Job Description A0AVF1 Confidence 43.43% Date Sat Jun 16 10:27:57 BST 2012 Rank 149 Aligned Residues 462 % Identity 11% Template c4adyA_ PDB info PDB header:protein binding Chain: A: PDB Molecule:26s proteasome regulatory subunit rpn2; PDBTitle: crystal structure of 26s proteasome subunit rpn2 Resolution 2.70 Å

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		40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		T	G	A	I	T	L	L	E	F	K	R	H	V	G	E	E	E	E	D	T	N	L	W	I	G	Y	C	A	F	H	L	G	D	Y	K	R	A	L	E	E	Y	E	N	A	T	K	E	E	N	C	N	S	E	V	W	V	N	L	A	C	T	Y	F	F	L	G	M	Y	K	Q	A	E	A	A	G	F	K	A	S	K
Query Conservation
Alig confidence																				.	.																										.	.
Template Conservation																				.	.																										.	.
Template Sequence		S	S	I	L	R	K	S	F	D	F	L	X	N	X	P	N	C	D	.	.	Y	L	T	L	N	K	V	V	V	N	L	N	D	A	G	L	A	L	Q	L	F	K	K	L	K	.	.	E	E	N	D	E	G	L	S	A	Q	I	A	F	D	L	V	S	S	A	S	Q	Q	L	L	E	I	L	V	T	E	L	T	A
Template Known Secondary structure															S	S	S			.	.												T														.	.	T	T																	S
Template Predicted Secondary structure																				.	.																										.	.
Template SS confidence
		204	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.			.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.			.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.
		120	.	.	.	.	.														.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.						.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.
Predicted Secondary structure								.	.	.	.	.	.	.	.	.	.	.	.	.																																									.	.	.	.	.
Query SS confidence								.	.	.	.	.	.	.	.	.	.	.	.	.																																									.	.	.	.	.
Query Sequence		S	R	L	Q	N	R	.	.	.	.	.	.	.	.	.	.	.	.	.	L	L	F	H	L	A	H	K	F	N	D	E	K	K	L	M	S	F	H	Q	N	L	Q	D	V	T	E	D	Q	L	S	L	A	S	I	H	Y	M	R	S	.	.	.	.	.	H	Y	Q	E	A	I	D	I	Y	K	R	I	L	L	D	N
Query Conservation								.	.	.	.	.	.	.	.	.	.	.	.	.																																									.	.	.	.	.
Alig confidence								.	.	.	.	.	.	.	.	.	.	.	.	.																																									.	.	.	.	.
Template Conservation
Template Sequence		Q	G	Y	D	P	A	L	L	N	I	L	S	G	L	P	T	C	D	Y	Y	N	T	F	L	L	N	N	K	N	I	D	I	G	L	L	N	K	S	K	S	S	L	D	G	K	F	S	L	F	H	T	A	V	S	V	A	N	G	F	X	H	A	G	T	T	D	N	S	F	I	K	A	N	L	P	W	L	G	K	A
Template Known Secondary structure		T	T									T	T	S																													S		T	T	S															T	T	T	T
Template Predicted Secondary structure
Template SS confidence
		280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.
		182	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.				.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.						.	.	.	.	.	.	.	250	.	.	.
Predicted Secondary structure																																							.	.	.																									.	.	.	.	.
Query SS confidence																																							.	.	.																									.	.	.	.	.
Query Sequence		R	E	Y	L	A	L	N	V	Y	V	A	L	C	Y	Y	K	L	D	Y	Y	D	V	S	Q	E	V	L	A	V	Y	L	Q	Q	I	P	D	S	.	.	.	T	I	A	L	N	L	K	A	C	N	H	F	R	L	Y	N	G	R	A	A	E	A	E	L	.	.	.	.	.	K	S	L	M	D	N	A	S	S	S	F
Query Conservation																																							.	.	.																									.	.	.	.	.
Alig confidence																																							.	.	.																									.	.	.	.	.
Template Conservation
Template Sequence		Q	N	W	A	K	F	T	A	T	A	S	L	G	V	I	H	K	G	N	L	L	E	G	K	K	V	X	A	P	Y	L	P	G	S	R	A	S	S	R	F	I	K	G	G	S	L	Y	G	L	G	L	I	Y	A	G	F	G	R	D	T	T	D	Y	L	K	N	I	I	V	E	N	S	G	T	S	G	D	E	D	V
Template Known Secondary structure			T														T	S	S		T	T	T						T	T	T	S	T	T	S			S																T	T	T	T	T															S	S			S
Template Predicted Secondary structure
Template SS confidence
		360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.
		254	.	.	.	.	.	260	.	.	.	.	.	.	.							.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.
Predicted Secondary structure																.	.	.	.	.	.
Query SS confidence																.	.	.	.	.	.
