Job Description A2A690 Confidence 98.45% Date Tue Jul 30 13:13:22 BST 2013 Rank 98 Aligned Residues 365 % Identity 15% Template c1z6tC_ PDB info PDB header:apoptosis Chain: C: PDB Molecule:apoptotic protease activating factor 1; PDBTitle: structure of the apoptotic protease-activating factor 12 bound to adp Resolution 2.21 Å

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		335	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		I	T	T	E	S	V	F	V	G	R	D	W	V	F	H	E	I	D	A	Q	L	Q	S	S	N	A	S	V	N	Q	G	V	V	I	V	G	N	I	G	F	G	K	T	A	I	I	S	R	L	V	A	L	S	C	H	G	T	R	M	R
Query Conservation
Alig confidence																														.																							.	.	.	.	.	.	.	.	.
Template Conservation																														.																							.	.	.	.	.	.	.	.	.
Template Sequence		P	Q	R	P	V	V	F	V	T	R	K	K	L	V	N	A	I	Q	Q	K	L	S	K	L	K	G	E	P	.	G	W	V	T	I	H	G	M	A	G	C	G	K	S	V	L	A	A	E	A	V	R	.	.	.	.	.	.	.	.	.
Template Known Secondary structure						S	S																T	T	S	T	T	S		.									T	T	S	S											.	.	.	.	.	.	.	.	.
Template Predicted Secondary structure																														.																							.	.	.	.	.	.	.	.	.
Template SS confidence
		120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.		.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.
		395	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		Q	I	A	S	D	S	P	H	A	S	P	K	H	V	D	A	N	R	E	L	P	L	T	Q	A	P	S	A	H	S	S	I	T	S	G	S	C	P	G	T	P	E	M	R	R	R	Q	E	E	A	M	R	R	L	A	S	Q	V	V	A
Query Conservation
Alig confidence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	D	H	S	L	L	E	G	C	F	P	G	G	V	H
Template Known Secondary structure		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.										T	T
Template Predicted Secondary structure		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
																																																170	.	.	.	.	.	.	.	.	.	180	.	.	.
		455	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		Y	H	Y	C	Q	A	D	N	A	Y	T	C	L	V	P	E	F	V	H	N	V	A	A	L	L	C	R	S	P	Q	L	T	A	Y	R	E	Q	L	L	R	E	P	H	L	Q	S	M	L	S	L	R	S	C	V	Q	D	P	M	A	S
Query Conservation
Alig confidence										.	.	.	.	.															.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation										.	.	.	.	.															.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		W	V	S	V	G	K	Q	D	.	.	.	.	.	K	S	G	L	L	M	K	L	Q	N	L	C	T	R	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	L	D	Q	D	E	S	F	S	Q	R	L	P	L	N	I	E	E
Template Known Secondary structure							S			.	.	.	.	.															.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.		T	T	T			S		S	S				S
Template Predicted Secondary structure										.	.	.	.	.															.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
		184	.	.	.	.	.	190	.						.	.	.	.	.	.	.	.	200	.	.	.	.	.																	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.
		515	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.	.	.	.	.	.	.	.	.	570	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		F	R	R	G	V	L	E	P	L	E	N	L	H	K	E	R	K	I	P	D	E	D	F	I	I	L	I	D	G	L	N	E	A	E	F	H	K	P	D	Y	G	D	T	I	V	S	F	L	S	K	M	I	G	N	F	P	S	W	L	K
Query Conservation
Alig confidence													.	.	.	.	.	.	.																	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation													.	.	.	.	.	.	.																	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		A	K	D	R	L	R	I	L	M	L	R	.	.	.	.	.	.	.	K	H	P	R	S	L	L	I	L	D	D	V	W	D	S	W	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	V	L	K	A	F	D	S	Q	C	Q
Template Known Secondary structure													.	.	.	.	.	.	.	T		T	T													.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.				T	T		S	S
Template Predicted Secondary structure													.	.	.	.	.	.	.																	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
		223	.	.	.	.	.	.	230	.	.	.								.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.																	250	.	.	.	.	.	.	.	.	.
		575	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		L	I	V	T	V	R	T	S	L	Q	E	I	T	K	L	L	P	F	H	R	I	F	L	D	R	L	E	E	N	E	A	I	D	Q	D	L	Q	A	Y	I	L	H	R	I	H	S	S	S	E	I	Q	N	N	I	S	L	N	G	K	M
Query Conservation
Alig confidence																																																			.	.	.	.	.	.	.	.	.	.	.
Template Conservation																																																			.	.	.	.	.	.	.	.	.	.	.
Template Sequence		I	L	L	T	T	R	D	K	S	V	T	D	S	V	M	G	P	K	Y	V	V	P	V	E	S	S	L	G	K	E	K	G	L	E	I	L	S	L	F	V	N	M	K	K	A	D	L	P	E	.	.	.	.	.	.	.	.	.	.	.
Template Known Secondary structure							S		G	G	G	G	T	T			S									S	S															T	S		G	G	G	S		T	.	.	.	.	.	.	.	.	.	.	.
Template Predicted Secondary structure																																																			.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
		260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.
