Job Description P06612 Confidence 100.00% Date Thu Jan 5 10:59:12 GMT 2012 Rank 2 Aligned Residues 567 % Identity 38% Template c2gajA_ PDB info PDB header:isomerase Chain: A: PDB Molecule:dna topoisomerase i; PDBTitle: structure of full length topoisomerase i from thermotoga maritima in2 monoclinic crystal form Resolution 1.95 Å

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		4	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	L	V	I	V	E	S	P	A	K	A	K	T	I	N	K	Y	L	G	S	D	Y	V	V	K	S	S	V	G	H	I	R	D	L	P	T	S	G	S	A	A	K	K	S	A	D	S	T	S	T	K	T	A	K	K	P	K	K	D	E	R	G	A	L	V	N	R	M	G	V	D	P	W	H	N	W	E	A	H	Y
Query Conservation
Alig confidence																																									.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation																																									.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		K	Y	I	V	V	E	S	P	A	K	A	K	T	I	K	S	I	L	G	N	E	Y	E	V	F	A	S	M	G	H	I	I	D	L	P	K	S	K	F	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	G	V	D	L	E	K	D	F	E	P	E	F
Template Known Secondary structure							S													G	G	G	S							S		S			S		S	S	S		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.				T	T	T	T	T
Template Predicted Secondary structure																																									.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
		7	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.																														.	.	.	.	50	.	.	.	.	.	.	.
		84	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		E	V	L	P	G	K	E	K	V	V	S	E	L	K	Q	L	A	E	K	A	D	H	I	Y	L	A	T	D	L	D	R	E	G	E	A	I	A	W	H	L	R	E	V	I	G	G	D	D	A	R	Y	S	R	V	V	F	N	E	I	T	K	N	A	I	R	Q	A	F	N	K	P	G	E	L	N	I	D	R	V	N
Query Conservation
Alig confidence																							.																								.
Template Conservation																							.																								.
Template Sequence		A	V	I	K	G	K	E	K	V	V	E	K	L	K	D	L	A	K	K	G	E	.	L	L	I	A	S	D	M	D	R	E	G	E	A	I	A	W	H	I	A	R	V	T	N	.	T	L	G	R	K	N	R	I	V	F	S	E	I	T	P	R	V	I	R	E	A	V	K	N	P	R	E	I	D	M	K	K	V	R
Template Known Secondary structure					T	T															S		.							S	S															T	.		T	T	S	S		B				S											T	T	S		B
Template Predicted Secondary structure																							.																								.
Template SS confidence
		58	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.		.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.		.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.
		164	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	Q	Q	A	R	R	F	M	D	R	V	V	G	Y	M	V	S	P	L	L	W	K	K	I	A	R	G	L	S	A	G	R	V	Q	S	V	A	V	R	L	V	V	E	R	E	R	E	I	K	A	F	V	P	E	E	F	W	E	V	D	A	S	T	T	T	P	S	G	E	A	L	A	L	Q	V	T	H	Q	N	D
Query Conservation
Alig confidence																																																																							.	.	.	.	.	.	.	.
Template Conservation																																																																							.	.	.	.	.	.	.	.
Template Sequence		A	Q	L	A	R	R	I	L	D	R	I	V	G	Y	S	L	S	P	V	L	W	R	N	F	K	S	N	L	S	A	G	R	V	Q	S	A	T	L	K	L	V	C	D	R	E	R	E	I	L	R	F	V	P	K	K	Y	H	R	I	T	V	N	F	D	G	L	T	A	E	.	.	.	.	.	.	.	.	I	D	V
Template Known Secondary structure																										S				T	T																				T														T	T					.	.	.	.	.	.	.	.
Template Predicted Secondary structure																																																																							.	.	.	.	.	.	.	.
Template SS confidence
		136	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.									.	.	.
		244	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		K	P	F	R	P	V	N	K	E	Q	T	Q	A	A	V	S	L	L	E	K	A	R	Y	S	V	L	E	R	E	D	K	P	T	T	S	K	P	G	A	P	F	I	T	S	T	L	Q	Q	A	A	S	T	R	L	G	F	G	V	K	K	T	M	M	M	A	Q	R	L	Y	E	A	G	Y	I	T	Y	M	R	T	D
Query Conservation
Alig confidence																		.	.	.
Template Conservation																		.	.	.
Template Sequence		K	E	K	K	F	F	D	A	E	T	L	K	E	I	Q	S	.	.	.	I	D	E	L	V	V	E	E	K	K	V	S	V	K	K	F	A	P	P	E	P	F	K	T	S	T	L	Q	Q	E	A	Y	S	K	L	G	F	S	V	S	K	T	M	M	I	A	Q	Q	L	Y	E	G	V	E	T	K	D	G	H	I	A
Template Known Secondary structure		S	S														T	.	.	.																						B																																		S	S
Template Predicted Secondary structure																		.	.	.
Template SS confidence
		208	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.				.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.
		324	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.		.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.
Predicted Secondary structure																																																													.
Query SS confidence																																																													.
Query Sequence		S	T	N	L	S	Q	D	A	V	N	M	V	R	G	Y	I	S	D	N	F	G	K	K	Y	L	P	E	S	P	N	Q	Y	A	S	K	E	N	S	Q	E	A	H	E	A	I	R	P	S	D	V	N	V	M	A	E	S	L	K	D	.	M	E	A	D	A	Q	K	L	Y	Q	L	I	W	R	Q	F	V	A	C	Q
Query Conservation																																																													.
