Job Description Q57261 Confidence 100.00% Date Thu Jan 5 12:37:16 GMT 2012 Rank 3 Aligned Residues 332 % Identity 26% Template c1z2zB_ PDB info PDB header:lyase Chain: B: PDB Molecule:probable trna pseudouridine synthase d; PDBTitle: crystal structure of the putative trna pseudouridine2 synthase d (trud) from methanosarcina mazei, northeast3 structural genomics target mar1 Resolution 2.60 Å

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		9	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		Y	L	H	G	K	P	Q	G	T	G	L	L	K	A	N	P	E	D	F	V	V	V	E	D	L	G	F	E	P	D	G	E	G	E	H	I	L	V	R	I	L	K	N	G	C	N	T	R	F	V	A	D	A	L	A	K	F	L	K	I	H	A	R	E	V	S	F	A	G	Q	K	D	K	H	A	V	T	E	Q	W
Query Conservation
Alig confidence
Template Conservation
Template Sequence		Y	S	T	D	T	T	G	L	G	G	Q	L	R	Q	E	I	E	D	F	I	V	K	E	I	T	N	R	E	E	G	E	E	G	K	Y	L	I	V	E	L	T	K	R	D	W	D	T	H	H	L	T	R	T	L	S	R	I	L	Q	V	S	Q	K	R	I	S	V	A	G	T	K	D	K	R	A	L	T	T	Q	K
Template Known Secondary structure			S			S						B	S		S	S	G	G	G								S				B	S		S	S										S															S	S		T	T	T				S					S	S	S
Template Predicted Secondary structure
Template SS confidence
		15	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.
		89	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.							.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.
Predicted Secondary structure																																																									.	.	.	.	.	.
Query SS confidence																																																									.	.	.	.	.	.
Query Sequence		L	C	A	R	V	P	G	K	E	M	P	D	L	S	A	F	Q	L	E	G	C	Q	V	L	E	Y	A	R	H	K	R	K	L	R	L	G	A	L	K	G	N	A	F	T	L	V	L	R	E	V	S	N	R	D	D	.	.	.	.	.	.	V	E	Q	R	L	I	D	I	C	V	K	G	V	P	N	Y	F	G	A
Query Conservation																																																									.	.	.	.	.	.
Alig confidence											.	.																																													.	.	.	.	.	.
Template Conservation											.	.
Template Sequence		I	S	I	F	D	T	D	A	S	.	.	E	I	E	K	I	H	L	K	D	I	E	L	K	V	L	G	R	S	R	K	S	V	E	L	G	D	L	W	G	N	D	F	R	I	T	V	R	N	I	E	N	S	P	E	E	T	E	A	L	L	K	K	T	T	D	E	I	L	A	Q	G	G	V	P	N	F	F	G	I
Template Known Secondary structure						S			T	T	.	.								T	T										S	S				T	T															S	S																				T	S							G
Template Predicted Secondary structure											.	.
Template SS confidence
		95	.	.	.	.	100	.	.	.			.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.
		163	.	.	.	.	.	.	170	.		.	.	.	.	.	.	.	.	180	.	.	.
Predicted Secondary structure											.													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence											.													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		Q	R	F	G	I	G	G	S	N	.	L	Q	G	A	Q	R	W	A	Q	T	N	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Conservation											.													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Alig confidence											.													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation
Template Sequence		Q	R	F	G	S	V	R	P	V	T	H	L	V	G	K	A	I	V	E	G	N	F	E	K	A	A	L	L	Y	I	A	E	P	F	P	E	E	P	E	E	T	K	N	A	R	Q	F	V	K	D	T	L	D	F	K	E	G	L	K	T	Y	P	L	R	L	G	H	E	R	A	X	X	N	H	L	I	A	N	P	E
Template Known Secondary structure		G	G	G		S	S														T											S				T	T	S																								S		G	G	G													S	T	T
Template Predicted Secondary structure
Template SS confidence
		173	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.
								184	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.		.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.							.	240	.	.	.	.	.	.	.	.	.	250
Predicted Secondary structure		.	.	.	.	.	.																																	.																								.	.	.	.	.	.
Query SS confidence		.	.	.	.	.	.																																	.																								.	.	.	.	.	.
Query Sequence		.	.	.	.	.	.	P	V	R	D	R	N	K	R	S	F	W	L	S	A	A	R	S	A	L	F	N	Q	I	V	A	E	R	L	K	K	A	D	.	V	N	Q	V	V	D	G	D	A	L	Q	L	A	G	R	G	S	W	F	V	A	T	T	.	.	.	.	.	.	E	E	L	A	E	L	Q	R	R	V	N	D
Query Conservation		.	.	.	.	.	.																																	.																								.	.	.	.	.	.
Alig confidence		.	.	.	.	.	.																																	.																								.	.	.	.	.	.
Template Conservation
Template Sequence		D	Y	S	G	S	F	R	V	L	P	Q	N	L	Y	R	X	F	V	H	G	Y	Q	S	Y	I	Y	N	I	I	L	C	R	R	I	E	A	G	I	P	L	N	R	A	V	E	G	D	I	V	C	F	R	N	E	V	G	L	P	D	S	S	K	T	E	K	V	T	S	E	T	V	N	A	X	N	R	L	L	K	L
Template Known Secondary structure							S	T	T	S		S	G	G	G	T																					S				T	T				S	S								T	T	S												T	T	T										T
Template Predicted Secondary structure
Template SS confidence
		253	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.
		251	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290						.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.						.	.	320
Predicted Secondary structure																																										.	.	.	.	.																												.	.	.	.	.
Query SS confidence																																										.	.	.	.	.																												.	.	.	.	.
Query Sequence		K	E	L	M	I	T	A	A	L	P	G	S	G	E	W	G	T	Q	R	E	A	L	A	F	E	Q	A	A	V	A	A	E	T	E	L	Q	A	L	L	V	.	.	.	.	.	R	E	K	V	E	A	A	R	R	A	M	L	L	Y	P	Q	Q	L	S	W	N	W	W	D	D	V	T	.	.	.	.	.	V	E	I
Query Conservation																																										.	.	.	.	.																												.	.	.	.	.
Alig confidence																																										.	.	.	.	.																												.	.	.	.	.
Template Conservation
Template Sequence		G	R	A	F	I	T	A	P	L	P	G	Y	N	T	E	F	A	S	G	I	P	G	E	I	E	N	G	V	L	K	E	L	G	V	S	L	E	G	F	N	I	E	K	F	P	E	X	S	S	K	G	T	R	R	E	V	L	L	E	V	K	P	K	F	E	A	G	E	D	E	L	N	P	G	K	S	K	A	V	L
Template Known Secondary structure		T	S										S	S																			T	T			G	G	G	G	S		S	S		G	G	G									S							B							S	S	S	T	T	S
Template Predicted Secondary structure
Template SS confidence
		333	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.
		321	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		R	F	W	L	P	A	G	S	F	A	T	S	V	V	R	E	L	I	N	T	T	G
Query Conservation
Alig confidence
Template Conservation
Template Sequence		E	F	X	L	P	K	G	S	Y	A	T	T	V	L	R	E	Y	X	K	V	N	P
Template Known Secondary structure							T	T			T										S		G
Template Predicted Secondary structure
Template SS confidence
		413	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.

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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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