
Template Known Secondary structure			B		T	T	T	T	T	T		S	S								S				S				S		S		S	S		T	T								S								S	S	S	S		S											T			S				S	S
Template Predicted Secondary structure
Template SS confidence
		326	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.
																																																													199	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.
Predicted Secondary structure		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	L	N	L	S	H	N	Q	L	T	D	I	V	A	G	N	K	N	E	L	L	L
Query Conservation		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Alig confidence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation
Template Sequence		P	D	I	F	L	S	G	N	K	L	V	T	L	P	K	I	N	L	T	A	N	L	I	H	L	S	E	N	R	L	E	N	L	D	I	L	Y	F	L	L	R	V	P	H	L	Q	I	L	I	L	N	Q	N	R	F	S	S	C	S	G	D	Q	T	P	S	E	N	P	S	L	E	Q	L	F	L	G	E	N	M	L
Template Known Secondary structure		S						S											T	T								S					S	S							T	T		T	T							S	S								S	S	S	S	S		S		T	T								S
Template Predicted Secondary structure
Template SS confidence
		406	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.
		220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250		.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.
Predicted Secondary structure																																	.
Query SS confidence																																	.
Query Sequence		L	D	L	S	H	N	K	L	T	S	L	H	N	D	L	F	P	N	L	N	T	L	L	I	N	N	N	L	L	S	E	.	I	K	I	F	Y	S	N	F	C	N	V	Q	T	L	N	A	A	N	N	Q	L	K	Y	I	N	L	D	F	L	T	Y	L	P	S	I	K	S	L	R	L	D	N	N	K	I	T	H	I
Query Conservation																																	.
Alig confidence																																	.																														.	.
Template Conservation																																																															.	.
Template Sequence		Q	L	A	W	E	T	E	L	C	W	D	V	F	E	G	L	S	H	L	Q	V	L	Y	L	N	H	N	Y	L	N	S	L	P	P	G	V	F	S	H	L	T	A	L	R	G	L	S	L	N	S	N	R	L	T	V	L	S	H	N	D	L	.	.	P	A	N	L	E	I	L	D	I	S	R	N	Q	L	L	A	P
Template Known Secondary structure		S	S	S			S				S	S		S	S		B														T	T			T	T	S	T	T	T			S								S				S	S							.	.		S
Template Predicted Secondary structure																																																															.	.
Template SS confidence
		486	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.			.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.
		299	300	.	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		D	T	N	N	T	S	D	I	G	T	L
Query Conservation
Alig confidence
Template Conservation
Template Sequence		N	P	D	V	F	V	S	L	S	V	L
Template Known Secondary structure			S				S	S
Template Predicted Secondary structure
Template SS confidence
		564	.	.	.	.	.	570	.	.	.	.