Job Description P00914 Confidence 100.00% Date Thu Jan 5 10:57:10 GMT 2012 Rank 8 Aligned Residues 439 % Identity 26% Template c2j4dA_ PDB info PDB header:dna-binding protein Chain: A: PDB Molecule:cryptochrome dash; PDBTitle: cryptochrome 3 from arabidopsis thaliana Resolution 1.9 Å

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		3	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.							.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.
Predicted Secondary structure																																												.	.	.	.	.	.
Query SS confidence																																												.	.	.	.	.	.
Query Sequence		T	H	L	V	W	F	R	Q	D	L	R	L	H	D	N	L	A	L	A	A	A	C	R	N	S	S	A	R	V	L	A	L	Y	I	A	T	P	R	Q	W	A	T	.	.	.	.	.	.	H	N	M	S	P	R	Q	A	E	L	I	N	A	Q	L	N	G	L	Q	I	A	L	A	E	K	G	I	P	L	L	F	R
Query Conservation																																												.	.	.	.	.	.
Alig confidence																													.															.	.	.	.	.	.
Template Conservation																													.
Template Sequence		V	T	I	L	W	F	R	N	D	L	R	V	L	D	N	D	A	L	Y	K	A	W	S	S	S	D	T	.	I	L	P	V	Y	C	L	D	P	R	L	F	H	T	T	H	F	F	N	F	P	K	T	G	A	L	R	G	G	F	L	M	E	C	L	V	D	L	R	K	N	L	M	K	R	G	L	N	L	L	I	R
Template Known Secondary structure								S	S				S	T	T										T		S		.									G	G	G	G	S	B		T	T	T			B	S	S																						T	T
Template Predicted Secondary structure																													.
Template SS confidence
		41	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.		.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.
		77	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.					.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.
Predicted Secondary structure																																																	.	.	.	.
Query SS confidence																																																	.	.	.	.
Query Sequence		E	V	D	D	F	V	A	S	V	E	I	V	K	Q	V	C	A	E	N	S	V	T	H	L	F	Y	N	Y	Q	Y	E	V	N	E	R	A	R	D	V	E	V	E	R	A	L	R	N	.	.	.	.	V	V	C	E	G	F	D	D	S	V	I	L	P	P	G	A	V	M	T	G	N	H	E	M	Y	K	V	F	T
Query Conservation																																																	.	.	.	.
Alig confidence					.	.	.	.																																									.	.	.	.
Template Conservation					.	.	.	.
Template Sequence		S	G	K	.	.	.	.	P	E	E	I	L	P	S	L	A	K	D	F	G	A	R	T	V	F	A	H	K	E	T	C	S	E	E	V	D	V	E	R	L	V	N	Q	G	L	K	R	V	G	N	S	T	K	L	E	L	I	W	G	S	T	M	Y	H	K	D	D	L	P	F	D	V	F	D	L	P	D	V	Y	T
Template Known Secondary structure			S		.	.	.	.													T		S									S																T	T		S	S									S		S	S		G	G	G	S	S	S		G	G	G			S	S
Template Predicted Secondary structure					.	.	.	.
Template SS confidence
		120	.	.					.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.
		153	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.					.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.			220	.	.	.	.	.	.
Predicted Secondary structure																																									.	.	.	.																													.	.
Query SS confidence																																									.	.	.	.																													.	.
Query Sequence		P	F	K	N	A	W	L	K	R	L	R	E	G	M	P	E	C	V	A	A	P	K	V	R	S	S	G	S	I	E	P	S	P	S	I	T	L	N	Y	.	.	.	.	P	R	Q	S	F	D	T	A	H	F	P	V	E	E	K	A	A	I	A	Q	L	R	Q	F	C	Q	N	G	.	.	A	G	E	Y	E	Q	Q
Query Conservation																																									.	.	.	.																													.	.
Alig confidence																																									.	.	.	.																													.	.