Alig confidence																										.	.	.	.	.	.																														.
Template Conservation																										.	.	.	.	.	.
Template Sequence		F	I	T	Y	M	R	T	D	S	T	R	V	S	D	Y	A	K	E	E	A	R	N	L	I	.	.	.	.	.	.	T	E	V	F	G	E	E	Y	V	G	A	H	E	A	I	R	P	T	N	V	F	M	T	P	E	E	A	G	K	Y	L	N	S	D	Q	K	K	L	Y	E	L	I	W	K	R	F	L	A	S	Q
Template Known Secondary structure			B			S			S																	.	.	.	.	.	.				T		G	G	G	B						B		B	S		T	T	S						T	T	T	S																			T
Template Predicted Secondary structure																										.	.	.	.	.	.
Template SS confidence
		285	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.							.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.
		403	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.			.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Predicted Secondary structure																											.	.
Query SS confidence																											.	.
Query Sequence		M	T	P	A	K	Y	D	S	T	T	L	T	V	G	A	G	D	F	R	L	K	A	R	G	R	.	.	I	L	R	F	D	G	W	T	K	V	M	P	A	L	R	K	G	D	E	D	R	I	L	P	A	V	N	K	G	D	A	L	T	L	V	E	L	T	P	A	Q	H	F	T	K	P	P	A	R	F	S	E	A
Query Conservation																											.	.
Alig confidence																											.	.																			.	.	.	.
Template Conservation																																															.	.	.	.
Template Sequence		M	K	P	S	Q	Y	E	E	T	R	F	V	L	R	T	K	D	G	K	Y	R	F	K	G	T	V	L	K	K	I	F	D	G	Y	E	K	V	W	K	T	E	R	N	T	G	.	.	.	.	E	F	P	F	E	E	G	E	S	V	K	P	V	V	V	K	I	E	E	Q	E	T	K	P	K	P	R	Y	T	E	G
Template Known Secondary structure		B															T	T	S	S														G	G	G	G	T	S						B		.	.	.	.						T	T
Template Predicted Secondary structure																																															.	.	.	.
Template SS confidence
		373	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.					.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.
		481	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560
Predicted Secondary structure
Query SS confidence
Query Sequence		S	L	V	K	E	L	E	K	R	G	I	G	R	P	S	T	Y	A	S	I	I	S	T	I	Q	D	R	G	Y	V	R	V	E	N	R	R	F	Y	A	E	K	M	G	E	I	V	T	D	R	L	E	E	N	F	R	E	L	M	N	Y	D	F	T	A	Q	M	E	N	S	L	D	Q	V	A	N	H	E	A	E	W
Query Conservation
Alig confidence
Template Conservation
Template Sequence		S	L	V	K	E	M	E	R	L	G	I	G	R	P	S	T	Y	A	S	T	I	K	L	L	L	N	R	G	Y	I	K	K	I	R	G	Y	L	Y	P	T	I	V	G	S	V	V	M	D	Y	L	E	K	K	Y	S	D	V	V	S	V	S	F	T	A	E	M	E	K	D	L	D	E	V	E	Q	G	K	K	T	D
Template Known Secondary structure											T		S		T	T	T											T	T	S					T	T					B														S	T	T	T	T	S																T	T	S	S
Template Predicted Secondary structure
Template SS confidence
		449	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.
		561	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.	580	.	.	.	.	.	.	.	.	.	590	.	.	.	.	.	.	.	.	.	600	.	.	.	.	.	.	.	.	.	610	.	.	.	.	.	.	.	.	.	620	.	.	.	.	.	.	.	.	.	630	.	.	.	.	.	.	.	.	.	640
Predicted Secondary structure
Query SS confidence
Query Sequence		K	A	V	L	D	H	F	F	S	D	F	T	Q	Q	L	D	K	A	E	K	D	P	E	E	G	G	M	R	P	N	Q	M	V	L	T	S	I	D	C	P	T	C	G	R	K	M	G	I	R	T	A	S	T	G	V	F	L	G	C	S	G	Y	A	L	P	P	K	E	R	C	K	T	T	I	N	L	V	P	E	N
Query Conservation
Alig confidence																												.	.	.	.	.	.	.	.							.																				.	.	.	.	.	.	.	.	.
Template Conservation																												.	.	.	.	.	.	.	.							.																				.	.	.	.	.	.	.	.	.
Template Sequence		K	I	V	L	R	E	F	Y	E	S	F	S	S	V	F	D	R	N	D	R	I	V	V	D	F	P	.	.	.	.	.	.	.	.	T	N	Q	K	C	S	.	C	G	K	E	M	R	L	S	F	G	K	Y	G	F	Y	L	K	C	E	.	.	.	.	.	.	.	.	.	C	G	K	T	R	S	V	K	N	D	E
Template Known Secondary structure																		T	T									.	.	.	.	.	.	.	.						S	.	S	S									T	T							S	.	.	.	.	.	.	.	.	.	S	S							T	T	S
Template Predicted Secondary structure																												.	.	.	.	.	.	.	.							.																				.	.	.	.	.	.	.	.	.
Template SS confidence
		529	530	.	.	.	.	.	.	.	.	.	540	.	.	.	.	.	.	.	.	.	550	.	.	.	.									.	.	.	.	.	560		.	.	.	.	.	.	.	.	.	570	.	.	.	.	.	.	.	.	.										580	.	.	.	.	.	.	.	.	.	590