Job Description P46837 Confidence 100.00% Date Thu Jan 5 12:04:18 GMT 2012 Rank 2 Aligned Residues 698 % Identity 19% Template c3psiA_ PDB info PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor spt6; PDBTitle: crystal structure of the spt6 core domain from saccharomyces2 cerevisiae, form spt6(239-1451) Resolution 3.30 Å

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		18	.	20	.	.	.	.	.	.	.	.		.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.								.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.
Predicted Secondary structure													.																				.	.	.	.	.	.	.
Query SS confidence													.																				.	.	.	.	.	.	.
Query Sequence		P	E	Q	V	D	A	A	V	R	L	L	.	D	E	G	N	T	V	P	F	I	A	R	Y	R	K	E	I	T	G	G	.	.	.	.	.	.	.	L	D	D	T	Q	L	R	N	L	E	T	R	L	S	Y	L	R	E	L	E	E	R	R	Q	A	I	L	K	S	I	S	E	Q	G	K	L	T	D	D	L	A	K
Query Conservation													.																				.	.	.	.	.	.	.
Alig confidence													.																				.	.	.	.	.	.	.
Template Conservation
Template Sequence		K	E	A	I	G	N	A	I	K	F	I	T	K	E	N	L	E	V	P	F	I	Y	A	Y	R	R	N	Y	I	S	S	R	E	K	D	G	F	L	L	T	E	D	D	L	W	D	I	V	S	L	D	I	E	F	H	S	L	V	N	K	K	D	Y	V	Q	R	F	Y	A	E	L	H	I	D	D	P	I	V	T	E
Template Known Secondary structure														T	S												G	G	G	S	B		S	S	S	S	S		B																																T	T
Template Predicted Secondary structure
Template SS confidence
		371	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450
		90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.												.	.	.	.	.	.
Predicted Secondary structure																																																																	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence																																																																	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		A	I	N	A	T	L	S	K	T	E	L	E	D	L	Y	L	P	Y	K	P	K	R	R	T	R	G	Q	I	A	I	E	A	G	L	E	P	L	A	D	L	L	W	S	D	P	S	H	T	P	E	V	A	A	A	Q	Y	V	Y	A	D	K	G	V	.	.	.	.	.	.	.	.	.	.	.	A	D	T	K	A	A
Query Conservation																																																																	.	.	.	.	.	.	.	.	.	.	.
Alig confidence															.																																																		.	.	.	.	.	.	.	.	.	.	.
Template Conservation															.
Template Sequence		Y	F	K	N	Q	N	S	L	Q	D	I	Y	D	.	Y	L	E	F	K	Y	A	N	E	I	N	E	M	F	I	N	H	T	P	L	Y	Q	A	V	S	D	I	G	I	S	A	E	D	V	G	E	N	I	S	S	Q	H	Q	I	H	P	P	V	D	H	P	S	S	K	P	V	E	V	I	E	S	I	T	K	L	A
Template Known Secondary structure															.						T														T	T					T	T	S	S										T	T	S	S		S	S						S	S	S
Template Predicted Secondary structure															.
Template SS confidence
		451	.	.	.	.	.	.	.	.	460	.	.	.		.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.
		159	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.					.	.	.	.	.	.	.			.	220	.	.	.	.	.	.	.	.	.	230	.	.
Predicted Secondary structure																																																							.	.	.	.								.	.
Query SS confidence																																																							.	.	.	.								.	.
Query Sequence		L	D	G	A	R	Y	I	L	M	E	R	F	A	E	D	A	A	L	L	A	K	V	R	D	Y	L	W	K	N	A	H	L	V	S	T	V	V	S	G	K	E	E	E	G	A	K	F	R	D	Y	F	D	H	.	.	.	.	H	E	P	L	S	T	V	.	.	P	S	H	R	A	L	A	M	F	R	G	R	N	E
Query Conservation																																																							.	.	.	.								.	.
Alig confidence																																																							.	.	.	.								.	.