		635	.	.	.	.	640	.	.	.	.	.	.	.	.	.	650	.	.	.	.	.	.	.	.	.	660	.	.	.	.	.	.	.	.	.	670	.	.	.	.	.											.	.	.	.	680	.	.	.	.
Predicted Secondary structure																																											.	.	.	.	.	.	.	.	.	.
Query SS confidence																																											.	.	.	.	.	.	.	.	.	.
Query Sequence		D	N	T	T	F	G	K	L	S	S	H	L	K	T	L	S	Q	G	S	Y	L	Y	L	K	L	T	F	D	L	I	E	K	G	Y	L	V	L	K	S	S	S	.	.	.	.	.	.	.	.	.	.	Y	K	V	V	P	V	S	L	S
Query Conservation																																											.	.	.	.	.	.	.	.	.	.
Alig confidence		.	.	.	.	.	.	.																																			.	.	.	.	.	.	.	.	.	.
Template Conservation		.	.	.	.	.	.	.
Template Sequence		.	.	.	.	.	.	.	Q	A	H	S	I	I	K	E	C	K	G	S	P	L	V	V	S	L	I	G	A	L	L	R	D	F	P	N	R	W	E	Y	Y	L	K	Q	L	Q	N	K	Q	F	K	R	I	R	K	S	S	S	Y	D	Y
Template Known Secondary structure		.	.	.	.	.	.	.										T	T															S	T	T											S						S	S			S	S
Template Predicted Secondary structure		.	.	.	.	.	.	.
Template SS confidence
									309	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.
		685	.	.	.	.	690	.	.	.	.	.	.	.	.	.	700	.	.	.	.	.	.	.	.	.	710	.	.	.	.	.	.	.	.	.	720	.	.	.	.	.	.	.	.	.	730	.	.	.	.	.	.	.	.	.	740	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		E	V	Y	L	L	Q	C	N	M	K	F	P	T	Q	S	S	F	D	R	V	M	P	L	L	N	V	A	V	A	S	L	H	P	L	T	D	E	H	I	F	Q	A	I	N	A	G	S	I	E	G	T	L	E	W	E	D	F	Q	Q	R
Query Conservation
Alig confidence																																																.	.	.
Template Conservation																																																.	.	.
Template Sequence		E	A	L	D	E	A	M	S	I	S	V	E	M	L	R	E	D	I	K	D	Y	Y	T	D	L	S	I	L	Q	K	D	V	K	V	P	T	K	V	L	C	I	L	W	D	M	E	.	.	.	T	E	E	V	E	D	I	L	Q	E	F
Template Known Secondary structure														T	S											G	G	G			T	T													T			.	.	.
Template Predicted Secondary structure																																																.	.	.
Template SS confidence
		362	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.				.	.	410	.	.	.	.	.	.	.	.
		745	.	.	.	.	750	.	.	.	.	.	.	.	.	.	760	.	.	.	.	.	.	.	.	.	770	.	.	.	.	.	.	.	.	.	780	.	.	.	.	.	.	.	.	.	790	.	.	.	.	.	.	.
Predicted Secondary structure																																																							.	.	.	.	.	.	.
Query SS confidence																																																							.	.	.	.	.	.	.
Query Sequence		M	E	N	L	S	M	F	L	I	K	R	R	D	M	T	R	M	F	V	H	P	S	F	R	E	W	L	I	W	R	E	E	G	E	K	T	K	F	L	C	D	P	R	S	G	H	T	L	L	A	F	W	F	.	.	.	.	.	.	.
Query Conservation																																																							.	.	.	.	.	.	.
Alig confidence																													.	.	.	.	.	.	.																				.	.	.	.	.	.	.
Template Conservation																													.	.	.	.	.	.	.
Template Sequence		V	N	K	S	L	L	F	C	D	R	N	G	K	S	F	R	Y	Y	L	H	D	L	Q	V	D	F	L	.	.	.	.	.	.	.	T	E	K	N	C	S	Q	L	Q	D	L	H	K	K	I	I	T	Q	F	Q	R	Y	H	Q	P	H
Template Known Secondary structure				T	T	S	S						T	T															.	.	.	.	.	.	.				T	G	G	G													T	T	T			G	G
Template Predicted Secondary structure																													.	.	.	.	.	.	.
Template SS confidence
		419	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.								.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.
			798	.	800	.	.	.	.	.	.	.	.	.	810	.	.	.	.	.	.	.	.	.	820	.	.	.	.	.	.	.
Predicted Secondary structure		.
Query SS confidence		.
Query Sequence		.	S	R	Q	E	G	K	L	N	R	Q	Q	T	I	E	L	G	H	H	I	L	K	A	H	I	F	K	G	L	S	K
Query Conservation		.
Alig confidence		.
Template Conservation
Template Sequence		T	L	S	P	D	Q	E	D	C	M	Y	W	Y	N	F	L	A	Y	H	M	A	S	A	K	M	H	K	E	L	C	A
Template Known Secondary structure		G			T	T	S	T	T															T	T
Template Predicted Secondary structure
Template SS confidence
		472	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.