Job Description P0AGB3 Confidence 100.00% Date Thu Jan 5 11:28:39 GMT 2012 Rank 3 Aligned Residues 261 % Identity 25% Template c3iydF_ PDB info PDB header:transcription/dna Chain: F: PDB Molecule:rna polymerase sigma factor rpod; PDBTitle: three-dimensional em structure of an intact activator-dependent2 transcription initiation complex Resolution 19.80 Å

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		16	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.				.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.
Predicted Secondary structure																																	.	.	.
Query SS confidence																																	.	.	.
Query Sequence		L	D	S	Y	I	R	A	A	N	A	W	P	M	L	S	A	D	E	E	R	A	L	A	E	K	L	H	Y	H	G	D	.	.	.	L	E	A	A	K	T	L	I	L	S	H	L	R	F	V	V	H	I	A	R	N	Y	A	G	Y	G	L	P	Q	A	D	L	I	Q	E	G	N	I	G	L	M	K	A	V	R	R
Query Conservation																																	.	.	.
Alig confidence																														.			.	.	.
Template Conservation																														.
Template Sequence		A	L	Q	K	L	Q	Q	I	E	E	E	T	G	L	T	I	E	Q	V	K	D	I	N	R	R	M	S	I	.	G	E	A	K	A	R	R	A	K	K	E	M	V	E	A	N	L	R	L	V	I	S	I	A	K	K	Y	T	N	R	G	L	Q	F	L	D	L	I	Q	E	G	N	I	G	L	M	K	A	V	D	K
Template Known Secondary structure														T	S		T	T	T							T				.										T	T	T	T	T	T	T	T						G	G	G	S	S	S	T	T	S	S		S	T	T	T	T											T	T	S
Template Predicted Secondary structure																														.
Template SS confidence
		340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.		.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.
		93	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		F	N	P	E	V	G	V	R	L	V	S	F	A	V	H	W	I	K	A	E	I	H	E	Y	V	L	R	N	W	R	I	V	K	V	A	T	T	K	A	Q	R	K	L	F	F	N	L	R	K	T	K	Q	R	L	G	W	F	N	Q	D	E	V	E	M	V	A	R	E	L	G	V	T	S	K	D	V	R	E	M	E
Query Conservation
Alig confidence
Template Conservation
Template Sequence		F	E	Y	R	R	G	Y	K	F	S	T	Y	A	T	W	W	I	R	Q	A	I	T	R	S	I	A	D	Q	A	R	T	I	R	I	P	V	H	M	I	E	T	I	N	K	L	N	R	I	S	R	Q	M	L	Q	E	M	G	R	E	P	T	P	E	E	L	A	E	R	M	L	M	P	E	D	K	I	R	K	V	L
Template Known Secondary structure				T	T	S	S	S		S	T	T	T													T	T	T	S		S	S	S				S					T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T		S				T	T	T	T	T	T	T	S	S			S	S
Template Predicted Secondary structure
Template SS confidence
		419	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.
		173	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.		.	.	250	.
Predicted Secondary structure																																																																													.
Query SS confidence																																																																													.
Query Sequence		S	R	M	A	A	Q	D	M	T	F	D	L	S	S	D	D	D	S	D	S	Q	P	M	A	P	V	L	Y	L	Q	D	K	S	S	N	F	A	D	G	I	E	D	D	N	W	E	E	Q	A	A	N	R	L	T	D	A	M	Q	G	L	D	E	R	S	Q	D	I	I	R	A	R	W	L	D	E	.	D	N	K	S
Query Conservation																																																																													.
Alig confidence		.																				.	.	.														.	.	.																																					.
Template Conservation		.																				.	.	.														.	.	.
Template Sequence		.	K	I	A	K	E	P	I	S	M	E	T	P	I	G	D	D	E	D	S	.	.	.	H	L	G	D	F	I	E	D	T	T	L	E	L	.	.	.	P	L	D	S	A	T	T	E	S	L	R	A	A	T	H	D	V	L	A	G	L	T	A	R	E	A	K	V	L	R	M	R	F	G	I	D	M	N	T	D	H
Template Known Secondary structure		.			S						S	S				S	S	S	S	S		.	.	.		G	G	G	S				S	S	S			.	.	.									T	T	S	S	S					T	T	S	S													T	S	S	S
Template Predicted Secondary structure		.																				.	.	.														.	.	.
Template SS confidence
			499	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.				.	.	520	.	.	.	.	.	.	.	.	.	530				.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.
		252	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		T	L	Q	E	L	A	D	R	Y	G	V	S	A	E	R	V	R	Q	L	E	K	N	A	M	K	K	L	R	A	A	I	E	A
Query Conservation
Alig confidence
Template Conservation
Template Sequence		T	L	E	E	V	G	K	Q	F	D	V	T	R	E	R	I	R	Q	I	E	A	K	A	L	R	K	L	R	H	P	S	R	S
Template Known Secondary structure		S	T	T	G	G	G	T	T	T	S	S		S	S											T	T	T	T	S		S	S	S
Template Predicted Secondary structure
Template SS confidence
		572	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600	.	.	.	.

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Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
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