Template Conservation
Template Sequence		I	D	T	V	Q	K	Y	Y	S	L	E	L	S	K	N	T	K	I	R	E	K	V	R	S	D	F	S	K	Y	Y	L	A	D	V	V	L	T	A	K	G	K	K	E	I	Q	K	G	S	L	Y	E	D	I	K	Y	A	I	N	R	T	P	M	H	F	R	R	D	P	D	V	F	L	K	M	V	E	A	E	S	L
Template Known Secondary structure															T												T	T	T	S									T	T	T	T	T	T	T	T	T	T	S	T	T	T	T	T	T	T			S										T
Template Predicted Secondary structure
Template SS confidence
		571	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.	.	.	.	.	.	640	.	.	.	.	.	.	.	.	.	650
		233	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		G	V	L	Q	L	S	L	N	A	D	P	Q	F	D	E	P	P	K	E	S	Y	C	E	Q	I	I	M	D	H	L	G	L	R	L	N	N	A	P	A	D	S	W	R	K	G	V	V	S	W	T	W	R	I	K	V	L	M	H	L	E	T	E	L	M	G	T	V	R	E	R	A	E	D	E	A	I	N	V	F	A
Query Conservation
Alig confidence			.	.	.												.	.	.																																						.
Template Conservation			.	.	.												.	.	.																																						.
Template Sequence		S	.	.	.	V	K	L	H	M	S	S	Q	A	Q	Y	.	.	.	I	E	H	L	F	Q	I	A	L	E	T	T	N	T	S	D	I	A	I	E	W	N	N	F	R	K	L	A	F	N	Q	A	M	D	K	I	F	.	Q	D	I	S	Q	E	V	K	D	N	L	T	K	N	C	Q	K	L	V	A	K	T	V	R
Template Known Secondary structure			.	.	.						T	T					.	.	.								S	S						S																							.
Template Predicted Secondary structure			.	.	.												.	.	.																																						.
Template SS confidence
		654				.	.	.	.	.	660	.	.	.	.	.				.	.	.	.	670	.	.	.	.	.	.	.	.	.	680	.	.	.	.	.	.	.	.	.	690	.	.	.	.	.	.	.	.	.	700	.	.		.	.	.	.	.	.	.	710	.	.	.	.	.	.	.	.	.	720	.	.	.	.	.	.
		313	.	.	.	.	.	.	320	.	.	.	.	.	.	.								.	.	330	.	.	.	.	.					.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.				.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.
Predicted Secondary structure																	.	.	.	.	.	.	.									.	.	.	.																												.	.	.
Query SS confidence																	.	.	.	.	.	.	.									.	.	.	.																												.	.	.
Query Sequence		R	N	L	H	D	L	L	M	A	A	P	A	G	L	R	.	.	.	.	.	.	.	A	T	M	G	L	D	P	G	.	.	.	.	L	R	T	G	V	K	V	A	V	V	D	A	T	G	K	L	V	A	T	D	T	I	Y	P	H	T	G	.	.	.	Q	A	A	K	A	A	M	T	V	A	A	L	C	E	K	H
Query Conservation																	.	.	.	.	.	.	.									.	.	.	.																												.	.	.
Alig confidence																	.	.	.	.	.	.	.									.	.	.	.																												.	.	.
Template Conservation
Template Sequence		H	K	F	M	T	K	L	D	Q	A	P	F	I	P	N	V	R	D	P	K	I	P	K	I	L	S	L	T	C	G	Q	G	R	F	G	A	D	A	I	I	A	V	Y	V	N	R	K	G	D	F	I	R	D	Y	K	I	V	D	N	P	F	D	K	T	N	P	E	K	F	E	D	T	L	D	N	I	I	Q	S	C
Template Known Secondary structure										B					S	S	S	S	S												T	T			T	T	T	T									T	T	S										S		T	T		S	S		S
Template Predicted Secondary structure
Template SS confidence
		727	.	.	730	.	.	.	.	.	.	.	.	.	740	.	.	.	.	.	.	.	.	.	750	.	.	.	.	.	.	.	.	.	760	.	.	.	.	.	.	.	.	.	770	.	.	.	.	.	.	.	.	.	780	.	.	.	.	.	.	.	.	.	790	.	.	.	.	.	.	.	.	.	800	.	.	.	.	.	.
		379	380	.	.	.	.	.		.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.						.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.
Predicted Secondary structure									.																								.	.	.	.	.
Query SS confidence									.																								.	.	.	.	.
Query Sequence		N	V	E	L	V	A	I	.	G	N	G	T	A	S	R	E	T	E	R	F	Y	L	D	V	Q	K	Q	F	P	K	V	.	.	.	.	.	T	A	Q	K	V	I	V	S	E	A	G	A	S	V	Y	S	A	S	E	L	A	A	Q	E	F	P	D	L	D	V	S	L	R	G	A	V	S	I	A	R	R	L	Q	D
Query Conservation									.																								.	.	.	.	.