Template Conservation
Template Sequence		Q	F	R	K	S	V	E	A	K	C	S	I	R	S	S	T	R	I	P	L	S	L	G	P	T	P	S	V	D	D	W	G	D	V	P	T	L	E	K	L	G	V	E	P	Q	E	V	T	R	G	M	R	F	V	G	G	E	S	A	G	V	G	R	V	F	E	Y	F	W	K	K	D	L	L	K	V	Y	K	E	T
Template Known Secondary structure																			B		S									S								T	T	T	T	T								S							S													T	T	S			G	G	G
Template Predicted Secondary structure
Template SS confidence
		196	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.
		227	.	.		230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.
Predicted Secondary structure					.
Query SS confidence					.
Query Sequence		R	D	F	.	P	A	V	E	G	T	S	R	L	S	A	S	L	A	T	G	G	L	S	P	R	Q	C	L	H	R	L	L	A	E	Q	P	Q	A	L	D	G	G	A	G	S	V	W	L	N	E	L	I	W	R	E	F	Y	R	H	L	I	T	Y	H	P	S	L	C	K	H	R	P	F	I	A	W	T	D	R	V
Query Conservation					.
Alig confidence					.																																																																.
Template Conservation																																																																					.
Template Sequence		R	N	G	M	L	G	P	D	Y	S	T	K	F	S	P	W	L	A	F	G	C	I	S	P	R	F	I	Y	E	E	V	Q	R	Y	E	K	E	R	V	A	N	N	S	T	Y	W	V	L	F	E	L	I	W	R	D	Y	F	R	F	L	S	I	K	C	G	N	S	.	L	F	H	L	G	G	P	R	N	V	Q	G
Template Known Secondary structure		T	T			S	S	S	T	T	S									T	T	S	S																T			S																								G	G	G	.	G	T	S	T	T	T	T	T	T
Template Predicted Secondary structure																																																																					.
Template SS confidence
		276	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.		.	.	.	.	.	.	.	350	.	.	.	.
		306	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		Q	W	Q	S	N	P	A	H	L	Q	A	W	Q	E	G	K	T	G	Y	P	I	V	D	A	A	M	R	Q	L	N	S	T	G	W	M	H	N	R	L	R	M	I	T	A	S	F	L	V	K	D	L	L	I	D	W	R	E	G	E	R	Y	F	M	S	Q	L	I	D	G	D	L	A	A	N	N	G	G	W	Q	W
Query Conservation
Alig confidence
Template Conservation
Template Sequence		K	W	S	Q	D	Q	K	L	F	E	S	W	R	D	A	K	T	G	Y	P	L	I	D	A	N	M	K	E	L	S	T	T	G	F	M	S	N	R	G	R	Q	I	V	C	S	F	L	V	R	D	M	G	L	D	W	R	M	G	A	E	W	F	E	T	C	L	L	D	Y	D	P	C	S	N	Y	G	N	W	T	Y
Template Known Secondary structure				B											T	T		S	S															S																	T	S		B														T	T
Template Predicted Secondary structure
Template SS confidence
		355	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.
		386	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	A	S	T	G	T	D	A	A	P	Y	F	R	I	F	N	P	T	T	Q	G	E	K	F	D	H	E	G	E	F	I	R	Q	W	L	P	E	L	R	D	V	P	G	K	V	V	H	E	P	W	K	W	A	Q	K	A	G	V	T	L	D	Y	P	Q	P	I	V	E	H	K	E
Query Conservation
Alig confidence													.																																										.	.	.	.	.	.	.	.
Template Conservation													.																																										.	.	.	.	.	.	.	.
Template Sequence		G	A	G	V	G	N	D	P	R	E	D	.	R	Y	F	S	I	P	K	Q	A	Q	N	Y	D	P	E	G	E	Y	V	A	F	W	L	Q	Q	L	R	R	L	P	K	E	K	R	H	W	P	G	R	L	M	.	.	.	.	.	.	.	.	Y	M	D	T	V	V	P	L	K	H
Template Known Secondary structure				T		S	S		G	G	G		.														T	T								S	G	G	G	T	T	S		T	T	T	T	T	S						.	.	.	.	.	.	.	.	T				S	S			S
Template Predicted Secondary structure													.																																										.	.	.	.	.	.	.	.
Template SS confidence
		435	.	.	.	.	440	.	.	.	.	.		.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480	.	.	.	.	.	.									.	.	.	490	.	.	.	.	.	.