Job Description P33348 Confidence 99.83% Date Thu Jan 5 11:51:49 GMT 2012 Rank 28 Aligned Residues 228 % Identity 20% Template c2zamA_ PDB info PDB header:protein transport Chain: A: PDB Molecule:vacuolar protein sorting-associating protein 4b; PDBTitle: crystal structure of mouse skd1/vps4b apo-form Resolution 3.50 Å

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		56	.	.	.	60	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.															.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120	.
Predicted Secondary structure																						.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence																						.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		S	R	K	V	V	I	S	P	S	A	V	E	R	M	L	V	T	L	A	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	G	R	G	L	M	L	V	G	E	P	G	T	A	K	S	L	L	S	E	L	L	A	T	A	I	S	G	D	A	G	L	T	I	Q	G	G	A	S	T	T	E	D	Q	I	K	Y
Query Conservation																						.	.	.	.	.	.	.	.	.	.	.	.	.	.
Alig confidence																						.	.	.	.	.	.	.	.	.	.	.	.	.	.																										.														.	.	.	.	.	.	.
Template Conservation																																																													.														.	.	.	.	.	.	.
Template Sequence		W	S	D	V	A	G	L	E	G	A	K	E	A	L	K	E	A	V	I	L	P	I	K	F	P	H	L	F	T	G	K	R	T	P	W	R	G	I	L	L	F	G	P	P	G	T	G	K	S	Y	L	A	K	A	V	A	T	E	A	.	N	N	S	T	F	F	S	I	S	S	S	D	L	.	.	.	.	.	.	.
Template Known Secondary structure		G	G	G	S		S												T							G	G	G	S		S	S					S							S	T	T	S													T	.	T	T									S	T	T	.	.	.	.	.	.	.
Template Predicted Secondary structure																																																													.														.	.	.	.	.	.	.
Template SS confidence
		133	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.		.	.	.	.	.	.	.	.	200	.	.	.	.
		122	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.			.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.
Predicted Secondary structure																																											.	.
Query SS confidence																																											.	.
Query Sequence		G	W	N	Y	A	L	L	I	N	H	G	P	S	T	E	A	L	V	P	A	P	L	Y	Q	G	M	R	D	G	K	I	V	R	F	E	E	I	T	R	T	P	.	.	L	E	V	Q	D	C	L	L	G	M	L	S	D	R	V	M	T	G	P	E	L	T	G	E	A	S	Q	L	Y	A	R	E	G	F	N	I	I
Query Conservation																																											.	.
Alig confidence		.	.	.	.	.	.	.	.	.	.																																.	.																	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation		.	.	.	.	.	.	.	.	.	.																																																		.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		.	.	.	.	.	.	.	.	.	.	V	S	S	E	K	L	V	K	N	L	F	Q	L	A	R	E	N	K	P	S	I	I	F	I	D	E	I	D	S	S	E	A	A	R	R	I	K	T	E	F	L	V	Q	M	Q	G	V	G	V	.	.	.	.	.	.	.	.	.	.	.	.	.	D	N	D	G	I	L	V	L
Template Known Secondary structure		.	.	.	.	.	.	.	.	.	.	T				T												T		S							S																				T	S	S	S	.	.	.	.	.	.	.	.	.	.	.	.	.			T	T
Template Predicted Secondary structure		.	.	.	.	.	.	.	.	.	.																																																		.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
												205	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.														.	.	.	.	.	.	260	.
		200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240	.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.
Predicted Secondary structure
Query SS confidence
Query Sequence		A	T	A	N	T	R	D	R	G	V	N	E	M	S	A	A	L	K	R	R	F	D	F	E	T	V	F	P	I	M	D	F	A	Q	E	L	E	L	V	A	S	A	S	A	R	L	L	A	H	S	G	I	P	H	K	V	P	D	A	V	L	E	L	L	V	R	T	F	R	D	L	R	A	N	G	E	K	K	T	S
Query Conservation
Alig confidence										.	.	.	.																																			.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation										.	.	.	.																																			.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Sequence		G	A	T	N	I	P	W	V	.	.	.	.	L	D	S	A	I	R	R	R	F	E	K	R	I	Y	I	P	L	P	E	A	H	A	R	A	A	M	F	R	L	H	L	G	S	T	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	Q	N	S	L	T	E	A	D	F	Q	E
Template Known Secondary structure					S			T	T	.	.	.	.	S									S										S												T	T		.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.		B
Template Predicted Secondary structure										.	.	.	.																																			.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template SS confidence
		276	.	.	.	280	.	.	.					.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.																								.	.	320	.	.	.	.	.	.	.	.
		280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300	.	.	.	.	.																																																		.	.	.	.	310
Predicted Secondary structure																												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query SS confidence																												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Query Sequence		M	D	T	L	T	A	I	M	S	T	A	E	A	V	N	V	A	H	A	V	G	V	R	A	W	F	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	L	A	N	R	A
Query Conservation																												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Alig confidence																												.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Template Conservation
Template Sequence		L	G	R	K	T	D	G	Y	S	G	A	D	I	S	I	I	V	R	D	A	L	M	Q	P	V	R	K	V	Q	S	A	T	H	F	K	K	V	R	G	P	S	R	A	D	P	N	C	I	V	N	D	L	L	T	P	C	S	P	G	D	P	G	A	I	E	M	T	W	M	D	V	P	G	D	K	L	L	E	P	V
Template Known Secondary structure					S			S																							S		S										T	T															S	S	S	T	T						T	T	T	S		T	T	T	B
Template Predicted Secondary structure
Template SS confidence
		329	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360	.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.
		311	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.
Predicted Secondary structure
Query SS confidence
Query Sequence		G	E	P	A	D	L	V	E	C	I	A	G	T	I	V	K	D	N	E	E	D	R	A	R	L	R	R	Y	F	E	Q
Query Conservation
Alig confidence
Template Conservation
Template Sequence		V	S	M	W	D	M	L	R	S	L	S	S	T	K	P	T	V	N	E	Q	D	L	L	K	L	K	K	F	T	E	D
Template Known Secondary structure		B										T	T				S
Template Predicted Secondary structure
Template SS confidence
		409	410	.	.	.	.	.	.	.	.	.	420	.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.

No model constructed - rank, confidence too low

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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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