Alig confidence									.																								.	.	.	.	.
Template Conservation
Template Sequence		Q	P	N	A	I	G	I	N	G	P	N	P	K	T	Q	K	F	Y	K	R	L	Q	E	V	L	H	K	K	Q	I	V	D	S	R	G	H	T	I	P	I	I	Y	V	E	D	E	V	A	I	R	Y	Q	N	S	E	R	A	A	Q	E	F	P	N	K	P	P	L	V	K	Y	C	I	A	L	A	R	Y	M	H	S
Template Known Secondary structure				S							S	S	T																T	T		B		S	S	S		B									T	T						T	S								T	T
Template Predicted Secondary structure
Template SS confidence
		807	.	.	810	.	.	.	.	.	.	.	.	.	820	.	.	.	.	.	.	.	.	.	830	.	.	.	.	.	.	.	.	.	840	.	.	.	.	.	.	.	.	.	850	.	.	.	.	.	.	.	.	.	860	.	.	.	.	.	.	.	.	.	870	.	.	.	.	.	.	.	.	.	880	.	.	.	.	.	.
		453	.	.	.	.	.	.	460				.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.						.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.
Predicted Secondary structure										.	.	.																																										.	.	.	.	.
Query SS confidence										.	.	.																																										.	.	.	.	.
Query Sequence		P	L	A	E	L	V	K	I	.	.	.	D	P	K	S	I	G	V	G	Q	Y	Q	H	D	V	S	Q	T	Q	L	A	R	K	L	D	A	V	V	E	D	C	V	N	A	V	G	V	D	L	N	T	A	.	.	.	.	.	S	V	P	L	L	T	R	V	A	G	L	T	R	M	M	A	Q	N	I	V	A	W	R
Query Conservation										.	.	.																																										.	.	.	.	.
Alig confidence										.	.	.																																										.	.	.	.	.
Template Conservation
Template Sequence		P	L	L	E	Y	A	N	L	T	S	E	E	V	R	S	L	S	I	H	P	H	Q	N	L	L	S	S	E	Q	L	S	W	A	L	E	T	A	F	V	D	I	V	N	L	V	S	V	E	V	N	K	A	T	D	N	N	Y	Y	A	S	A	L	K	Y	I	S	G	F	G	K	R	K	A	I	D	F	L	Q	S	L
Template Known Secondary structure									S							T	S				T	T	G	G	G	S																												T	T						T	T	G	G	G	S	T	T
Template Predicted Secondary structure
Template SS confidence
		887	.	.	890	.	.	.	.	.	.	.	.	.	900	.	.	.	.	.	.	.	.	.	910	.	.	.	.	.	.	.	.	.	920	.	.	.	.	.	.	.	.	.	930	.	.	.	.	.	.	.	.	.	940	.	.	.	.	.	.	.	.	.	950	.	.	.	.	.	.	.	.	.	960	.	.	.	.	.	.
		525	.		.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.		.	.	.	.	.	.	.	590	.
Predicted Secondary structure				.																																																									.										.	.	.	.	.	.	.	.	.	.	.
Query SS confidence				.																																																									.										.	.	.	.	.	.	.	.	.	.	.
Query Sequence		D	E	.	N	G	Q	F	Q	N	R	Q	Q	L	L	K	V	S	R	L	G	P	K	A	F	E	Q	C	A	G	F	L	R	I	N	H	G	D	N	P	L	D	A	S	T	V	H	P	E	A	Y	P	V	V	E	R	I	L	A	A	.	T	Q	Q	A	L	K	D	L	M	.	.	.	.	.	.	.	.	.	.	.
Query Conservation				.																																																									.										.	.	.	.	.	.	.	.	.	.	.
Alig confidence				.																															.	.																									.										.	.	.	.	.	.	.	.	.	.	.
Template Conservation																																			.	.
Template Sequence		Q	R	L	N	E	P	L	L	A	R	Q	Q	L	I	T	H	N	I	L	H	K	T	I	F	M	N	S	A	G	F	L	Y	I	.	.	S	W	D	Q	L	D	S	T	R	I	H	P	E	D	Y	H	L	A	T	K	V	A	A	D	A	L	E	Y	D	P	D	T	I	A	E	K	E	E	Q	G	T	M	S	E	F
Template Known Secondary structure						S					T	T					T	T		S									G	G	G				.	.				G	G	G	G	S	S			G	G	G												T	T													T		T	T
Template Predicted Secondary structure																																			.	.
