Job Description P0A8T7 Confidence 100.00% Date Wed Jan 25 15:20:19 GMT 2012 Rank 10 Aligned Residues 295 % Identity 26% Template c3qqcA_ PDB info PDB header:transcription Chain: A: PDB Molecule:dna-directed rna polymerase subunit b, dna-directed rna PDBTitle: crystal structure of archaeal spt4/5 bound to the rnap clamp domain Resolution 3.30 Å

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		9	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		K	A	Q	T	K	T	E	E	F	D	A	I	K	I	A	L	A	S	P	D	M	I	R	S	W	S	F	G	E	V	K	K	P	E	T	I	N	Y	R	T	F	K	P	E	R	D	G	L	F	C	A	R	I	F	G	P	V	K	D	Y	E	C	L	C	G	K	Y	K	R	L	K	H	R	G	V	I	C	E	K	C
Query Conservation
Alig confidence																																							.	.	.	.	.												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation																																							.	.	.	.	.												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		K	L	N	L	S	E	K	V	I	G	S	I	E	F	G	I	L	S	P	Q	E	I	R	K	M	S	A	V	E	V	T	V	P	D	T	Y	D	.	.	.	.	.	P	I	E	G	G	V	M	D	K	R	M	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	G	V	I	D	P	G	L	R	C	E	T	C
Template Known Secondary structure																	B									T							B						.	.	.	.	.				S	B	S	S		S	S	S	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.				S	S					S	S	S
Template Predicted Secondary structure																																							.	.	.	.	.												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
		59	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.						.	.	.	.	100	.	.	.	.	.	.																.	.	.	110	.	.	.	.	.	.	.	.
		89	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		G	V	E	V	T	Q	T	K	V	R	R	E	R	M	G	H	I	E	L	A	S	P	T	A	H	I	W	F	L	K	S	L	P	S	R	I	G	L	L	L	D	M	P	L	R	D	I	E	R	V	L	Y	F	E	S	Y	V	V	I	E	G	G	M	T	N	L	E	R	Q	Q	I	L	T	E	E	Q	Y	L	D	A
Query Conservation
Alig confidence										.	.	.																																		.	.	.	.
Template Conservation										.	.	.																																		.	.	.	.
Template Sequence		G	G	R	A	G	E	C	P	.	.	.	G	H	F	G	H	I	E	L	A	R	P	V	I	H	V	G	F	A	K	T	I	Y	R	I	L	E	S	T	C	R	E	C	G	.	.	.	.	R	I	K	L	T	D	E	E	I	E	E	Y	M	K	K	I	E	L	A	R	N	R	R	S	E	F	N	E	I	I	K	E
Template Known Secondary structure					S	S	S			.	.	.															G	G	G											S		S	T	T		.	.	.	.			S	S															T	S	S
Template Predicted Secondary structure										.	.	.																																		.	.	.	.
Template SS confidence
		125	.	.	.	.	130	.	.				.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.					.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.
		169	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		L	E	E	F	G	D	E	F	D	A	K	M	G	A	E	A	I	Q	A	L	L	K	S	M	D	L	E	Q	E	C	E	Q	L	R	E	E	L	N	E	T	N	S	E	T	K	R	K	K	L	T	K	R	I	K	L	L	E	A	F	V	Q	S	G	N	K	P	E	W	M	I	L	T	V	L	P	V	L	P	P	D
Query Conservation
Alig confidence																										.	.
Template Conservation																										.	.
Template Sequence		I	H	K	K	A	K	E	R	M	V	C	P	P	I	K	F	E	K	P	T	I	Y	W	E	.	.	I	R	K	D	N	E	Y	R	H	R	L	M	P	T	E	V	R	D	W	L	E	K	I	P	D	K	D	L	P	L	L	G	L	D	P	E	K	S	R	P	E	W	M	V	L	T	V	L	P	V	P	P	V	T
Template Known Secondary structure								T			S						B		S	S	S					.	.																							S		T	T	T	G	G	G	S	S			T	T	T			G	G	G	G										G	G
Template Predicted Secondary structure																										.	.
Template SS confidence
		198	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.			.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.
		249	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.		.	.	.	.	.	.	320	.	.	.	.	.	.	.
Predicted Secondary structure																																																																			.
Query SS confidence																																																																			.
Query Sequence		L	R	P	L	V	P	L	D	G	G	R	F	A	T	S	D	L	N	D	L	Y	R	R	V	I	N	R	N	N	R	L	K	R	L	L	D	L	A	A	P	D	I	I	V	R	N	E	K	R	M	L	Q	E	A	V	D	A	L	L	D	N	G	R	R	G	.	R	A	I	T	G	S	N	K	R	P	L	K	S	L
Query Conservation																																																																			.
Alig confidence											.	.	.																																																						.
Template Conservation											.	.	.
Template Sequence		A	R	P	S	I	T	L	I	R	.	.	.	A	E	D	D	L	T	H	K	L	V	D	I	I	R	I	N	N	R	L	K	Q	N	I	E	A	G	A	P	Q	L	I	I	E	D	L	W	D	L	L	Q	Y	H	V	T	T	Y	I	N	N	E	A	P	G	V	P	P	A	K	H	K	S	G	R	P	L	K	T	L
Template Known Secondary structure		G	S			B					.	.	.	B																								S				S																				T	T		T	T					B		T	T	S		B
Template Predicted Secondary structure											.	.	.
Template SS confidence
		286	.	.	.	290	.	.	.	.				.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.
		328	.	330	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	D	M	I	K	G	K	Q
Query Conservation
Alig confidence
Template Conservation
Template Sequence		A	Q	R	L	K	G	F	E
Template Known Secondary structure
Template Predicted Secondary structure
Template SS confidence
		366	.	.	.	370	.	.	.

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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]
© Structural Bioinformatics Group, Imperial College, London Lawrence Kelley, Benjamin Jefferys   Disclaimer Terms and Conditions