Query Sequence		E	F	A	K	E	L	I	R	H	N	L	V	V	F	.	.	.	.	.	.	R	G	G	E	G	A	L	Q	V	L	P	P	L	V	D	V	I	P	E	A	R	L	N	L	V	I	Y	Y	L	R	Q	D	D	V	Q	E	A	Y	N	L	I	K	D	L	E	P	T	T	P	Q	E	Y	I	L	K	G	V	V	N	A
Query Conservation																.	.	.	.	.	.
Alig confidence																.	.	.	.	.	.																																					.	.
Template Conservation																																																										.	.
Template Sequence		D	V	L	L	H	G	A	S	L	G	I	G	L	A	A	X	G	S	A	N	I	E	V	Y	E	A	L	K	E	V	L	Y	N	D	S	A	T	S	G	E	A	A	A	L	G	X	G	L	C	X	L	G	T	G	K	P	.	.	E	A	I	H	D	X	F	T	Y	S	Q	E	T	Q	H	G	N	I	T	R	G	L
Template Known Secondary structure																S	T	T																T																		T	T					.	.														S
Template Predicted Secondary structure																																																										.	.
Template SS confidence
		440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.			.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.
		328	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	L	G	Q	E	M	G	S	R	D	H	M	K	I	A	Q	Q	F	F	Q	L	V	G	G	S	A	S	E	C	D	T	I	P	G	R	Q	C	M	A	S	C	F	F	L	L	K	Q	F	D	D	V	L	I	Y	L	N	S	F	K	S	Y	F	Y	N	D	D	I	F	N	F	N	Y	A	Q	A	K	A	A	T	G
Query Conservation
Alig confidence
Template Conservation
Template Sequence		A	V	G	L	A	L	I	N	Y	G	R	Q	E	L	A	D	D	L	I	T	K	X	L	A	S	D	E	S	L	L	R	Y	G	G	A	F	T	I	A	L	A	Y	A	G	T	G	N	N	S	A	V	K	R	L	L	H	V	A	V	S	D	S	N	D	D	V	R	R	A	A	V	I	A	L	G	F	V	L	L	R
Template Known Secondary structure									T	T	T		G	G	G	G											S																T	T	T	S																	S																T	S	S
Template Predicted Secondary structure
Template SS confidence
		518	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.
		408	.	410	.	.	.	.	.	.	.	.	.	420	.	.		.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.				.	.	.	.	.	.	.	470	.	.	.	.	.	.						.	.
Predicted Secondary structure																	.																																									.	.	.															.	.	.	.	.
Query SS confidence																	.																																									.	.	.															.	.	.	.	.
Query Sequence		N	T	S	E	G	E	E	A	F	L	L	I	Q	S	E	.	K	M	K	N	D	Y	I	Y	L	S	W	L	A	R	C	Y	I	M	N	K	K	P	R	L	A	W	E	L	Y	L	K	M	E	T	S	G	E	S	F	S	.	.	.	L	L	Q	L	I	A	N	D	C	Y	K	M	G	Q	.	.	.	.	.	F	Y
Query Conservation																	.																																									.	.	.															.	.	.	.	.
Alig confidence																	.																								.																	.	.	.															.	.	.	.	.
Template Conservation																																									.
Template Sequence		D	Y	T	T	V	P	R	I	V	Q	L	L	S	K	S	H	N	A	H	V	R	C	G	T	A	F	A	L	G	I	A	C	A	G	K	G	L	Q	S	.	A	I	D	V	L	D	P	L	T	K	D	P	V	D	F	V	R	Q	A	A	X	I	A	L	S	X	I	L	I	Q	Q	T	E	K	L	N	P	Q	V	A
Template Known Secondary structure		S		S	S					T	T	T	G	G	G		S																T	S	S	S					.										T		S	S															S	T	T			T	T	T		T	T
Template Predicted Secondary structure																																									.
Template SS confidence
		598	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.	.	.		.	.	.	640	.	.	.	.	.	.	.	.	.	650	.	.	.	.	.	.	.	.	.	660	.	.	.	.	.	.	.	.	.	670	.	.	.	.	.	.
		479	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		Y	S	A	K	A	F	D	V	L	E	R	L	D	P	N	P	E	Y	W	E	G	K	R	G	A	C	V	G	I	F
Query Conservation
Alig confidence
Template Conservation
Template Sequence		D	I	N	K	N	F	L	S	V	I	T	N	K	H	Q	E	G	L	A	K	F	G	A	C	V	A	Q	G	I	X
Template Known Secondary structure														S	S	S
Template Predicted Secondary structure
Template SS confidence
		677	.	.	680	.	.	.	.	.	.	.	.	.	690	.	.	.	.	.	.	.	.	.	700	.	.	.	.	.	.