Job Description P0AGD7 Confidence 100.00% Date Thu Jan 5 11:28:50 GMT 2012 Rank 6 Aligned Residues 401 % Identity 37% Template c2v3cC_ PDB info PDB header:signaling protein Chain: C: PDB Molecule:signal recognition 54 kda protein; PDBTitle: crystal structure of the srp54-srp19-7s.s srp rna complex2 of m. jannaschii Resolution 2.50 Å

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		2	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.
Predicted Secondary structure
Query SS confidence
Query Sequence		F	D	N	L	T	D	R	L	S	R	T	L	R	N	I	S	G	R	G	R	L	T	E	D	N	V	K	D	T	L	R	E	V	R	M	A	L	L	E	A	D	V	A	L	P	V	V	R	E	F	I	N	R	V	K	E	K	A	V	G	H	E	V	N	K	S	L	T	P	G	Q	E	F	V	K	I	V	R	N	E
Query Conservation
Alig confidence
Template Conservation
Template Sequence		M	D	K	L	G	E	N	L	N	K	A	L	N	K	L	K	A	A	A	F	V	D	K	K	L	I	K	E	V	I	K	D	I	Q	R	A	L	I	Q	A	D	V	N	V	K	L	V	L	K	M	S	K	E	I	E	R	R	A	L	E	E	K	T	P	K	G	L	S	K	K	E	H	I	I	K	I	V	Y	E	E
Template Known Secondary structure																		S	S	S				S	S	T	T														T											T								S	S	S		S	S		S	S
Template Predicted Secondary structure
Template SS confidence
		2	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.
		82	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.
Predicted Secondary structure
Query SS confidence
Query Sequence		L	V	A	A	M	G	E	E	N	Q	T	L	N	L	A	A	Q	P	P	A	V	V	L	M	A	G	L	Q	G	A	G	K	T	T	S	V	G	K	L	G	K	F	L	R	E	K	H	K	K	K	V	L	V	V	S	A	D	V	Y	R	P	A	A	I	K	Q	L	E	T	L	A	E	Q	V	G	V	D	F	F	P
Query Conservation
Alig confidence																																																.
Template Conservation																																																.
Template Sequence		L	V	K	L	L	G	E	E	A	K	K	L	E	L	N	P	K	K	Q	N	V	I	L	L	V	G	I	Q	G	S	G	K	T	T	T	A	A	K	L	A	R	Y	I	Q	K	R	.	G	L	K	P	A	L	I	A	A	D	T	Y	R	P	A	A	Y	E	Q	L	K	Q	L	A	E	K	I	H	V	P	I	Y	G
Template Known Secondary structure									S								S	S	S										S	S	S	S	T	T														.										S				T	T	G	G	G	S	S							S	S
Template Predicted Secondary structure																																																.
Template SS confidence
		82	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.		.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160
		162	.	.	.		.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Predicted Secondary structure						.
Query SS confidence						.
Query Sequence		S	D	V	G	.	Q	K	P	V	D	I	V	N	A	A	L	K	E	A	K	L	K	F	Y	D	V	L	L	V	D	T	A	G	R	L	H	V	D	E	A	M	M	D	E	I	K	Q	V	H	A	S	I	N	P	V	E	T	L	F	V	V	D	A	M	T	G	Q	D	A	A	N	T	A	K	A	F	N	E	A	L
Query Conservation						.
Alig confidence						.																.	.
Template Conservation																						.	.
Template Sequence		D	E	T	R	T	K	S	P	V	D	I	V	K	E	G	M	E	K	F	K	.	.	K	A	D	V	L	I	I	D	T	A	G	R	H	K	E	E	K	G	L	L	E	E	M	K	Q	I	K	E	I	T	N	P	D	E	I	I	L	V	I	D	G	T	I	G	Q	Q	A	G	I	Q	A	K	A	F	K	E	A	V
Template Known Secondary structure			S	S	S			S	S	S	T	T							T	T	S	.	.	S		S									S		S	S											T	T	S	S	S			S								G	G	G	G	G	G										T	T	S
Template Predicted Secondary structure																						.	.
Template SS confidence
		161	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180			.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.
			241	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.
Predicted Secondary structure		.
Query SS confidence		.
Query Sequence		.	P	L	T	G	V	V	L	T	K	V	D	G	D	A	R	G	G	A	A	L	S	I	R	H	I	T	G	K	P	I	K	F	L	G	V	G	E	K	T	E	A	L	E	P	F	H	P	D	R	I	A	S	R	I	L	G	M	G	D	V	L	S	L	I	E	D	I	E	S	K	V	D	R	A	Q	A	E	K	L
Query Conservation		.
Alig confidence		.
Template Conservation
Template Sequence		G	E	I	G	S	I	I	V	T	K	L	D	G	S	A	K	G	G	G	A	L	S	A	V	A	E	T	K	A	P	I	K	F	I	G	I	G	E	G	I	D	D	L	E	P	F	D	P	K	K	F	I	S	R	L	L	G	M	G	D	L	E	S	L	L	E	K	A	E	D	M	V	D	E	K	T	E	E	S	I
Template Known Secondary structure			S									S	S	S		S	T	T										S	S									S	S	S	S	S	S			B											T		S	S		S	S	T	T	S	S	T	T	T	S		S		S	S	S	S	T	T
Template Predicted Secondary structure
Template SS confidence
		239	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.
		320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	S	K	L	K	K	G	D	G	F	D	L	N	D	F	L	E	Q	L	R	Q	M	K	N	M	G	G	M	A	S	L	M	G	K	L	P	G	M	G	Q	I	P	D	N	V	K	S	Q	M	D	D	K	V	L	V	R	M	E	A	I	I	N	S	M	T	M	K	E	R	A	K	P	E	I	I	K	G	S	R	K
Query Conservation
Alig confidence		.								.																			.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation		.								.																			.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		.	D	A	I	M	R	G	K	.	F	T	L	N	E	L	M	T	Q	L	E	A	I	E	N	M	L	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	E	A	K	I	K	K	Y	K	V	I	I	S	S	M	T	K	E	E	R	E	N	P	K	I	I	K	A	S	R	I
Template Known Secondary structure		.						S		.										T	T	T	T	S					.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.												T	T	S						S	S		T	T
Template Predicted Secondary structure		.								.																			.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
			319	320	.	.	.	.	.		.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.																								.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.
		400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430
Predicted Secondary structure
Query SS confidence
Query Sequence		R	R	I	A	A	G	C	G	M	Q	V	Q	D	V	N	R	L	L	K	Q	F	D	D	M	Q	R	M	M	K	K	M
Query Conservation
Alig confidence
Template Conservation
Template Sequence		R	R	I	A	R	G	S	G	T	T	E	N	D	V	R	E	V	L	R	Y	Y	E	T	T	K	N	A	I	D	K	L
Template Known Secondary structure								T	T	S
Template Predicted Secondary structure
Template SS confidence
		397	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.