Template SS confidence
		967	.	.	970	.	.	.	.	.	.	.	.	.	980	.	.	.	.	.	.	.	.	.	990	.	.	.	.	.	.	.	.	.			1000	.	.	.	.	.	.	.	.	.	1010	.	.	.	.	.	.	.	.	.	1020	.	.	.	.	.	.	.	.	.	1030	.	.	.	.	.	.	.	.	.	1040	.	.	.	.
										592	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.							.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.	.	.	.	.	.	640	.	.	.	.	.						.	.	.	.	650	.	.
Predicted Secondary structure		.	.	.	.	.	.	.	.																		.	.	.	.	.	.																																						.	.	.	.	.
Query SS confidence		.	.	.	.	.	.	.	.																		.	.	.	.	.	.																																						.	.	.	.	.
Query Sequence		.	.	.	.	.	.	.	.	G	N	S	S	E	L	R	N	L	K	A	S	D	F	T	D	E	.	.	.	.	.	.	K	F	G	V	P	T	V	T	D	I	I	K	E	L	E	K	P	G	R	D	P	R	P	E	F	K	T	A	Q	F	A	D	G	V	E	T	M	.	.	.	.	.	N	D	L	Q	P	G	M
Query Conservation		.	.	.	.	.	.	.	.																		.	.	.	.	.	.																																						.	.	.	.	.
Alig confidence		.	.	.	.	.	.	.	.																		.	.	.	.	.	.																																						.	.	.	.	.
Template Conservation
Template Sequence		I	E	L	L	R	E	D	P	D	R	R	A	K	L	E	S	L	N	L	E	S	Y	A	E	E	L	E	K	N	T	G	L	R	K	L	N	N	L	N	T	I	V	L	E	L	L	D	G	F	E	E	L	R	N	D	F	H	P	L	Q	G	D	E	I	F	Q	S	L	T	G	E	S	E	K	T	F	F	K	G	S
Template Known Secondary structure									T	T						T	T	S														S																S	S	S				S	B					B										T				T	T	T	S		T	T
Template Predicted Secondary structure
Template SS confidence
		1057	.	.	1060	.	.	.	.	.	.	.	.	.	1070	.	.	.	.	.	.	.	.	.	1080	.	.	.	.	.	.	.	.	.	1090	.	.	.	.	.	.	.	.	.	1100	.	.	.	.	.	.	.	.	.	1110	.	.	.	.	.	.	.	.	.	1120	.	.	.	.	.	.	.	.	.	1130	.	.	.	.	.	.
		653	.	.	.	.	.	.	660	.	.	.	.	.	.	.	.	.	670	.	.	.	.	.	.	.	.	.	680	.	.	.	.	.	.	.	.	.	690	.		.	.	.	.	.	.	.	.	700	.	.	.	.	.	.	.	.	.	710	.	.	.	.	.	.	.	.	.	720	.	.	.	.	.
Predicted Secondary structure																																									.
Query SS confidence																																									.
Query Sequence		I	L	E	G	A	V	T	N	V	T	N	F	G	A	F	V	D	I	G	V	H	Q	D	G	L	V	H	I	S	S	L	S	N	K	F	V	E	D	P	.	H	T	V	V	K	A	G	D	I	V	K	V	K	V	L	E	V	D	L	Q	R	K	R	I	A	L	T	M	R	L	D	E	Q	P
Query Conservation																																									.
Alig confidence																																									.
Template Conservation
Template Sequence		I	I	P	V	R	V	E	R	F	W	H	N	D	I	I	C	T	T	N	S	E	V	E	C	V	V	N	A	Q	R	H	A	G	A	Q	L	R	R	P	A	N	E	I	Y	E	I	G	K	T	Y	P	A	K	V	I	Y	I	D	Y	A	N	I	T	A	E	V	S	L	L	D	H	D	V	K
Template Known Secondary structure												S	S							T	T	S							T	T	S	S	S	S	T	T	S		S		S	T	T	T	S		T	T												G	G	G	T
Template Predicted Secondary structure
Template SS confidence
		1137	.	.	1140	.	.	.	.	.	.	.	.	.	1150	.	.	.	.	.	.	.	.	.	1160	.	.	.	.	.	.	.	.	.	1170	.	.	.	.	.	.	.	.	.	1180	.	.	.	.	.	.	.	.	.	1190	.	.	.	.	.	.	.	.	.	1200	.	.	.	.	.	.	.	.	.	1210