Phyre 2 alignment of P04425 with c2pvpB

Job Description P04425
Confidence 99.91% Date Thu Jan 5 10:58:17 GMT 2012

Rank 32 Aligned Residues 289

% Identity 11% Template c2pvpB_

PDB info PDB header:ligase Chain: B: PDB Molecule:d-alanine-d-alanine ligase; PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori

Resolution 2.40 Å

	Insertion relative to template
	Deletion relative to template
	Catalytic residue from the CSA

Detailed help on interpreting your alignment

	2	.	.	.	.	.	.		.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.									.	.	.	.	70	.	.
Predicted Secondary structure								.																																																										.	.	.	.	.	.	.	.
Query SS confidence								.																																																										.	.	.	.	.	.	.	.
Query Sequence	I	K	L	G	I	V	M	.	D	P	I	A	N	I	N	I	K	K	D	S	S	F	A	M	L	L	E	A	Q	R	R	G	Y	E	L	H	Y	M	E	M	G	D	L	Y	L	I	N	G	E	A	R	A	H	T	R	T	L	N	V	K	Q	N	Y	E	E	.	.	.	.	.	.	.	.	W	F	S	F	V	G	E
Query Conservation								.																																																										.	.	.	.	.	.	.	.
Alig confidence								.																																																										.	.	.	.	.	.	.	.
Template Conservation
Template Sequence	M	E	F	C	V	L	F	G	G	A	S	F	E	H	E	I	S	I	V	S	A	I	A	L	K	G	V	L	K	D	R	I	K	Y	F	I	F	L	D	E	N	H	H	F	Y	L	I	E	E	S	N	M	H	S	K	Y	F	A	Q	I	K	E	K	K	L	P	P	L	I	L	T	H	N	G	L	L	K	N	S	F
Template Known Secondary structure										S	S	T	T																G	G	G									T	T								G	G	G		S						T	G	G	G	G					B				T	T							T
Template Predicted Secondary structure
Template SS confidence
	1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80

	73	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.		.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.					.	.	.	.	.	.	140	.	.	.	.	.	.	.
Predicted Secondary structure																																										.																					.	.	.	.
Query SS confidence																																										.																					.	.	.	.
Query Sequence	Q	D	L	P	L	A	D	L	D	V	I	L	M	R	K	D	P	P	F	D	T	E	F	I	Y	A	T	Y	I	L	E	R	A	E	E	K	G	T	L	I	V	.	N	K	P	Q	S	L	R	D	C	N	E	K	L	F	T	A	W	F	S	D	.	.	.	.	L	T	P	E	T	L	V	T	R	N	K	A	Q	L
Query Conservation																																										.																					.	.	.	.
Alig confidence													.	.	.	.																										.																					.	.	.	.
Template Conservation													.	.	.	.
Template Sequence	L	G	A	K	I	I	E	L	P	L	V	I	.	.	.	.	N	L	V	H	G	G	D	G	E	D	G	K	L	A	S	L	L	E	F	Y	R	I	A	F	I	G	P	R	I	E	A	S	V	L	S	Y	N	K	Y	L	T	K	L	Y	A	K	D	L	G	I	K	T	L	D	Y	V	L	L	N	E	K	N	R	A
Template Known Secondary structure	T									S			.	.	.	.					S					S	S									T	T					S											S											T	T		B									T	T	T
Template Predicted Secondary structure													.	.	.	.
Template SS confidence
	81	.	.	.	.	.	.	.	.	90	.	.					.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.

	148	.	150	.	.	.	.	.			.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.
Predicted Secondary structure									.	.
Query SS confidence									.	.
Query Sequence	K	A	F	W	E	K	H	S	.	.	D	I	I	L	K	P	L	D	G	M	G	G	A	S	I	F	R	V	K	E	G	D	P	N	L	G	V	I	A	E	T	L	T	E	H	G	T	R	Y	C	M	A	Q	N	Y	L	P	A	I	K	D	G	D	K	R	V	L	V	V	D	G	E	P	V	P	Y	C	L	A	R
Query Conservation									.	.
Alig confidence									.	.																																		.	.
Template Conservation																																												.	.
Template Sequence	N	A	L	D	L	M	N	F	N	F	P	F	I	V	K	P	S	N	A	G	S	S	L	G	V	N	V	V	K	E	E	K	E	L	I	Y	A	L	D	S	A	F	E	.	.	Y	S	K	E	V	L	I	E	P	F	I	Q	G	V	K	E	Y	N	L	A	G	C	K	I	K	K	D	F	C	F	S	Y	I	E	E
Template Known Secondary structure				T	T					S							S	S		S	T	T	T	T						S	T												T	.	.	T		S									T	T												T	T								B
Template Predicted Secondary structure																																												.	.
Template SS confidence
	157	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.			200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.

	226	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.					.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.
Predicted Secondary structure																																																			.	.	.	.
Query SS confidence																																																			.	.	.	.
Query Sequence	I	P	Q	G	G	E	T	R	G	N	L	A	A	G	G	R	G	E	P	R	P	L	T	E	S	D	W	K	I	A	R	Q	I	G	P	T	L	K	E	K	G	L	I	F	V	G	L	D	I	I	.	.	.	.	G	D	R	L	T	E	I	N	V	T	S	P	T	C	I	R	E	I	E	A	E	F	P	V	S	I
Query Conservation																																																			.	.	.	.
Alig confidence						.	.	.	.	.	.	.	.	.																													.	.							.	.	.	.
Template Conservation						.	.	.	.	.	.	.	.	.																													.	.
Template Sequence	P	N	K	Q	P	.	.	.	.	.	.	.	.	.	K	A	S	L	S	N	A	L	E	E	Q	L	K	E	N	F	K	K	L	Y	S	D	L	F	D	G	A	I	.	.	I	R	C	D	F	F	V	I	E	N	E	V	Y	L	N	E	I	N	P	I	P	G	S	L	A	N	Y	L	F	D	D	F	K	T	T	L
Template Known Secondary structure	T	T				.	.	.	.	.	.	.	.	.																					T	T	T	T	T	T			.	.									T	T									S	S		G	G	G	G	G	G	G	S	T	T
Template Predicted Secondary structure						.	.	.	.	.	.	.	.	.																													.	.
Template SS confidence
	235	.	.	.	.										240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.			.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.

	302	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence	T	G	M	L	M	D
Query Conservation
Alig confidence
Template Conservation
Template Sequence	E	N	L	A	Q	S
Template Known Secondary structure
Template Predicted Secondary structure
Template SS confidence
	321	.	.	.	.	.

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Phyre is for academic use only

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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Lawrence Kelley, Benjamin Jefferys
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